Citrus Sinensis ID: 043490

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------59
Protein Sequence
FLHSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSKSCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW
Secondary Structure (PSIPRED)
cccccccHHHHHHHHHccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHccccccccEEHHHHHHHHHccccHHHHHHHHHHHHHccccccEEHHHHHHHHccccHHHHHHHHHHHcccccHHHHHHHHHHHHHccHHHHHHHHcccccccEEEHHHHHHHHHHcccHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHcccccHHHHHHHHHHHcHHccccccccccHHHHHHHHHccccHHHHHHHHHHccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHHHccccccccEEEEEEccEEEEEEccccccccHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHccHHHHHHHHHHcccccccccccEEEEcccccccHHHHHHHHHHHHcccEEEEcccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccHHHHHHHHHccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccHHHHHHHHHHcccccEEHHHHHHHHHHHcccHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHcHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEEEccEEEEEEEccccccHHHHHHHHHHHHHHHHHHccccccccEEEEcccHHHHHHHHHHHHHHHHHHHHHHcccccccccccEEEEEccEEcccHHHHHHHHHHHcccEEEEEcccccEEcccccEcccccc
Coil and Loop (DISEMBL)
FLHSTQIYATLFHACALHGNIKQAMQLHEHMinnfpnepqdlfvTNHLINMYAkfgylddarhlfdempkrnvVSWTALISGYAQHGNAEECFRLFCSLLqyffpnefSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSKSCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLqregmapdwcTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSnmnvqpdsATFVSLLSACSHAGLVQEGNKVFHSMLEnhgvvpqldHYACMVDLLGRVGRILEAEKLIrempmepdsVIWSVLLGSCRKHGETRLAELAATKlkqlepgdslgfvqMSNIYCLSGSFNKARLIRKEmkgsrvrkypglswIEIENRVhefasggkrhpqREAIFKKLEELIGQLkgmgyvpetslALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRERSVIRIMKNIRICVDCHNFMKLASDllgkeivvrdsnrfhhfkdricscndyw
Flexible Loop (DISEMBL)
FLHSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSKSCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIrempmepdSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARlirkemkgsrvrkypglsWIEIENRVhefasggkrhpQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGKeivvrdsnrfhhfkdricscndyw
Low Complexity Region (SEG)
FLHSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSKSCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW
Disordered region (IsUnstruct)
****TQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSKSCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFAS*******REAIFKKLEELIGQLKGMGYVPETSLALHDIEE***EEQLYHHSEKLALVFAIMNQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDY*
Disordered Region (DISOPRED)
FLHSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSKSCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW
Disordered Region (DISEMBL)
FLHSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSKSCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW
Disordered Region (DISPRO)
FLHSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSKSCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
FLHSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSKSCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW
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	589	2.2.26 [Sep-21-2011]
Q9C9H9	745	Pentatricopeptide repeat-	yes	no	0.901	0.712	0.485	1e-146
Q9LIQ7	633	Pentatricopeptide repeat-	no	no	0.957	0.890	0.396	1e-126
Q9SY02	781	Pentatricopeptide repeat-	no	no	0.959	0.723	0.394	1e-121
Q9STF3	657	Pentatricopeptide repeat-	no	no	0.962	0.863	0.374	1e-120
Q9SI53	630	Pentatricopeptide repeat-	no	no	0.952	0.890	0.397	1e-120
Q9LIC3	628	Putative pentatricopeptid	no	no	0.952	0.893	0.373	1e-119
Q9LSL8	738	Pentatricopeptide repeat-	no	no	0.901	0.719	0.387	1e-117
Q9LZ19	635	Pentatricopeptide repeat-	no	no	0.950	0.881	0.384	1e-115
Q9LNU6	760	Pentatricopeptide repeat-	no	no	0.966	0.748	0.349	1e-115
Q56XI1	705	Pentatricopeptide repeat-	no	no	0.921	0.770	0.386	1e-114

>sp|Q9C9H9|PP114_ARATH Pentatricopeptide repeat-containing protein At1g71420 OS=Arabidopsis thaliana GN=PCMP-H70 PE=2 SV=1

 Score =  520 bits (1339), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 277/571 (48%), Positives = 381/571 (66%), Gaps = 40/571 (7%)

Query: 42  LFVTNHLINMYAKF---GYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCS 98
           ++V N +I+MY +        +A  +F+ +  +N+V+W ++I+ +      ++   +F  
Sbjct: 192 IYVANAVISMYGRCHDGAAAYEAWTVFEAIKFKNLVTWNSMIAAFQCCNLGKKAIGVF-- 249

Query: 99  LLQYFFPNEFSLASVLISCDYLHGK-------------LVHALALKFSLDAHVYVANALI 145
           +  +     F  A++L  C  L+                +H+L +K  L     VA ALI
Sbjct: 250 MRMHSDGVGFDRATLLNICSSLYKSSDLVPNEVSKCCLQLHSLTVKSGLVTQTEVATALI 309

Query: 146 NMYSKSCAD--EAWKVFENMEF-RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALF 202
            +YS+   D  + +K+F  M   R++++WN +I AF               + + E A+ 
Sbjct: 310 KVYSEMLEDYTDCYKLFMEMSHCRDIVAWNGIITAF--------------AVYDPERAIH 355

Query: 203 LFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYA 262
           LF QL++E ++PDW TFS VLKACAGLVT RHA ++H+ + K GF  DTV+ N+LIHAYA
Sbjct: 356 LFGQLRQEKLSPDWYTFSSVLKACAGLVTARHALSIHAQVIKGGFLADTVLNNSLIHAYA 415

Query: 263 RCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLS 322
           +CGS+ L  +VFD M   D+VSWNS+LKAY+LHGQ    L +F  M++ PDSATF++LLS
Sbjct: 416 KCGSLDLCMRVFDDMDSRDVVSWNSMLKAYSLHGQVDSILPVFQKMDINPDSATFIALLS 475

Query: 323 ACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDS 382
           ACSHAG V+EG ++F SM E    +PQL+HYAC++D+L R  R  EAE++I++MPM+PD+
Sbjct: 476 ACSHAGRVEEGLRIFRSMFEKPETLPQLNHYACVIDMLSRAERFAEAEEVIKQMPMDPDA 535

Query: 383 VIWSVLLGSCRKHGETRLAELAATKLKQL-EPGDSLGFVQMSNIYCLSGSFNKARLIRKE 441
           V+W  LLGSCRKHG TRL +LAA KLK+L EP +S+ ++QMSNIY   GSFN+A L  KE
Sbjct: 536 VVWIALLGSCRKHGNTRLGKLAADKLKELVEPTNSMSYIQMSNIYNAEGSFNEANLSIKE 595

Query: 442 MKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPET-SL 500
           M+  RVRK P LSW EI N+VHEFASGG+  P +EA++++L+ LI  LK MGYVPE  S 
Sbjct: 596 METWRVRKEPDLSWTEIGNKVHEFASGGRHRPDKEAVYRELKRLISWLKEMGYVPEMRSA 655

Query: 501 ALHDIEEEHKEEQLYHHSEKLALVFAIM--NQGSLCRERSVIRIMKNIRICVDCHNFMKL 558
           +    +EE +E+ L HHSEKLAL FA+M   + S C   ++I+IMKN RIC+DCHNFMKL
Sbjct: 656 SQDIEDEEQEEDNLLHHSEKLALAFAVMEGRKSSDC-GVNLIQIMKNTRICIDCHNFMKL 714

Query: 559 ASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
           AS LLGKEI++RDSNRFHHFKD  CSCNDYW
Sbjct: 715 ASKLLGKEILMRDSNRFHHFKDSSCSCNDYW 745

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LIQ7|PP252_ARATH Pentatricopeptide repeat-containing protein At3g24000, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H87 PE=2 SV=1

 Score =  454 bits (1167), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 235/593 (39%), Positives = 362/593 (61%), Gaps = 29/593 (4%)

Query: 6   QIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLF 65
           + Y TL   C +   + Q   +H H++ +      D+ + N L+NMYAK G L++AR +F
Sbjct: 61  RFYNTLLKKCTVFKLLIQGRIVHAHILQSIFR--HDIVMGNTLLNMYAKCGSLEEARKVF 118

Query: 66  DEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQY-FFPNEFSLASVLISCDYLH--- 121
           ++MP+R+ V+WT LISGY+QH    +    F  +L++ + PNEF+L+SV+ +        
Sbjct: 119 EKMPQRDFVTWTTLISGYSQHDRPCDALLFFNQMLRFGYSPNEFTLSSVIKAAAAERRGC 178

Query: 122 -GKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEFRNVISWNSMIAAFR 179
            G  +H   +K   D++V+V +AL+++Y++    D+A  VF+ +E RN +SWN++IA   
Sbjct: 179 CGHQLHGFCVKCGFDSNVHVGSALLDLYTRYGLMDDAQLVFDALESRNDVSWNALIAGH- 237

Query: 180 ACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVH 239
                       A+    E+AL LF+ + R+G  P   +++ +  AC+          VH
Sbjct: 238 ------------ARRSGTEKALELFQGMLRDGFRPSHFSYASLFGACSSTGFLEQGKWVH 285

Query: 240 SLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAK 299
           + + K G +      N L+  YA+ GSI  ++++FD++   D+VSWNS+L AYA HG  K
Sbjct: 286 AYMIKSGEKLVAFAGNTLLDMYAKSGSIHDARKIFDRLAKRDVVSWNSLLTAYAQHGFGK 345

Query: 300 EALQLFSNM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACM 356
           EA+  F  M    ++P+  +F+S+L+ACSH+GL+ EG   ++ +++  G+VP+  HY  +
Sbjct: 346 EAVWWFEEMRRVGIRPNEISFLSVLTACSHSGLLDEGWH-YYELMKKDGIVPEAWHYVTV 404

Query: 357 VDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDS 416
           VDLLGR G +  A + I EMP+EP + IW  LL +CR H  T L   AA  + +L+P D 
Sbjct: 405 VDLLGRAGDLNRALRFIEEMPIEPTAAIWKALLNACRMHKNTELGAYAAEHVFELDPDDP 464

Query: 417 LGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQRE 476
              V + NIY   G +N A  +RK+MK S V+K P  SW+EIEN +H F +  +RHPQRE
Sbjct: 465 GPHVILYNIYASGGRWNDAARVRKKMKESGVKKEPACSWVEIENAIHMFVANDERHPQRE 524

Query: 477 AIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRE 536
            I +K EE++ ++K +GYVP+TS  +  ++++ +E  L +HSEK+AL FA++N       
Sbjct: 525 EIARKWEEVLAKIKELGYVPDTSHVIVHVDQQEREVNLQYHSEKIALAFALLNTPP---- 580

Query: 537 RSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
            S I I KNIR+C DCH  +KLAS ++G+EI+VRD+NRFHHFKD  CSC DYW
Sbjct: 581 GSTIHIKKNIRVCGDCHTAIKLASKVVGREIIVRDTNRFHHFKDGNCSCKDYW 633

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SY02|PP301_ARATH Pentatricopeptide repeat-containing protein At4g02750 OS=Arabidopsis thaliana GN=PCMP-H24 PE=3 SV=1

 Score =  435 bits (1118), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 235/596 (39%), Positives = 352/596 (59%), Gaps = 31/596 (5%)

Query: 1   FLHSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDD 60
              S + +A +   C L G +K+   +      +  N  +D+   N +I  YA+ G +D+
Sbjct: 210 LFKSRENWALVSWNCLLGGFVKKKKIVEARQFFDSMN-VRDVVSWNTIITGYAQSGKIDE 268

Query: 61  ARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYL 120
           AR LFDE P ++V +WTA++SGY Q+   EE   LF  + +    NE S  ++L    Y+
Sbjct: 269 ARQLFDESPVQDVFTWTAMVSGYIQNRMVEEARELFDKMPER---NEVSWNAMLAG--YV 323

Query: 121 HGKLVHALALKFSLDA--HVYVANALINMYSKSCA--DEAWKVFENMEFRNVISWNSMIA 176
            G+ +      F +    +V   N +I  Y++ C    EA  +F+ M  R+ +SW +MIA
Sbjct: 324 QGERMEMAKELFDVMPCRNVSTWNTMITGYAQ-CGKISEAKNLFDKMPKRDPVSWAAMIA 382

Query: 177 AFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHAS 236
            +      +Q+   F       EAL LF Q++REG   +  +FS  L  CA +V      
Sbjct: 383 GY------SQSGHSF-------EALRLFVQMEREGGRLNRSSFSSALSTCADVVALELGK 429

Query: 237 AVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHG 296
            +H  + K G+E    + NAL+  Y +CGSI  +  +F +M   D+VSWN+++  Y+ HG
Sbjct: 430 QLHGRLVKGGYETGCFVGNALLLMYCKCGSIEEANDLFKEMAGKDIVSWNTMIAGYSRHG 489

Query: 297 QAKEALQLFSNM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHY 353
             + AL+ F +M    ++PD AT V++LSACSH GLV +G + F++M +++GV+P   HY
Sbjct: 490 FGEVALRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYFYTMTQDYGVMPNSQHY 549

Query: 354 ACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEP 413
           ACMVDLLGR G + +A  L++ MP EPD+ IW  LLG+ R HG T LAE AA K+  +EP
Sbjct: 550 ACMVDLLGRAGLLEDAHNLMKNMPFEPDAAIWGTLLGASRVHGNTELAETAADKIFAMEP 609

Query: 414 GDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHP 473
            +S  +V +SN+Y  SG +     +R  M+   V+K PG SWIEI+N+ H F+ G + HP
Sbjct: 610 ENSGMYVLLSNLYASSGRWGDVGKLRVRMRDKGVKKVPGYSWIEIQNKTHTFSVGDEFHP 669

Query: 474 QREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSL 533
           +++ IF  LEEL  ++K  GYV +TS+ LHD+EEE KE  + +HSE+LA+ + IM   S 
Sbjct: 670 EKDEIFAFLEELDLRMKKAGYVSKTSVVLHDVEEEEKERMVRYHSERLAVAYGIMRVSS- 728

Query: 534 CRERSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
                 IR++KN+R+C DCHN +K  + + G+ I++RD+NRFHHFKD  CSC DYW
Sbjct: 729 ---GRPIRVIKNLRVCEDCHNAIKYMARITGRLIILRDNNRFHHFKDGSCSCGDYW 781

Arabidopsis thaliana (taxid: 3702)

>sp|Q9STF3|PP265_ARATH Pentatricopeptide repeat-containing protein At3g46790, chloroplastic OS=Arabidopsis thaliana GN=CRR2 PE=2 SV=1

 Score =  431 bits (1109), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 225/601 (37%), Positives = 342/601 (56%), Gaps = 34/601 (5%)

Query: 4   STQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARH 63
           S Q Y  L   C    ++  A+++H H+++N     QD F+   LI MY+  G +D AR 
Sbjct: 76  SQQTYELLILCCGHRSSLSDALRVHRHILDN--GSDQDPFLATKLIGMYSDLGSVDYARK 133

Query: 64  LFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNE-FSLASVLISC----- 117
           +FD+  KR +  W AL       G+ EE   L+  + +    ++ F+   VL +C     
Sbjct: 134 VFDKTRKRTIYVWNALFRALTLAGHGEEVLGLYWKMNRIGVESDRFTYTYVLKACVASEC 193

Query: 118 ---DYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEFRNVISWNS 173
                + GK +HA   +    +HVY+   L++MY++  C D A  VF  M  RNV+SW++
Sbjct: 194 TVNHLMKGKEIHAHLTRRGYSSHVYIMTTLVDMYARFGCVDYASYVFGGMPVRNVVSWSA 253

Query: 174 MIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGM--APDWCTFSIVLKACAGLVT 231
           MIA +             AK     EAL  FR++ RE    +P+  T   VL+ACA L  
Sbjct: 254 MIACY-------------AKNGKAFEALRTFREMMRETKDSSPNSVTMVSVLQACASLAA 300

Query: 232 ERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKA 291
                 +H  I + G +    + +AL+  Y RCG + + ++VFD+M   D+VSWNS++ +
Sbjct: 301 LEQGKLIHGYILRRGLDSILPVISALVTMYGRCGKLEVGQRVFDRMHDRDVVSWNSLISS 360

Query: 292 YALHGQAKEALQLFSNM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP 348
           Y +HG  K+A+Q+F  M      P   TFVS+L ACSH GLV+EG ++F +M  +HG+ P
Sbjct: 361 YGVHGYGKKAIQIFEEMLANGASPTPVTFVSVLGACSHEGLVEEGKRLFETMWRDHGIKP 420

Query: 349 QLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKL 408
           Q++HYACMVDLLGR  R+ EA K++++M  EP   +W  LLGSCR HG   LAE A+ +L
Sbjct: 421 QIEHYACMVDLLGRANRLDEAAKMVQDMRTEPGPKVWGSLLGSCRIHGNVELAERASRRL 480

Query: 409 KQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASG 468
             LEP ++  +V +++IY  +  +++ + ++K ++   ++K PG  W+E+  +++ F S 
Sbjct: 481 FALEPKNAGNYVLLADIYAEAQMWDEVKRVKKLLEHRGLQKLPGRCWMEVRRKMYSFVSV 540

Query: 469 GKRHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIM 528
            + +P  E I   L +L   +K  GY+P+T   L+++E E KE  +  HSEKLAL F ++
Sbjct: 541 DEFNPLMEQIHAFLVKLAEDMKEKGYIPQTKGVLYELETEEKERIVLGHSEKLALAFGLI 600

Query: 529 NQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDY 588
           N      +   IRI KN+R+C DCH F K  S  + KEI+VRD NRFH FK+ +CSC DY
Sbjct: 601 NTS----KGEPIRITKNLRLCEDCHLFTKFISKFMEKEILVRDVNRFHRFKNGVCSCGDY 656

Query: 589 W 589
           W
Sbjct: 657 W 657

Required for the intergenic processing between chloroplast rsp7 and ndhB transcripts.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SI53|PP147_ARATH Pentatricopeptide repeat-containing protein At2g03880, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H44 PE=2 SV=1

 Score =  431 bits (1108), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 234/588 (39%), Positives = 352/588 (59%), Gaps = 27/588 (4%)

Query: 8   YATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDE 67
           Y+ L   C  +  + +   +  H+  N  + P  +F+ N LINMY KF  L+DA  LFD+
Sbjct: 64  YSELIKCCISNRAVHEGNLICRHLYFN-GHRPM-MFLVNVLINMYVKFNLLNDAHQLFDQ 121

Query: 68  MPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQ-YFFPNEFSLASVLISCDYLHG-KLV 125
           MP+RNV+SWT +IS Y++    ++   L   +L+    PN ++ +SVL SC+ +   +++
Sbjct: 122 MPQRNVISWTTMISAYSKCKIHQKALELLVLMLRDNVRPNVYTYSSVLRSCNGMSDVRML 181

Query: 126 HALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLE 184
           H   +K  L++ V+V +ALI++++K    ++A  VF+ M   + I WNS+I  F      
Sbjct: 182 HCGIIKEGLESDVFVRSALIDVFAKLGEPEDALSVFDEMVTGDAIVWNSIIGGF------ 235

Query: 185 AQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAK 244
                  A+    + AL LF++++R G   +  T + VL+AC GL         H  I K
Sbjct: 236 -------AQNSRSDVALELFKRMKRAGFIAEQATLTSVLRACTGLALLELGMQAHVHIVK 288

Query: 245 YGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQL 304
           Y  + D ++ NAL+  Y +CGS+  + +VF++M   D+++W++++   A +G ++EAL+L
Sbjct: 289 Y--DQDLILNNALVDMYCKCGSLEDALRVFNQMKERDVITWSTMISGLAQNGYSQEALKL 346

Query: 305 FSNM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLG 361
           F  M     +P+  T V +L ACSHAGL+++G   F SM + +G+ P  +HY CM+DLLG
Sbjct: 347 FERMKSSGTKPNYITIVGVLFACSHAGLLEDGWYYFRSMKKLYGIDPVREHYGCMIDLLG 406

Query: 362 RVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQ 421
           + G++ +A KL+ EM  EPD+V W  LLG+CR      LAE AA K+  L+P D+  +  
Sbjct: 407 KAGKLDDAVKLLNEMECEPDAVTWRTLLGACRVQRNMVLAEYAAKKVIALDPEDAGTYTL 466

Query: 422 MSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKK 481
           +SNIY  S  ++    IR  M+   ++K PG SWIE+  ++H F  G   HPQ   + KK
Sbjct: 467 LSNIYANSQKWDSVEEIRTRMRDRGIKKEPGCSWIEVNKQIHAFIIGDNSHPQIVEVSKK 526

Query: 482 LEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRERSVIR 541
           L +LI +L G+GYVPET+  L D+E E  E+ L HHSEKLAL F +M   +L  E+ VIR
Sbjct: 527 LNQLIHRLTGIGYVPETNFVLQDLEGEQMEDSLRHHSEKLALAFGLM---TLPIEK-VIR 582

Query: 542 IMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
           I KN+RIC DCH F KLAS L  + IV+RD  R+HHF+D  CSC DYW
Sbjct: 583 IRKNLRICGDCHVFCKLASKLEIRSIVIRDPIRYHHFQDGKCSCGDYW 630

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LIC3|PP227_ARATH Putative pentatricopeptide repeat-containing protein At3g13770, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H85 PE=3 SV=1

 Score =  428 bits (1100), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 222/595 (37%), Positives = 350/595 (58%), Gaps = 34/595 (5%)

Query: 8   YATLFHACALHGNIKQAMQLHEHMINN--FPNEPQDLFVTNHLINMYAKFGYLDDARHLF 65
           Y  L +AC     ++   ++H HMI     P      ++   L+  Y K   L+DAR + 
Sbjct: 55  YDALLNACLDKRALRDGQRVHAHMIKTRYLPAT----YLRTRLLIFYGKCDCLEDARKVL 110

Query: 66  DEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQY-FFPNEFSLASVLISCDYLHG-- 122
           DEMP++NVVSWTA+IS Y+Q G++ E   +F  +++    PNEF+ A+VL SC    G  
Sbjct: 111 DEMPEKNVVSWTAMISRYSQTGHSSEALTVFAEMMRSDGKPNEFTFATVLTSCIRASGLG 170

Query: 123 --KLVHALALKFSLDAHVYVANALINMYSKSCA-DEAWKVFENMEFRNVISWNSMIAAFR 179
             K +H L +K++ D+H++V ++L++MY+K+    EA ++FE +  R+V+S  ++IA + 
Sbjct: 171 LGKQIHGLIVKWNYDSHIFVGSSLLDMYAKAGQIKEAREIFECLPERDVVSCTAIIAGY- 229

Query: 180 ACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVH 239
                       A++  +EEAL +F +L  EGM+P++ T++ +L A +GL    H    H
Sbjct: 230 ------------AQLGLDEEALEMFHRLHSEGMSPNYVTYASLLTALSGLALLDHGKQAH 277

Query: 240 SLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAK 299
             + +       V+ N+LI  Y++CG++S ++++FD M     +SWN++L  Y+ HG  +
Sbjct: 278 CHVLRRELPFYAVLQNSLIDMYSKCGNLSYARRLFDNMPERTAISWNAMLVGYSKHGLGR 337

Query: 300 EALQLFSNMN----VQPDSATFVSLLSACSHAGLVQEGNKVFHSMLEN-HGVVPQLDHYA 354
           E L+LF  M     V+PD+ T +++LS CSH  +   G  +F  M+   +G  P  +HY 
Sbjct: 338 EVLELFRLMRDEKRVKPDAVTLLAVLSGCSHGRMEDTGLNIFDGMVAGEYGTKPGTEHYG 397

Query: 355 CMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPG 414
           C+VD+LGR GRI EA + I+ MP +P + +   LLG+CR H    + E    +L ++EP 
Sbjct: 398 CIVDMLGRAGRIDEAFEFIKRMPSKPTAGVLGSLLGACRVHLSVDIGESVGRRLIEIEPE 457

Query: 415 DSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQ 474
           ++  +V +SN+Y  +G +     +R  M    V K PG SWI+ E  +H F +  + HP+
Sbjct: 458 NAGNYVILSNLYASAGRWADVNNVRAMMMQKAVTKEPGRSWIQHEQTLHYFHANDRTHPR 517

Query: 475 REAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLC 534
           RE +  K++E+  ++K  GYVP+ S  L+D++EE KE+ L  HSEKLAL F ++  G   
Sbjct: 518 REEVLAKMKEISIKMKQAGYVPDLSCVLYDVDEEQKEKMLLGHSEKLALTFGLIATG--- 574

Query: 535 RERSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
            E   IR+ KN+RICVDCHNF K+ S +  +E+ +RD NRFH   D ICSC DYW
Sbjct: 575 -EGIPIRVFKNLRICVDCHNFAKIFSKVFEREVSLRDKNRFHQIVDGICSCGDYW 628

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LSL8|PP446_ARATH Pentatricopeptide repeat-containing protein At5g65570 OS=Arabidopsis thaliana GN=PCMP-H47 PE=2 SV=1

 Score =  421 bits (1082), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 218/563 (38%), Positives = 341/563 (60%), Gaps = 32/563 (5%)

Query: 38  EPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFC 97
           E  ++FV + L++MY KFG   +A+ + D + +++VV  TALI GY+Q G   E  + F 
Sbjct: 197 EVSNVFVGSALVDMYVKFGKTREAKLVLDRVEEKDVVLITALIVGYSQKGEDTEAVKAFQ 256

Query: 98  SLL-QYFFPNEFSLASVLISC----DYLHGKLVHALALKFSLDAHVYVANALINMYSK-S 151
           S+L +   PNE++ ASVLISC    D  +GKL+H L +K   ++ +    +L+ MY + S
Sbjct: 257 SMLVEKVQPNEYTYASVLISCGNLKDIGNGKLIHGLMVKSGFESALASQTSLLTMYLRCS 316

Query: 152 CADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREG 211
             D++ +VF+ +E+ N +SW S+I+                +   EE AL  FR++ R+ 
Sbjct: 317 LVDDSLRVFKCIEYPNQVSWTSLISGL-------------VQNGREEMALIEFRKMMRDS 363

Query: 212 MAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSK 271
           + P+  T S  L+ C+ L        +H ++ KYGF+ D    + LI  Y +CG   +++
Sbjct: 364 IKPNSFTLSSALRGCSNLAMFEEGRQIHGIVTKYGFDRDKYAGSGLIDLYGKCGCSDMAR 423

Query: 272 QVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFS---NMNVQPDSATFVSLLSACSHAG 328
            VFD ++  D++S N+++ +YA +G  +EAL LF    N+ +QP+  T +S+L AC+++ 
Sbjct: 424 LVFDTLSEVDVISLNTMIYSYAQNGFGREALDLFERMINLGLQPNDVTVLSVLLACNNSR 483

Query: 329 LVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVL 388
           LV+EG ++F S  ++  ++   DHYACMVDLLGR GR+ EAE L  E+ + PD V+W  L
Sbjct: 484 LVEEGCELFDSFRKDKIMLTN-DHYACMVDLLGRAGRLEEAEMLTTEV-INPDLVLWRTL 541

Query: 389 LGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVR 448
           L +C+ H +  +AE    K+ ++EPGD    + MSN+Y  +G +N+   ++ +MK  +++
Sbjct: 542 LSACKVHRKVEMAERITRKILEIEPGDEGTLILMSNLYASTGKWNRVIEMKSKMKDMKLK 601

Query: 449 KYPGLSWIEIENRVHEFASGGK-RHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEE 507
           K P +SW+EI    H F +G    HP  E I + LEELI + K +GYV + S    D+EE
Sbjct: 602 KNPAMSWVEINKETHTFMAGDLFSHPNSEQILENLEELIKKSKDLGYVEDKSCVFQDMEE 661

Query: 508 EHKEEQLYHHSEKLALVFAI-MNQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGKE 566
             KE  L+ HSEKLA+ FA+  N G        IRI+KN+R+CVDCH+++K+ S ++ +E
Sbjct: 662 TAKERSLHQHSEKLAIAFAVWRNVG------GSIRILKNLRVCVDCHSWIKIVSRVMKRE 715

Query: 567 IVVRDSNRFHHFKDRICSCNDYW 589
           I+ RDS RFHHF+D  CSC DYW
Sbjct: 716 IICRDSKRFHHFRDGSCSCGDYW 738

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LZ19|PP364_ARATH Pentatricopeptide repeat-containing protein At5g04780 OS=Arabidopsis thaliana GN=PCMP-H16 PE=2 SV=2

 Score =  416 bits (1070), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 226/588 (38%), Positives = 344/588 (58%), Gaps = 28/588 (4%)

Query: 11  LFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK 70
           +   CA +G + +A   H  +I    +   D+ + N LIN Y+K G+++ AR +FD M +
Sbjct: 67  ILQLCARNGAVMEAKACHGKIIR--IDLEGDVTLLNVLINAYSKCGFVELARQVFDGMLE 124

Query: 71  RNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFP-NEFSLASVL----ISCDYLHGKLV 125
           R++VSW  +I  Y ++    E   +F  +    F  +EF+++SVL    ++CD L  K +
Sbjct: 125 RSLVSWNTMIGLYTRNRMESEALDIFLEMRNEGFKFSEFTISSVLSACGVNCDALECKKL 184

Query: 126 HALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLE 184
           H L++K  +D ++YV  AL+++Y+K     +A +VFE+M+ ++ ++W+SM+A +      
Sbjct: 185 HCLSVKTCIDLNLYVGTALLDLYAKCGMIKDAVQVFESMQDKSSVTWSSMVAGY------ 238

Query: 185 AQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAK 244
                   + KN EEAL L+R+ QR  +  +  T S V+ AC+ L        +H++I K
Sbjct: 239 -------VQNKNYEEALLLYRRAQRMSLEQNQFTLSSVICACSNLAALIEGKQMHAVICK 291

Query: 245 YGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQL 304
            GF  +  +A++ +  YA+CGS+  S  +F ++   +L  WN+I+  +A H + KE + L
Sbjct: 292 SGFGSNVFVASSAVDMYAKCGSLRESYIIFSEVQEKNLELWNTIISGFAKHARPKEVMIL 351

Query: 305 FSNM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLG 361
           F  M    + P+  TF SLLS C H GLV+EG + F  M   +G+ P + HY+CMVD+LG
Sbjct: 352 FEKMQQDGMHPNEVTFSSLLSVCGHTGLVEEGRRFFKLMRTTYGLSPNVVHYSCMVDILG 411

Query: 362 RVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQ 421
           R G + EA +LI+ +P +P + IW  LL SCR +    LAE+AA KL +LEP ++   V 
Sbjct: 412 RAGLLSEAYELIKSIPFDPTASIWGSLLASCRVYKNLELAEVAAEKLFELEPENAGNHVL 471

Query: 422 MSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKK 481
           +SNIY  +  + +    RK ++   V+K  G SWI+I+++VH F+ G   HP+   I   
Sbjct: 472 LSNIYAANKQWEEIAKSRKLLRDCDVKKVRGKSWIDIKDKVHTFSVGESGHPRIREICST 531

Query: 482 LEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRERSVIR 541
           L+ L+ + +  GY P     LHD+E   KEE L  HSEKLALVF +M       E S +R
Sbjct: 532 LDNLVIKFRKFGYKPSVEHELHDVEIGKKEELLMQHSEKLALVFGLM----CLPESSPVR 587

Query: 542 IMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
           IMKN+RICVDCH FMK AS    + I+VRD NRFHHF D  CSC D+W
Sbjct: 588 IMKNLRICVDCHEFMKAASMATRRFIIVRDVNRFHHFSDGHCSCGDFW 635

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LNU6|PPR53_ARATH Pentatricopeptide repeat-containing protein At1g20230 OS=Arabidopsis thaliana GN=PCMP-H21 PE=2 SV=2

 Score =  414 bits (1064), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 234/669 (34%), Positives = 355/669 (53%), Gaps = 100/669 (14%)

Query: 1   FLHSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDD 60
            +  + +   LF  CA     K   Q+H   ++       D FV   + +MY + G + D
Sbjct: 112 LIPDSHVLPNLFKVCAELSAFKVGKQIH--CVSCVSGLDMDAFVQGSMFHMYMRCGRMGD 169

Query: 61  ARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQY------------------ 102
           AR +FD M  ++VV+ +AL+  YA+ G  EE  R+   +                     
Sbjct: 170 ARKVFDRMSDKDVVTCSALLCAYARKGCLEEVVRILSEMESSGIEANIVSWNGILSGFNR 229

Query: 103 ------------------FFPNEFSLASVLISC---DYLH-GKLVHALALKFSLDAHVYV 140
                             F P++ +++SVL S    + L+ G+L+H   +K  L     V
Sbjct: 230 SGYHKEAVVMFQKIHHLGFCPDQVTVSSVLPSVGDSEMLNMGRLIHGYVIKQGLLKDKCV 289

Query: 141 ANALINMYSKS--------------------------------CADEAWKVFE-----NM 163
            +A+I+MY KS                                  D+A ++FE      M
Sbjct: 290 ISAMIDMYGKSGHVYGIISLFNQFEMMEAGVCNAYITGLSRNGLVDKALEMFELFKEQTM 349

Query: 164 EFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVL 223
           E  NV+SW S+IA    C    + IE          AL LFR++Q  G+ P+  T   +L
Sbjct: 350 EL-NVVSWTSIIAG---CAQNGKDIE----------ALELFREMQVAGVKPNHVTIPSML 395

Query: 224 KACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLV 283
            AC  +    H  + H    +    D+  + +ALI  YA+CG I+LS+ VF+ M   +LV
Sbjct: 396 PACGNIAALGHGRSTHGFAVRVHLLDNVHVGSALIDMYAKCGRINLSQIVFNMMPTKNLV 455

Query: 284 SWNSILKAYALHGQAKEALQLFSNM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSM 340
            WNS++  +++HG+AKE + +F ++    ++PD  +F SLLSAC   GL  EG K F  M
Sbjct: 456 CWNSLMNGFSMHGKAKEVMSIFESLMRTRLKPDFISFTSLLSACGQVGLTDEGWKYFKMM 515

Query: 341 LENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRL 400
            E +G+ P+L+HY+CMV+LLGR G++ EA  LI+EMP EPDS +W  LL SCR      L
Sbjct: 516 SEEYGIKPRLEHYSCMVNLLGRAGKLQEAYDLIKEMPFEPDSCVWGALLNSCRLQNNVDL 575

Query: 401 AELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIEN 460
           AE+AA KL  LEP +   +V +SNIY   G + +   IR +M+   ++K PG SWI+++N
Sbjct: 576 AEIAAEKLFHLEPENPGTYVLLSNIYAAKGMWTEVDSIRNKMESLGLKKNPGCSWIQVKN 635

Query: 461 RVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEK 520
           RV+   +G K HPQ + I +K++E+  +++  G+ P    ALHD+EE+ +E+ L+ HSEK
Sbjct: 636 RVYTLLAGDKSHPQIDQITEKMDEISKEMRKSGHRPNLDFALHDVEEQEQEQMLWGHSEK 695

Query: 521 LALVFAIMNQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKD 580
           LA+VF ++N      + + ++++KN+RIC DCH  +K  S   G+EI +RD+NRFHHFKD
Sbjct: 696 LAVVFGLLNT----PDGTPLQVIKNLRICGDCHAVIKFISSYAGREIFIRDTNRFHHFKD 751

Query: 581 RICSCNDYW 589
            ICSC D+W
Sbjct: 752 GICSCGDFW 760

Arabidopsis thaliana (taxid: 3702)

>sp|Q56XI1|PPR25_ARATH Pentatricopeptide repeat-containing protein At1g09410 OS=Arabidopsis thaliana GN=PCMP-H18 PE=2 SV=2

 Score =  414 bits (1064), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 224/579 (38%), Positives = 345/579 (59%), Gaps = 36/579 (6%)

Query: 19  GNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTA 78
           G I  A +L+E + +      +D      +I+   K G +D+AR +FDEM +R+V++WT 
Sbjct: 155 GRIDDACKLYEMIPD------KDNIARTSMIHGLCKEGRVDEAREIFDEMSERSVITWTT 208

Query: 79  LISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYL-HGKLVHALALKFSLDAH 137
           +++GY Q+   ++  ++F  + +     E S  S+L+   Y+ +G++  A  L   +   
Sbjct: 209 MVTGYGQNNRVDDARKIFDVMPE---KTEVSWTSMLMG--YVQNGRIEDAEELFEVMPVK 263

Query: 138 VYVA-NALIN-MYSKSCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMK 195
             +A NA+I+ +  K    +A +VF++M+ RN  SW ++I        E    EL     
Sbjct: 264 PVIACNAMISGLGQKGEIAKARRVFDSMKERNDASWQTVIKIH-----ERNGFEL----- 313

Query: 196 NEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIAN 255
              EAL LF  +Q++G+ P + T   +L  CA L +  H   VH+ + +  F+ D  +A+
Sbjct: 314 ---EALDLFILMQKQGVRPTFPTLISILSVCASLASLHHGKQVHAQLVRCQFDVDVYVAS 370

Query: 256 ALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM----NVQ 311
            L+  Y +CG +  SK +FD+    D++ WNSI+  YA HG  +EAL++F  M    + +
Sbjct: 371 VLMTMYIKCGELVKSKLIFDRFPSKDIIMWNSIISGYASHGLGEEALKVFCEMPLSGSTK 430

Query: 312 PDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEK 371
           P+  TFV+ LSACS+AG+V+EG K++ SM    GV P   HYACMVD+LGR GR  EA +
Sbjct: 431 PNEVTFVATLSACSYAGMVEEGLKIYESMESVFGVKPITAHYACMVDMLGRAGRFNEAME 490

Query: 372 LIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGS 431
           +I  M +EPD+ +W  LLG+CR H +  +AE  A KL ++EP +S  ++ +SN+Y   G 
Sbjct: 491 MIDSMTVEPDAAVWGSLLGACRTHSQLDVAEFCAKKLIEIEPENSGTYILLSNMYASQGR 550

Query: 432 FNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGG-KRHPQREAIFKKLEELIGQLK 490
           +     +RK MK   VRK PG SW E+EN+VH F  GG   HP++E+I K L+EL G L+
Sbjct: 551 WADVAELRKLMKTRLVRKSPGCSWTEVENKVHAFTRGGINSHPEQESILKILDELDGLLR 610

Query: 491 GMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRERSVIRIMKNIRICV 550
             GY P+ S ALHD++EE K   L +HSE+LA+ +A++       E   IR+MKN+R+C 
Sbjct: 611 EAGYNPDCSYALHDVDEEEKVNSLKYHSERLAVAYALLK----LSEGIPIRVMKNLRVCS 666

Query: 551 DCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
           DCH  +K+ S +  +EI++RD+NRFHHF++  CSC DYW
Sbjct: 667 DCHTAIKIISKVKEREIILRDANRFHHFRNGECSCKDYW 705

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	589
224135801	527	predicted protein [Populus trichocarpa]	0.882	0.986	0.738	0.0
359493563	741	PREDICTED: pentatricopeptide repeat-cont	0.957	0.761	0.552	0.0
356495756	782	PREDICTED: LOW QUALITY PROTEIN: pentatri	0.959	0.722	0.552	1e-179
357481223	774	Pentatricopeptide repeat-containing prot	0.954	0.726	0.516	1e-168
449458777	629	PREDICTED: pentatricopeptide repeat-cont	0.904	0.847	0.534	1e-166
297734800	538	unnamed protein product [Vitis vinifera]	0.877	0.960	0.496	1e-154
297734798	694	unnamed protein product [Vitis vinifera]	0.840	0.713	0.503	1e-152
297841909	744	pentatricopeptide repeat-containing prot	0.898	0.711	0.498	1e-151
147809821	558	hypothetical protein VITISV_025136 [Viti	0.859	0.906	0.483	1e-147
15217470	745	pentatricopeptide repeat-containing prot	0.901	0.712	0.485	1e-145

>gi|224135801|ref|XP_002327307.1| predicted protein [Populus trichocarpa] gi|222835677|gb|EEE74112.1| predicted protein [Populus trichocarpa]

 Score =  823 bits (2125), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 403/546 (73%), Positives = 450/546 (82%), Gaps = 26/546 (4%)

Query: 51  MYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSL 110
           MYAK G LD AR +FDEM +RNVVSWTALISGYAQHG + ECF LF  +L   +PNEF+ 
Sbjct: 1   MYAKCGDLDRARQVFDEMGRRNVVSWTALISGYAQHGRSYECFSLFSDMLVDCYPNEFAF 60

Query: 111 ASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSKSCAD-------EAWKVFENM 163
           ASV+ISCDY+ GK VHALALK  L A VYV NALI  YSKSC D       EA +VFE+M
Sbjct: 61  ASVIISCDYVCGKQVHALALKMGLIASVYVGNALITRYSKSCEDNFVGYGSEACRVFESM 120

Query: 164 EFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVL 223
           EFRN++SWNSMIAA                   EEEAL LFRQL REG+APDWCTFSIVL
Sbjct: 121 EFRNLVSWNSMIAA-------------------EEEALLLFRQLYREGLAPDWCTFSIVL 161

Query: 224 KACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLV 283
           KACAG VTERHA AV+S + K GFEDD V+AN LIHAYARCGSIS SKQVFDKM   D+V
Sbjct: 162 KACAGFVTERHALAVYSQVVKAGFEDDRVLANTLIHAYARCGSISFSKQVFDKMRSRDVV 221

Query: 284 SWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLEN 343
           SWNS++KAYALHGQAKEAL LFS MNV+PDSAT V+LLSACSHAGLV+EG  +F SM  N
Sbjct: 222 SWNSMIKAYALHGQAKEALHLFSEMNVRPDSATMVALLSACSHAGLVEEGINIFDSMSMN 281

Query: 344 HGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAEL 403
           HGV PQLDHYACMVD+LGR G +LEA +LI  MPM+PDSV+WS LL SCRK+GET+LA+L
Sbjct: 282 HGVSPQLDHYACMVDILGRAGLLLEAGELISRMPMKPDSVVWSALLSSCRKYGETQLAKL 341

Query: 404 AATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVH 463
           AA KLK+LEPG+SLG+VQ+SNIYC  GS+N+A LIR EM GSRVRK PGLSWIEIENRVH
Sbjct: 342 AADKLKELEPGNSLGYVQISNIYCSGGSYNEAGLIRDEMNGSRVRKEPGLSWIEIENRVH 401

Query: 464 EFASGGKRHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLAL 523
           EFASGG+RHPQREAI+ KL  LIGQLKG+GYVPETSLAL DIEEEHK+EQLYHHSEKLAL
Sbjct: 402 EFASGGRRHPQREAIYAKLYSLIGQLKGVGYVPETSLALQDIEEEHKQEQLYHHSEKLAL 461

Query: 524 VFAIMNQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRIC 583
           VFA+M++GSLC    VIRI+KNIRICVDCHNFMKLASDLL KEIVVRDSNRFHHFK+R+C
Sbjct: 462 VFALMSEGSLCCGGGVIRIVKNIRICVDCHNFMKLASDLLQKEIVVRDSNRFHHFKNRMC 521

Query: 584 SCNDYW 589
           SCNDYW
Sbjct: 522 SCNDYW 527

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359493563|ref|XP_002269754.2| PREDICTED: pentatricopeptide repeat-containing protein At1g71420-like [Vitis vinifera]

 Score =  640 bits (1651), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 327/592 (55%), Positives = 420/592 (70%), Gaps = 28/592 (4%)

Query: 8   YATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAK-FGYLDDARHLFD 66
           +A++  AC   G+     Q+H   +    +    ++V N LI MY K  G  D+A ++++
Sbjct: 168 FASVISACG--GDDNCGRQVHALALKTSFDSC--VYVGNALIMMYCKSCGGADEAWNVYE 223

Query: 67  EMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGK--- 123
            M  RN+VSW ++I+G+   G       LF  +       + +    + SC    G    
Sbjct: 224 AMGFRNLVSWNSMIAGFQVCGCGNRALELFSQMHVGGIRFDRATLVSIFSCLCGMGDGLE 283

Query: 124 ---LVHALALKFSLDAHVYVANALINMYSKSCAD--EAWKVFENMEFR-NVISWNSMIAA 177
               +  L +K      + VA AL+  YS    +  + +++F  ++ R +V+SW  +IAA
Sbjct: 284 CCFQLQCLTIKTGFILKIEVATALVKAYSSLGGEVSDCYRIFLELDGRQDVVSWTGIIAA 343

Query: 178 FRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASA 237
           F                ++ ++AL +FRQ  RE +APD   FSIVLKACAGL TERHA  
Sbjct: 344 FAE--------------RDPKKALVIFRQFLRECLAPDRHMFSIVLKACAGLATERHALT 389

Query: 238 VHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQ 297
           V S + K GFEDD V+ANALIHA ARCGS++LSKQVFDKM   D VSWNS+LKAYA+HGQ
Sbjct: 390 VQSHVLKVGFEDDIVLANALIHACARCGSVALSKQVFDKMGSRDTVSWNSMLKAYAMHGQ 449

Query: 298 AKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMV 357
            KEAL LFS M+ QPD ATFV+LLSACSHAG+ +EG K+F +M  NHG+VPQLDHYACMV
Sbjct: 450 GKEALLLFSQMDAQPDGATFVALLSACSHAGMAEEGAKIFETMSNNHGIVPQLDHYACMV 509

Query: 358 DLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSL 417
           D+LGR G+I EA++LI +MPMEPDSV+WS LLGSCRKHGET+LA+LAA KLK+L+P +SL
Sbjct: 510 DILGRAGQISEAKELIDKMPMEPDSVVWSALLGSCRKHGETKLAKLAAVKLKELDPNNSL 569

Query: 418 GFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREA 477
           G+V MSNI+C  G FN+ARLIR+EM+G  VRK PGLSWIE+ N+VHEFASGG++HP++EA
Sbjct: 570 GYVLMSNIFCTDGRFNEARLIRREMEGKIVRKEPGLSWIEVGNQVHEFASGGQQHPEKEA 629

Query: 478 IFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRER 537
           I  +LEEL+ +LK +GYVP+ SLALHDIE+EHKEEQLY+HSEKLAL FA+MN GS+C   
Sbjct: 630 ICARLEELVRRLKDLGYVPQISLALHDIEDEHKEEQLYYHSEKLALAFALMNVGSICCSG 689

Query: 538 SVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
           + I+IMKNIRICVDCHNFMKLAS+L+  EIVVRDSNRFHHFK ++CSCNDYW
Sbjct: 690 NTIKIMKNIRICVDCHNFMKLASELVDMEIVVRDSNRFHHFKAKVCSCNDYW 741

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356495756|ref|XP_003516739.1| PREDICTED: LOW QUALITY PROTEIN: pentatricopeptide repeat-containing protein At1g71420-like [Glycine max]

 Score =  635 bits (1638), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 334/605 (55%), Positives = 423/605 (69%), Gaps = 40/605 (6%)

Query: 8   YATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAK-----FGYL---D 59
           +A+L  AC  H +IK  MQ+H   +    +   +++V N LI MY+K      GY    D
Sbjct: 195 FASLLSACEEH-DIKCGMQVHAVALK--ISLDANVYVANSLITMYSKRSGFGGGYAQTPD 251

Query: 60  DARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLF----CSLLQYFFPNEFSLASVLI 115
           DA  +F  M  RN+VSW ++I+ +   G  ++   LF    C+ + +      S+ S L 
Sbjct: 252 DAWTMFKSMEFRNLVSWNSMIAXFQLRGLGDKAICLFAHMYCNGIGFDRATLLSVFSSLN 311

Query: 116 SC---DYLHGKL-----VHALALKFSLDAHVYVANALINMYSKSCA--DEAWKVFENMEF 165
            C   D ++  L     +H L +K  L + + V  ALI  Y+       + +++F +   
Sbjct: 312 ECGAFDVINTYLRKCFQLHCLTIKSGLISEIEVVTALIKSYANLGGHISDCYRIFHDTSS 371

Query: 166 R-NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLK 224
           + +++SW ++I+ F                ++ E+A  LF QL R+   PDW TFSI LK
Sbjct: 372 QLDIVSWTALISVFAE--------------RDPEQAFLLFCQLHRQSYLPDWYTFSIALK 417

Query: 225 ACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVS 284
           ACA  VTE+HA A+HS + K GF++DTV+ NAL+HAYARCGS++LS+QVF++M  HDLVS
Sbjct: 418 ACAYFVTEQHAMAIHSQVIKKGFQEDTVLCNALMHAYARCGSLALSEQVFNEMGCHDLVS 477

Query: 285 WNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENH 344
           WNS+LK+YA+HGQAK+AL+LF  MNV PDSATFV+LLSACSH GLV EG K+F+SM ++H
Sbjct: 478 WNSMLKSYAIHGQAKDALELFQQMNVCPDSATFVALLSACSHVGLVDEGVKLFNSMSDDH 537

Query: 345 GVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELA 404
           GVVPQLDHY+CMVDL GR G+I EAE+LIR+MPM+PDSVIWS LLGSCRKHGETRLA+LA
Sbjct: 538 GVVPQLDHYSCMVDLYGRAGKIFEAEELIRKMPMKPDSVIWSSLLGSCRKHGETRLAKLA 597

Query: 405 ATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHE 464
           A K K+LEP +SLG+VQMSNIY   GSF KA LIR EM   +VRK PGLSW+EI  +VHE
Sbjct: 598 ADKFKELEPNNSLGYVQMSNIYSSGGSFTKAGLIRNEMSDFKVRKEPGLSWVEIGKQVHE 657

Query: 465 FASGGKRHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALV 524
           F SGG+ HP R AI  +LE +IGQLK MGYVPE SLAL+D E EHKE+QL+HHSEK+ALV
Sbjct: 658 FGSGGQYHPNRGAILSRLEIVIGQLKEMGYVPELSLALYDTEVEHKEDQLFHHSEKMALV 717

Query: 525 FAIMNQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICS 584
           FAIMN+GSL    +VI+IMKNIRICVDCHNFMKLAS L  KEIVVRDSNRFH FK   CS
Sbjct: 718 FAIMNEGSLPCGGNVIKIMKNIRICVDCHNFMKLASYLFQKEIVVRDSNRFHRFKYATCS 777

Query: 585 CNDYW 589
           CNDYW
Sbjct: 778 CNDYW 782

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357481223|ref|XP_003610897.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355512232|gb|AES93855.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  599 bits (1544), Expect = e-168,   Method: Compositional matrix adjust.
 Identities = 316/612 (51%), Positives = 412/612 (67%), Gaps = 50/612 (8%)

Query: 8   YATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAK----FG-----YL 58
           +A++  AC    ++K  +Q+H   +    +    ++V N LI MY+K    FG       
Sbjct: 183 FASVLCACE-EQDVKYGLQVHAAALK--MSLDFSVYVANALITMYSKCSGGFGGSCDQTT 239

Query: 59  DDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLF----CSLLQYFFPNEFSLASVL 114
           DDA  +F  M  RN++SW ++ISG+   G  ++   LF    C+ +++   N  +L  VL
Sbjct: 240 DDAWMVFKSMEYRNLISWNSMISGFQFRGLGDKAIGLFAHMYCNGIRF---NSTTLLGVL 296

Query: 115 ISCDYLHGK--------------LVHALALKFSLDAHVYVANALINMYSKSCA--DEAWK 158
            S ++                   +H L +K  L + V V  AL+  Y+       + +K
Sbjct: 297 SSLNHCMSTSDDINNTHHLKNCFQLHCLTVKSGLISEVEVVTALVKSYADLGGHISDCFK 356

Query: 159 VFENMEFR-NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWC 217
           +F +     +++SW ++I+ F                ++ E+A  LF QL RE    D  
Sbjct: 357 LFLDTSGEHDIVSWTAIISVFAE--------------RDPEQAFLLFCQLHRENFVLDRH 402

Query: 218 TFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKM 277
           TFSI LKACA  VTE++A+ VHS + K GF +DTV++NALIHAY R GS++LS+QVF +M
Sbjct: 403 TFSIALKACAYFVTEKNATEVHSQVMKQGFHNDTVVSNALIHAYGRSGSLALSEQVFTEM 462

Query: 278 TYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVF 337
             HDLVSWNS+LK+YA+HG+AK+AL LF  M+V PDSATFV+LL+ACSHAGLV+EG ++F
Sbjct: 463 GCHDLVSWNSMLKSYAIHGRAKDALDLFKQMDVHPDSATFVALLAACSHAGLVEEGTQIF 522

Query: 338 HSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGE 397
           +SM E+HG+ P LDHY+CMVDL GR G+I EAE+LIR+MPM+PDSVIWS LLGSCRKHGE
Sbjct: 523 NSMTESHGIAPHLDHYSCMVDLYGRAGKIFEAEELIRKMPMKPDSVIWSSLLGSCRKHGE 582

Query: 398 TRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIE 457
             LA+LAA K K L+P +SL ++QMSNIY   GSF +A LIRKEM+ S+VRK PGLSW+E
Sbjct: 583 ADLAKLAADKFKVLDPKNSLAYIQMSNIYSSGGSFIEAGLIRKEMRDSKVRKRPGLSWVE 642

Query: 458 IENRVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHH 517
           +  +VHEF SGG+ HP+R+AI  +LE LIGQLK MGY PE   ALHDIE EH E+QL+HH
Sbjct: 643 VGKQVHEFTSGGQHHPKRQAILSRLETLIGQLKEMGYAPEIGSALHDIEVEHIEDQLFHH 702

Query: 518 SEKLALVFAIMNQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHH 577
           SEK+ALVFAIMN+G      +VI+IMKNIRICVDCHNFMKLAS L  KEIVVRDSNRFHH
Sbjct: 703 SEKMALVFAIMNEGISPCAGNVIKIMKNIRICVDCHNFMKLASKLFQKEIVVRDSNRFHH 762

Query: 578 FKDRICSCNDYW 589
           FK   CSCNDYW
Sbjct: 763 FKYATCSCNDYW 774

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449458777|ref|XP_004147123.1| PREDICTED: pentatricopeptide repeat-containing protein At1g71420-like [Cucumis sativus] gi|449503335|ref|XP_004161951.1| PREDICTED: pentatricopeptide repeat-containing protein At1g71420-like [Cucumis sativus]

 Score =  590 bits (1521), Expect = e-166,   Method: Compositional matrix adjust.
 Identities = 305/571 (53%), Positives = 402/571 (70%), Gaps = 38/571 (6%)

Query: 42  LFVTNHLINMYAKF---------GYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEEC 92
           ++V N LI MY+K             DDA  +F  M   ++++W ++I+G+       + 
Sbjct: 74  VYVANALITMYSKICSEDGAFKDSKDDDAWTMFKSMENPSLITWNSMIAGFCFRKLGHQA 133

Query: 93  FRLFCSLLQYFFP-NEFSLASVLISCDYLH----GKL------VHALALKFSLDAHVYVA 141
             LF  + ++    +  +L S L S  + +    G+       +H  ALK +  + V + 
Sbjct: 134 IYLFMQMNRHGIGFDRATLVSTLSSTSFCNRDEFGRRLSFCHQIHCQALKTAFISEVEII 193

Query: 142 NALINMYSKSCAD--EAWKVFENMEF-RNVISWNSMIAAFRACKLEAQAIELFAKMKNEE 198
            AL+  Y++   D  +++++F    + R+++ W S++AAF                 +  
Sbjct: 194 TALVKTYAELGGDIADSYRLFVEAGYNRDIVLWTSIMAAFID--------------HDPG 239

Query: 199 EALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALI 258
           + L LF Q ++EG+ PD  TFSIVLKACAG +TE+HAS  HSL+ K   ED TV+ NALI
Sbjct: 240 KTLSLFCQFRQEGLTPDGHTFSIVLKACAGFLTEKHASTYHSLLIKSMSEDHTVLNNALI 299

Query: 259 HAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFV 318
           HAY RCGSIS SK+VF++M +HDLVSWN+++KAYALHGQA+ ALQLF+ MNV PD+ TFV
Sbjct: 300 HAYGRCGSISSSKKVFNQMKHHDLVSWNTMMKAYALHGQAEIALQLFTKMNVPPDATTFV 359

Query: 319 SLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPM 378
           SLLSACSHAGLV+EG  +F+S + N+G+V +LDHYACMVD+LGR G++ EA   I  MP+
Sbjct: 360 SLLSACSHAGLVEEGTSLFNS-ITNYGIVCRLDHYACMVDILGRSGQVQEAHDFISNMPI 418

Query: 379 EPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLI 438
           EPD V+WS  LGSCRK+G T LA+LA+ KLK+L+P +SL +VQMSN+YC +GSF +A LI
Sbjct: 419 EPDFVVWSSFLGSCRKYGATGLAKLASYKLKELDPSNSLAYVQMSNLYCFNGSFYEADLI 478

Query: 439 RKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPET 498
           R EM GSRV+K PGLS +EIEN+VHEFASGG+ HPQRE I  +LE+LIG+LK +GYVPET
Sbjct: 479 RMEMTGSRVKKEPGLSRVEIENQVHEFASGGRCHPQREVICNELEKLIGRLKEIGYVPET 538

Query: 499 SLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRERSVIRIMKNIRICVDCHNFMKL 558
           SLALHD+E+E KE+QLYHHSEKLALVF++MN  +L R  + IRIMKNIRICVDCHNFMKL
Sbjct: 539 SLALHDVEQEQKEQQLYHHSEKLALVFSVMNDYNLGRVNNPIRIMKNIRICVDCHNFMKL 598

Query: 559 ASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
           AS LL KEIV+RDSNRFHHF   +CSCNDYW
Sbjct: 599 ASRLLQKEIVIRDSNRFHHFMAGLCSCNDYW 629

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297734800|emb|CBI17034.3| unnamed protein product [Vitis vinifera]

 Score =  553 bits (1425), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 294/592 (49%), Positives = 380/592 (64%), Gaps = 75/592 (12%)

Query: 8   YATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAK-FGYLDDARHLFD 66
           +A++  AC   G+     Q+H   +    +    ++V N LI MY K  G  D+A ++++
Sbjct: 12  FASVISACG--GDDNCGRQVHALALKTSFDSC--VYVGNALIMMYCKSCGGADEAWNVYE 67

Query: 67  EMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGK--- 123
            M  RN+VSW ++I+G+   G       LF  +       + +    + SC    G    
Sbjct: 68  AMGFRNLVSWNSMIAGFQVCGCGNRALELFSQMHVGGIRFDRATLVSIFSCLCGMGDGLE 127

Query: 124 ---LVHALALKFSLDAHVYVANALINMYSKSCAD--EAWKVFENMEFR-NVISWNSMIAA 177
               +  L +K      + VA AL+  YS    +  + +++F  ++ R +V+SW  +IAA
Sbjct: 128 CCFQLQCLTIKTGFILKIEVATALVKAYSSLGGEVSDCYRIFLELDGRQDVVSWTGIIAA 187

Query: 178 FRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASA 237
           F                ++ ++AL +FRQ  RE +APD   FSIVLKACAGL TERHA  
Sbjct: 188 FAE--------------RDPKKALVIFRQFLRECLAPDRHMFSIVLKACAGLATERHALT 233

Query: 238 VHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQ 297
           V S + K GFEDD V+ANALIHA ARCGS++LSKQVFDKM   D VSWNS+LKAYA+HGQ
Sbjct: 234 VQSHVLKVGFEDDIVLANALIHACARCGSVALSKQVFDKMGSRDTVSWNSMLKAYAMHGQ 293

Query: 298 AKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMV 357
            KEAL LFS M+ QPD ATFV+LLSACSHAG+ +EG K+F +M  NHG+VPQLDHYACMV
Sbjct: 294 GKEALLLFSQMDAQPDGATFVALLSACSHAGMAEEGAKIFETMSNNHGIVPQLDHYACMV 353

Query: 358 DLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSL 417
           D+LGR G+I EA++LI +MPMEPDSV+WS LLGSCRKHGET+LA+LAA KLK+L+P +SL
Sbjct: 354 DILGRAGQISEAKELIDKMPMEPDSVVWSALLGSCRKHGETKLAKLAAVKLKELDPNNSL 413

Query: 418 GFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREA 477
           G+V MSNI+C  G FN+ARLIR+EM+G  VRK PGLSWIE+ N+VHEFASGG++HP++EA
Sbjct: 414 GYVLMSNIFCTDGRFNEARLIRREMEGKIVRKEPGLSWIEVGNQVHEFASGGQQHPEKEA 473

Query: 478 IFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRER 537
           I  +LEEL+ +LK +GY                                           
Sbjct: 474 ICARLEELVRRLKDLGY------------------------------------------- 490

Query: 538 SVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
               IMKNIRICVDCHNFMKLAS+L+  EIVVRDSNRFHHFK ++CSCNDYW
Sbjct: 491 ----IMKNIRICVDCHNFMKLASELVDMEIVVRDSNRFHHFKAKVCSCNDYW 538

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297734798|emb|CBI17032.3| unnamed protein product [Vitis vinifera]

 Score =  544 bits (1402), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 282/560 (50%), Positives = 370/560 (66%), Gaps = 65/560 (11%)

Query: 42  LFVTNHLINMYAK-FGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLL 100
           ++V N LI MY +  G  D+A ++++ M  RN+VSW  +I+G+   G       +F  + 
Sbjct: 188 VYVGNVLIMMYCRSCGGTDEAWNVYEAMGFRNLVSWNFMITGFQVCGCGNRALEIFSQM- 246

Query: 101 QYFFPNEFSLASV--LISCDYLHGK------LVHALALKFSLDAHVYVANALINMYSK-- 150
            +F    F  A++  + SC    G        +  L  K    + + V   L+  YS   
Sbjct: 247 -HFGGIRFDRATLVNIFSCLCGMGDGLECCFQLQCLTTKTGFISEIEVPTGLVKAYSSLG 305

Query: 151 SCADEAWKVFENMEFR-NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQR 209
              ++ +++F  ++ R +V+SW  +IA F                ++ EEA  LFRQ  R
Sbjct: 306 GEVNDCYRIFLELDGRQDVVSWTGIIAVFAE--------------RDPEEAFLLFRQFLR 351

Query: 210 EGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISL 269
           E +APD   FSIVLKACAGL TE HA  V S + K GFEDD V+ NALIH  ARCGS++L
Sbjct: 352 ECLAPDRHMFSIVLKACAGLATEGHALTVQSHVLKVGFEDDIVLTNALIHTCARCGSVAL 411

Query: 270 SKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGL 329
           SKQ FDK+   D VSWNS+LKAYA+HGQ KEALQLFS M+ QPD ATFV+L+SACSHAG+
Sbjct: 412 SKQAFDKIGSRDTVSWNSMLKAYAMHGQGKEALQLFSQMDAQPDGATFVALISACSHAGM 471

Query: 330 VQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLL 389
           V+EG K+F +M  NHG+VPQLDHYACMVD+LGR GRI EA++LI +MPMEPDS++WS LL
Sbjct: 472 VEEGAKIFEAMSNNHGIVPQLDHYACMVDILGRAGRIYEAKELIDKMPMEPDSMVWSALL 531

Query: 390 GSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRK 449
           G CRKHGET+ A+LAA KLK+L+P +SLG++ MSNI+  +G FN+ARLIR+EM+   VRK
Sbjct: 532 GGCRKHGETKFAKLAAVKLKELDPNNSLGYILMSNIFSTNGHFNEARLIRREMERKTVRK 591

Query: 450 YPGLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEH 509
            PGLSWI++ N+VHEFASGG++HP++EA+  +LEEL+ QLK +GYVP+ SLALHDIE+EH
Sbjct: 592 EPGLSWIQVGNQVHEFASGGQQHPEKEALCARLEELVRQLKDLGYVPQISLALHDIEDEH 651

Query: 510 KEEQLYHHSEKLALVFAIMNQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGKEIVV 569
           KEEQLY+HSEK+ALVF++MN GS+                                    
Sbjct: 652 KEEQLYYHSEKMALVFSLMNAGSI------------------------------------ 675

Query: 570 RDSNRFHHFKDRICSCNDYW 589
             SNRFHHFK ++CSCNDYW
Sbjct: 676 -YSNRFHHFKAKVCSCNDYW 694

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297841909|ref|XP_002888836.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297334677|gb|EFH65095.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  541 bits (1395), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 285/572 (49%), Positives = 380/572 (66%), Gaps = 43/572 (7%)

Query: 42  LFVTNHLINMYAKF-----GYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLF 96
           ++V N LI+MY +       Y  +A  +F+ M  +N+V+W ++I+ +      ++   +F
Sbjct: 192 IYVANALISMYGRCHDGTAAY--EAWTVFEAMEFKNLVTWNSMIAAFQCCNLGKQAIGVF 249

Query: 97  CSLLQYFFPNEFSLASVLISCDYLHGK-------------LVHALALKFSLDAHVYVANA 143
             +  +     F  A+VL  C  L+                +H+L +K  L     VA A
Sbjct: 250 --MRMHSDGVGFDRATVLNICTTLYKSSDLDPDQVSKCCLQLHSLTVKSGLVTQTEVATA 307

Query: 144 LINMYSKSCAD--EAWKVFENMEF-RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEA 200
           L+ +YS+   +  + +K+F  M   R++++W  +I AF               + + E A
Sbjct: 308 LVKVYSEILGEFTDCYKLFMEMSHCRDIVAWTGIITAF--------------AVYDPERA 353

Query: 201 LFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHA 260
           + LF QL+ E ++PDW TFS VLKACAGLVT RHA ++H+ + K GF  DTV+ N+LIHA
Sbjct: 354 ILLFGQLRHEKLSPDWYTFSSVLKACAGLVTARHALSIHAQVIKGGFATDTVVNNSLIHA 413

Query: 261 YARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSL 320
           YA+CGS+ L K+VFD M   D+VSWNS+LKAY+LHGQ    L +F  M+++PDSATF++L
Sbjct: 414 YAKCGSLDLCKRVFDDMDSRDVVSWNSLLKAYSLHGQVDSILPVFQKMDIKPDSATFIAL 473

Query: 321 LSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEP 380
           LSACSHAG V+EG ++F SM E    +PQL+HYAC++D+LGR  R  EAE++I++MPM P
Sbjct: 474 LSACSHAGRVKEGLRIFRSMFEKPETLPQLNHYACVIDMLGRAERFAEAEEVIKQMPMGP 533

Query: 381 DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRK 440
           D+V+WS LLGSCRKHG T+L +LAA KLK++EP +SL ++QMSNIY    SFN+     K
Sbjct: 534 DAVVWSTLLGSCRKHGNTQLGKLAADKLKEIEPTNSLSYIQMSNIYNAESSFNEGNKSIK 593

Query: 441 EMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPETSL 500
           EM+  RVRK PGLS  EI N+VHEF SGG+  P REAI ++LE LI +LK MGYVPE   
Sbjct: 594 EMETWRVRKEPGLSCTEIGNKVHEFTSGGRCRPDREAICRELERLISRLKEMGYVPEMRS 653

Query: 501 ALHDIEE-EHKEEQLYHHSEKLALVFAIMNQGSLCRERSV--IRIMKNIRICVDCHNFMK 557
           AL  IEE E KEE L HHSEKLAL FA+M +G    +  V  I+IMKNIRIC+DCHNFMK
Sbjct: 654 ALQQIEEDEQKEEHLSHHSEKLALAFAVM-EGRKSGDCGVNLIQIMKNIRICIDCHNFMK 712

Query: 558 LASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
           LAS LLGKEI++RDSNRFHHFKD  CSCNDYW
Sbjct: 713 LASKLLGKEILLRDSNRFHHFKDSSCSCNDYW 744

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147809821|emb|CAN66904.1| hypothetical protein VITISV_025136 [Vitis vinifera]

 Score =  527 bits (1358), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 286/592 (48%), Positives = 370/592 (62%), Gaps = 86/592 (14%)

Query: 8   YATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAK-FGYLDDARHLFD 66
           +A++  AC   G+     Q+H   +    +    ++V N LI MY K  G  D+A ++++
Sbjct: 43  FASVISACG--GDDNCGRQVHALALKTSFDSC--VYVGNALIMMYCKSCGGADEAWNVYE 98

Query: 67  EMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGK--- 123
            M  RN+VSW ++I+G+   G       LF  +       + +    + SC    G    
Sbjct: 99  AMGFRNLVSWNSMIAGFQVCGCGNRALELFSQMHVGGIRFDRATLVSIFSCLCGMGDGLE 158

Query: 124 ---LVHALALKFSLDAHVYVANALINMYSKSCAD--EAWKVFENMEFR-NVISWNSMIAA 177
               +  L +K      + VA AL+  YS    +  + +++F  ++ R +V+SW  +IAA
Sbjct: 159 CCFQLQCLTIKTGFILKIEVATALVKAYSSLGGEVSDCYRIFLELDGRQDVVSWTGIIAA 218

Query: 178 FRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASA 237
           F                ++ ++AL +FRQ  RE +APD    SIVLKACAGL TERHA  
Sbjct: 219 FAE--------------RDPKKALVIFRQFLRECLAPDRHMLSIVLKACAGLATERHALT 264

Query: 238 VHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQ 297
           V S + K GFEDD V+ANALIHA ARCGS++LSKQVFDKM   D VSWNS+LKAYA+HGQ
Sbjct: 265 VQSHVLKVGFEDDIVLANALIHACARCGSVALSKQVFDKMGSRDTVSWNSMLKAYAMHGQ 324

Query: 298 AKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMV 357
           A                         CSHAG+ +EG K+F +M  NHG+VPQLDHYACMV
Sbjct: 325 A-------------------------CSHAGMAEEGAKIFETMSNNHGIVPQLDHYACMV 359

Query: 358 DLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSL 417
           D+LGR G+I EA++LI +MPMEPDSV+WS LLGSCRKH                      
Sbjct: 360 DILGRAGQISEAKELIDKMPMEPDSVVWSALLGSCRKH---------------------- 397

Query: 418 GFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREA 477
                       G FN+ARLIR+EM+G  VRK PGLSWIE+ N+VHEFASGG++HP++EA
Sbjct: 398 -----------DGRFNEARLIRREMEGKIVRKEPGLSWIEVGNQVHEFASGGQQHPEKEA 446

Query: 478 IFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRER 537
           I  +LEEL+ +LK +GYVP+ SLALHDIE+EHKEEQLY+HSEKLAL FA+MN GS+C   
Sbjct: 447 ICARLEELVRRLKDLGYVPQISLALHDIEDEHKEEQLYYHSEKLALAFALMNVGSICCSG 506

Query: 538 SVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
           + I+IMKNIRICVDCHNFMKLAS+L+  EIVVRDSNRFHHFK ++CSCNDYW
Sbjct: 507 NTIKIMKNIRICVDCHNFMKLASELVDMEIVVRDSNRFHHFKAKVCSCNDYW 558

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15217470|ref|NP_177298.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75169716|sp|Q9C9H9.1|PP114_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At1g71420 gi|12323734|gb|AAG51830.1|AC016163_19 hypothetical protein; 56014-58251 [Arabidopsis thaliana] gi|332197078|gb|AEE35199.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  520 bits (1339), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 277/571 (48%), Positives = 381/571 (66%), Gaps = 40/571 (7%)

Query: 42  LFVTNHLINMYAKF---GYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCS 98
           ++V N +I+MY +        +A  +F+ +  +N+V+W ++I+ +      ++   +F  
Sbjct: 192 IYVANAVISMYGRCHDGAAAYEAWTVFEAIKFKNLVTWNSMIAAFQCCNLGKKAIGVF-- 249

Query: 99  LLQYFFPNEFSLASVLISCDYLHGK-------------LVHALALKFSLDAHVYVANALI 145
           +  +     F  A++L  C  L+                +H+L +K  L     VA ALI
Sbjct: 250 MRMHSDGVGFDRATLLNICSSLYKSSDLVPNEVSKCCLQLHSLTVKSGLVTQTEVATALI 309

Query: 146 NMYSKSCAD--EAWKVFENMEF-RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALF 202
            +YS+   D  + +K+F  M   R++++WN +I AF               + + E A+ 
Sbjct: 310 KVYSEMLEDYTDCYKLFMEMSHCRDIVAWNGIITAF--------------AVYDPERAIH 355

Query: 203 LFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYA 262
           LF QL++E ++PDW TFS VLKACAGLVT RHA ++H+ + K GF  DTV+ N+LIHAYA
Sbjct: 356 LFGQLRQEKLSPDWYTFSSVLKACAGLVTARHALSIHAQVIKGGFLADTVLNNSLIHAYA 415

Query: 263 RCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLS 322
           +CGS+ L  +VFD M   D+VSWNS+LKAY+LHGQ    L +F  M++ PDSATF++LLS
Sbjct: 416 KCGSLDLCMRVFDDMDSRDVVSWNSMLKAYSLHGQVDSILPVFQKMDINPDSATFIALLS 475

Query: 323 ACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDS 382
           ACSHAG V+EG ++F SM E    +PQL+HYAC++D+L R  R  EAE++I++MPM+PD+
Sbjct: 476 ACSHAGRVEEGLRIFRSMFEKPETLPQLNHYACVIDMLSRAERFAEAEEVIKQMPMDPDA 535

Query: 383 VIWSVLLGSCRKHGETRLAELAATKLKQL-EPGDSLGFVQMSNIYCLSGSFNKARLIRKE 441
           V+W  LLGSCRKHG TRL +LAA KLK+L EP +S+ ++QMSNIY   GSFN+A L  KE
Sbjct: 536 VVWIALLGSCRKHGNTRLGKLAADKLKELVEPTNSMSYIQMSNIYNAEGSFNEANLSIKE 595

Query: 442 MKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPET-SL 500
           M+  RVRK P LSW EI N+VHEFASGG+  P +EA++++L+ LI  LK MGYVPE  S 
Sbjct: 596 METWRVRKEPDLSWTEIGNKVHEFASGGRHRPDKEAVYRELKRLISWLKEMGYVPEMRSA 655

Query: 501 ALHDIEEEHKEEQLYHHSEKLALVFAIM--NQGSLCRERSVIRIMKNIRICVDCHNFMKL 558
           +    +EE +E+ L HHSEKLAL FA+M   + S C   ++I+IMKN RIC+DCHNFMKL
Sbjct: 656 SQDIEDEEQEEDNLLHHSEKLALAFAVMEGRKSSDC-GVNLIQIMKNTRICIDCHNFMKL 714

Query: 559 ASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
           AS LLGKEI++RDSNRFHHFKD  CSCNDYW
Sbjct: 715 ASKLLGKEILMRDSNRFHHFKDSSCSCNDYW 745

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	589
TAIR|locus:2825364	745	AT1G71420 "AT1G71420" [Arabido	0.901	0.712	0.495	1.2e-138
TAIR|locus:2056794	630	REME1 "required for efficiency	0.952	0.890	0.397	2.6e-111
TAIR|locus:2140235	781	AT4G02750 [Arabidopsis thalian	0.954	0.719	0.396	1.1e-110
TAIR|locus:2102852	657	CRR2 "AT3G46790" [Arabidopsis	0.962	0.863	0.376	6.1e-110
TAIR|locus:2082886	850	EMB2261 "embryo defective 2261	0.950	0.658	0.387	9e-109
TAIR|locus:2091546	628	AT3G13770 [Arabidopsis thalian	0.955	0.896	0.377	2.4e-108
TAIR|locus:2155740	738	AT5G65570 [Arabidopsis thalian	0.901	0.719	0.387	1.5e-106
TAIR|locus:2198546	760	AT1G20230 "AT1G20230" [Arabido	0.733	0.568	0.416	1.9e-106
TAIR|locus:2012295	705	AT1G09410 [Arabidopsis thalian	0.896	0.748	0.392	8.3e-106
TAIR|locus:2103483	890	OTP84 "ORGANELLE TRANSCRIPT PR	0.974	0.644	0.364	1.1e-105

TAIR|locus:2825364 AT1G71420 "AT1G71420" [Arabidopsis thaliana (taxid:3702)]

 Score = 1357 (482.7 bits), Expect = 1.2e-138, P = 1.2e-138
 Identities = 283/571 (49%), Positives = 384/571 (67%)

Query:    42 LFVTNHLINMYAKF--GYLD-DARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCS 98
             ++V N +I+MY +   G    +A  +F+ +  +N+V+W ++I+ +      ++   +F  
Sbjct:   192 IYVANAVISMYGRCHDGAAAYEAWTVFEAIKFKNLVTWNSMIAAFQCCNLGKKAIGVFMR 251

Query:    99 LLQYFFPNEFSLASVLISCDYLH--GKLV-----------HALALKFSLDAHVYVANALI 145
             +  +     F  A++L  C  L+    LV           H+L +K  L     VA ALI
Sbjct:   252 M--HSDGVGFDRATLLNICSSLYKSSDLVPNEVSKCCLQLHSLTVKSGLVTQTEVATALI 309

Query:   146 NMYSKSCAD--EAWKVFENMEF-RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALF 202
              +YS+   D  + +K+F  M   R++++WN +I AF               + + E A+ 
Sbjct:   310 KVYSEMLEDYTDCYKLFMEMSHCRDIVAWNGIITAFA--------------VYDPERAIH 355

Query:   203 LFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYA 262
             LF QL++E ++PDW TFS VLKACAGLVT RHA ++H+ + K GF  DTV+ N+LIHAYA
Sbjct:   356 LFGQLRQEKLSPDWYTFSSVLKACAGLVTARHALSIHAQVIKGGFLADTVLNNSLIHAYA 415

Query:   263 RCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLS 322
             +CGS+ L  +VFD M   D+VSWNS+LKAY+LHGQ    L +F  M++ PDSATF++LLS
Sbjct:   416 KCGSLDLCMRVFDDMDSRDVVSWNSMLKAYSLHGQVDSILPVFQKMDINPDSATFIALLS 475

Query:   323 ACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDS 382
             ACSHAG V+EG ++F SM E    +PQL+HYAC++D+L R  R  EAE++I++MPM+PD+
Sbjct:   476 ACSHAGRVEEGLRIFRSMFEKPETLPQLNHYACVIDMLSRAERFAEAEEVIKQMPMDPDA 535

Query:   383 VIWSVLLGSCRKHGETRLAELAATKLKQL-EPGDSLGFVQMSNIYCLSGSFNKARLIRKE 441
             V+W  LLGSCRKHG TRL +LAA KLK+L EP +S+ ++QMSNIY   GSFN+A L  KE
Sbjct:   536 VVWIALLGSCRKHGNTRLGKLAADKLKELVEPTNSMSYIQMSNIYNAEGSFNEANLSIKE 595

Query:   442 MKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPETSLA 501
             M+  RVRK P LSW EI N+VHEFASGG+  P +EA++++L+ LI  LK MGYVPE   A
Sbjct:   596 METWRVRKEPDLSWTEIGNKVHEFASGGRHRPDKEAVYRELKRLISWLKEMGYVPEMRSA 655

Query:   502 LHDIEEEHKEEQ-LYHHSEKLALVFAIMN--QGSLCRERSVIRIMKNIRICVDCHNFMKL 558
               DIE+E +EE  L HHSEKLAL FA+M   + S C   ++I+IMKN RIC+DCHNFMKL
Sbjct:   656 SQDIEDEEQEEDNLLHHSEKLALAFAVMEGRKSSDCGV-NLIQIMKNTRICIDCHNFMKL 714

Query:   559 ASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
             AS LLGKEI++RDSNRFHHFKD  CSCNDYW
Sbjct:   715 ASKLLGKEILMRDSNRFHHFKDSSCSCNDYW 745

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2056794 REME1 "required for efficiency of mitochondrial editing 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 1099 (391.9 bits), Expect = 2.6e-111, P = 2.6e-111
 Identities = 234/588 (39%), Positives = 352/588 (59%)

Query:     8 YATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDE 67
             Y+ L   C  +  + +   +  H+  N  + P  +F+ N LINMY KF  L+DA  LFD+
Sbjct:    64 YSELIKCCISNRAVHEGNLICRHLYFN-GHRPM-MFLVNVLINMYVKFNLLNDAHQLFDQ 121

Query:    68 MPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQ-YFFPNEFSLASVLISCDYLHG-KLV 125
             MP+RNV+SWT +IS Y++    ++   L   +L+    PN ++ +SVL SC+ +   +++
Sbjct:   122 MPQRNVISWTTMISAYSKCKIHQKALELLVLMLRDNVRPNVYTYSSVLRSCNGMSDVRML 181

Query:   126 HALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLE 184
             H   +K  L++ V+V +ALI++++K    ++A  VF+ M   + I WNS+I  F      
Sbjct:   182 HCGIIKEGLESDVFVRSALIDVFAKLGEPEDALSVFDEMVTGDAIVWNSIIGGF------ 235

Query:   185 AQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAK 244
                    A+    + AL LF++++R G   +  T + VL+AC GL         H  I K
Sbjct:   236 -------AQNSRSDVALELFKRMKRAGFIAEQATLTSVLRACTGLALLELGMQAHVHIVK 288

Query:   245 YGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQL 304
             Y  + D ++ NAL+  Y +CGS+  + +VF++M   D+++W++++   A +G ++EAL+L
Sbjct:   289 Y--DQDLILNNALVDMYCKCGSLEDALRVFNQMKERDVITWSTMISGLAQNGYSQEALKL 346

Query:   305 FSNMN---VQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLG 361
             F  M     +P+  T V +L ACSHAGL+++G   F SM + +G+ P  +HY CM+DLLG
Sbjct:   347 FERMKSSGTKPNYITIVGVLFACSHAGLLEDGWYYFRSMKKLYGIDPVREHYGCMIDLLG 406

Query:   362 RVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQ 421
             + G++ +A KL+ EM  EPD+V W  LLG+CR      LAE AA K+  L+P D+  +  
Sbjct:   407 KAGKLDDAVKLLNEMECEPDAVTWRTLLGACRVQRNMVLAEYAAKKVIALDPEDAGTYTL 466

Query:   422 MSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKK 481
             +SNIY  S  ++    IR  M+   ++K PG SWIE+  ++H F  G   HPQ   + KK
Sbjct:   467 LSNIYANSQKWDSVEEIRTRMRDRGIKKEPGCSWIEVNKQIHAFIIGDNSHPQIVEVSKK 526

Query:   482 LEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRERSVIR 541
             L +LI +L G+GYVPET+  L D+E E  E+ L HHSEKLAL F +M   +L  E+ VIR
Sbjct:   527 LNQLIHRLTGIGYVPETNFVLQDLEGEQMEDSLRHHSEKLALAFGLM---TLPIEK-VIR 582

Query:   542 IMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
             I KN+RIC DCH F KLAS L  + IV+RD  R+HHF+D  CSC DYW
Sbjct:   583 IRKNLRICGDCHVFCKLASKLEIRSIVIRDPIRYHHFQDGKCSCGDYW 630

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

TAIR|locus:2140235 AT4G02750 [Arabidopsis thaliana (taxid:3702)]

 Score = 1093 (389.8 bits), Expect = 1.1e-110, P = 1.1e-110
 Identities = 235/593 (39%), Positives = 352/593 (59%)

Query:     4 STQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARH 63
             S + +A +   C L G +K+   +      +  N  +D+   N +I  YA+ G +D+AR 
Sbjct:   213 SRENWALVSWNCLLGGFVKKKKIVEARQFFDSMNV-RDVVSWNTIITGYAQSGKIDEARQ 271

Query:    64 LFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGK 123
             LFDE P ++V +WTA++SGY Q+   EE   LF  + +    NE S  ++L    Y+ G+
Sbjct:   272 LFDESPVQDVFTWTAMVSGYIQNRMVEEARELFDKMPER---NEVSWNAMLAG--YVQGE 326

Query:   124 LVHALALKFSLDA--HVYVANALINMYSKSCA--DEAWKVFENMEFRNVISWNSMIAAFR 179
              +      F +    +V   N +I  Y++ C    EA  +F+ M  R+ +SW +MIA + 
Sbjct:   327 RMEMAKELFDVMPCRNVSTWNTMITGYAQ-CGKISEAKNLFDKMPKRDPVSWAAMIAGY- 384

Query:   180 ACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVH 239
                  +Q+   F       EAL LF Q++REG   +  +FS  L  CA +V       +H
Sbjct:   385 -----SQSGHSF-------EALRLFVQMEREGGRLNRSSFSSALSTCADVVALELGKQLH 432

Query:   240 SLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAK 299
               + K G+E    + NAL+  Y +CGSI  +  +F +M   D+VSWN+++  Y+ HG  +
Sbjct:   433 GRLVKGGYETGCFVGNALLLMYCKCGSIEEANDLFKEMAGKDIVSWNTMIAGYSRHGFGE 492

Query:   300 EALQLFSNMN---VQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACM 356
              AL+ F +M    ++PD AT V++LSACSH GLV +G + F++M +++GV+P   HYACM
Sbjct:   493 VALRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYFYTMTQDYGVMPNSQHYACM 552

Query:   357 VDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDS 416
             VDLLGR G + +A  L++ MP EPD+ IW  LLG+ R HG T LAE AA K+  +EP +S
Sbjct:   553 VDLLGRAGLLEDAHNLMKNMPFEPDAAIWGTLLGASRVHGNTELAETAADKIFAMEPENS 612

Query:   417 LGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQRE 476
               +V +SN+Y  SG +     +R  M+   V+K PG SWIEI+N+ H F+ G + HP+++
Sbjct:   613 GMYVLLSNLYASSGRWGDVGKLRVRMRDKGVKKVPGYSWIEIQNKTHTFSVGDEFHPEKD 672

Query:   477 AIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRE 536
              IF  LEEL  ++K  GYV +TS+ LHD+EEE KE  + +HSE+LA+ + IM   S    
Sbjct:   673 EIFAFLEELDLRMKKAGYVSKTSVVLHDVEEEEKERMVRYHSERLAVAYGIMRVSS---- 728

Query:   537 RSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
                IR++KN+R+C DCHN +K  + + G+ I++RD+NRFHHFKD  CSC DYW
Sbjct:   729 GRPIRVIKNLRVCEDCHNAIKYMARITGRLIILRDNNRFHHFKDGSCSCGDYW 781

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2102852 CRR2 "AT3G46790" [Arabidopsis thaliana (taxid:3702)]

 Score = 1086 (387.4 bits), Expect = 6.1e-110, P = 6.1e-110
 Identities = 226/601 (37%), Positives = 343/601 (57%)

Query:     4 STQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARH 63
             S Q Y  L   C    ++  A+++H H+++N     QD F+   LI MY+  G +D AR 
Sbjct:    76 SQQTYELLILCCGHRSSLSDALRVHRHILDN--GSDQDPFLATKLIGMYSDLGSVDYARK 133

Query:    64 LFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNE-FSLASVLISC----- 117
             +FD+  KR +  W AL       G+ EE   L+  + +    ++ F+   VL +C     
Sbjct:   134 VFDKTRKRTIYVWNALFRALTLAGHGEEVLGLYWKMNRIGVESDRFTYTYVLKACVASEC 193

Query:   118 ---DYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEFRNVISWNS 173
                  + GK +HA   +    +HVY+   L++MY++  C D A  VF  M  RNV+SW++
Sbjct:   194 TVNHLMKGKEIHAHLTRRGYSSHVYIMTTLVDMYARFGCVDYASYVFGGMPVRNVVSWSA 253

Query:   174 MIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQRE--GMAPDWCTFSIVLKACAGLVT 231
             MIA    C         +AK     EAL  FR++ RE    +P+  T   VL+ACA L  
Sbjct:   254 MIA----C---------YAKNGKAFEALRTFREMMRETKDSSPNSVTMVSVLQACASLAA 300

Query:   232 ERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKA 291
                   +H  I + G +    + +AL+  Y RCG + + ++VFD+M   D+VSWNS++ +
Sbjct:   301 LEQGKLIHGYILRRGLDSILPVISALVTMYGRCGKLEVGQRVFDRMHDRDVVSWNSLISS 360

Query:   292 YALHGQAKEALQLFSNM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP 348
             Y +HG  K+A+Q+F  M      P   TFVS+L ACSH GLV+EG ++F +M  +HG+ P
Sbjct:   361 YGVHGYGKKAIQIFEEMLANGASPTPVTFVSVLGACSHEGLVEEGKRLFETMWRDHGIKP 420

Query:   349 QLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKL 408
             Q++HYACMVDLLGR  R+ EA K++++M  EP   +W  LLGSCR HG   LAE A+ +L
Sbjct:   421 QIEHYACMVDLLGRANRLDEAAKMVQDMRTEPGPKVWGSLLGSCRIHGNVELAERASRRL 480

Query:   409 KQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASG 468
               LEP ++  +V +++IY  +  +++ + ++K ++   ++K PG  W+E+  +++ F S 
Sbjct:   481 FALEPKNAGNYVLLADIYAEAQMWDEVKRVKKLLEHRGLQKLPGRCWMEVRRKMYSFVSV 540

Query:   469 GKRHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIM 528
              + +P  E I   L +L   +K  GY+P+T   L+++E E KE  +  HSEKLAL F ++
Sbjct:   541 DEFNPLMEQIHAFLVKLAEDMKEKGYIPQTKGVLYELETEEKERIVLGHSEKLALAFGLI 600

Query:   529 NQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDY 588
             N      +   IRI KN+R+C DCH F K  S  + KEI+VRD NRFH FK+ +CSC DY
Sbjct:   601 NTS----KGEPIRITKNLRLCEDCHLFTKFISKFMEKEILVRDVNRFHRFKNGVCSCGDY 656

Query:   589 W 589
             W
Sbjct:   657 W 657

GO:0009507 "chloroplast" evidence=ISS

GO:0031425 "chloroplast RNA processing" evidence=IMP

GO:0031426 "polycistronic mRNA processing" evidence=IMP

GO:0000398 "mRNA splicing, via spliceosome" evidence=RCA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=RCA

GO:0030422 "production of siRNA involved in RNA interference" evidence=RCA

GO:0035196 "production of miRNAs involved in gene silencing by miRNA" evidence=RCA

GO:0043687 "post-translational protein modification" evidence=RCA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA

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

 Score = 1075 (383.5 bits), Expect = 9.0e-109, P = 9.0e-109
 Identities = 232/599 (38%), Positives = 354/599 (59%)

Query:     9 ATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKF---GYLDDARHLF 65
             +++F ACA   N+    QLH   I +      D  V   L++MYAK    G +DD R +F
Sbjct:   273 SSVFSACAELENLSLGKQLHSWAIRS--GLVDD--VECSLVDMYAKCSADGSVDDCRKVF 328

Query:    66 DEMPKRNVVSWTALISGYAQHGN-AEECFRLFCSLLQ--YFFPNEFSLASVLISCDYLH- 121
             D M   +V+SWTALI+GY ++ N A E   LF  ++   +  PN F+ +S   +C  L  
Sbjct:   329 DRMEDHSVMSWTALITGYMKNCNLATEAINLFSEMITQGHVEPNHFTFSSAFKACGNLSD 388

Query:   122 ---GKLVHALALKFSLDAHVYVANALINMYSKSCA-DEAWKVFENMEFRNVISWNSMIAA 177
                GK V   A K  L ++  VAN++I+M+ KS   ++A + FE++  +N++S+N+ +  
Sbjct:   389 PRVGKQVLGQAFKRGLASNSSVANSVISMFVKSDRMEDAQRAFESLSEKNLVSYNTFLDG 448

Query:   178 FRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASA 237
                C+       L     N E+A  L  ++    +     TF+ +L   A + + R    
Sbjct:   449 --TCR------NL-----NFEQAFKLLSEITERELGVSAFTFASLLSGVANVGSIRKGEQ 495

Query:   238 VHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQ 297
             +HS + K G   +  + NALI  Y++CGSI  + +VF+ M   +++SW S++  +A HG 
Sbjct:   496 IHSQVVKLGLSCNQPVCNALISMYSKCGSIDTASRVFNFMENRNVISWTSMITGFAKHGF 555

Query:   298 AKEALQLFSNM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYA 354
             A   L+ F+ M    V+P+  T+V++LSACSH GLV EG + F+SM E+H + P+++HYA
Sbjct:   556 AIRVLETFNQMIEEGVKPNEVTYVAILSACSHVGLVSEGWRHFNSMYEDHKIKPKMEHYA 615

Query:   355 CMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPG 414
             CMVDLL R G + +A + I  MP + D ++W   LG+CR H  T L +LAA K+ +L+P 
Sbjct:   616 CMVDLLCRAGLLTDAFEFINTMPFQADVLVWRTFLGACRVHSNTELGKLAARKILELDPN 675

Query:   415 DSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQ 474
             +   ++Q+SNIY  +G + ++  +R++MK   + K  G SWIE+ +++H+F  G   HP 
Sbjct:   676 EPAAYIQLSNIYACAGKWEESTEMRRKMKERNLVKEGGCSWIEVGDKIHKFYVGDTAHPN 735

Query:   475 REAIFKKLEELIGQLKGMGYVPETSLALHDIEEEH----KEEQLYHHSEKLALVFAIMNQ 530
                I+ +L+ LI ++K  GYVP+T L LH +EEE+    KE  LY HSEK+A+ F ++  
Sbjct:   736 AHQIYDELDRLITEIKRCGYVPDTDLVLHKLEEENDEAEKERLLYQHSEKIAVAFGLI-- 793

Query:   531 GSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
              S  + R V R+ KN+R+C DCHN MK  S + G+EIV+RD NRFHHFKD  CSCNDYW
Sbjct:   794 -STSKSRPV-RVFKNLRVCGDCHNAMKYISTVSGREIVLRDLNRFHHFKDGKCSCNDYW 850

GO:0009507 "chloroplast" evidence=ISM

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

TAIR|locus:2091546 AT3G13770 [Arabidopsis thaliana (taxid:3702)]

 Score = 1071 (382.1 bits), Expect = 2.4e-108, P = 2.4e-108
 Identities = 224/593 (37%), Positives = 349/593 (58%)

Query:     8 YATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDE 67
             Y  L +AC     ++   ++H HMI      P     T  LI  Y K   L+DAR + DE
Sbjct:    55 YDALLNACLDKRALRDGQRVHAHMIKT-RYLPATYLRTRLLI-FYGKCDCLEDARKVLDE 112

Query:    68 MPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFF-PNEFSLASVLISCDYLHG---- 122
             MP++NVVSWTA+IS Y+Q G++ E   +F  +++    PNEF+ A+VL SC    G    
Sbjct:   113 MPEKNVVSWTAMISRYSQTGHSSEALTVFAEMMRSDGKPNEFTFATVLTSCIRASGLGLG 172

Query:   123 KLVHALALKFSLDAHVYVANALINMYSKSCA-DEAWKVFENMEFRNVISWNSMIAAFRAC 181
             K +H L +K++ D+H++V ++L++MY+K+    EA ++FE +  R+V+S  ++IA +   
Sbjct:   173 KQIHGLIVKWNYDSHIFVGSSLLDMYAKAGQIKEAREIFECLPERDVVSCTAIIAGY--- 229

Query:   182 KLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSL 241
                       A++  +EEAL +F +L  EGM+P++ T++ +L A +GL    H    H  
Sbjct:   230 ----------AQLGLDEEALEMFHRLHSEGMSPNYVTYASLLTALSGLALLDHGKQAHCH 279

Query:   242 IAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEA 301
             + +       V+ N+LI  Y++CG++S ++++FD M     +SWN++L  Y+ HG  +E 
Sbjct:   280 VLRRELPFYAVLQNSLIDMYSKCGNLSYARRLFDNMPERTAISWNAMLVGYSKHGLGREV 339

Query:   302 LQLFSNMN----VQPDSATFVSLLSACSHAGLVQEGNKVFHSMLEN-HGVVPQLDHYACM 356
             L+LF  M     V+PD+ T +++LS CSH  +   G  +F  M+   +G  P  +HY C+
Sbjct:   340 LELFRLMRDEKRVKPDAVTLLAVLSGCSHGRMEDTGLNIFDGMVAGEYGTKPGTEHYGCI 399

Query:   357 VDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDS 416
             VD+LGR GRI EA + I+ MP +P + +   LLG+CR H    + E    +L ++EP ++
Sbjct:   400 VDMLGRAGRIDEAFEFIKRMPSKPTAGVLGSLLGACRVHLSVDIGESVGRRLIEIEPENA 459

Query:   417 LGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQRE 476
               +V +SN+Y  +G +     +R  M    V K PG SWI+ E  +H F +  + HP+RE
Sbjct:   460 GNYVILSNLYASAGRWADVNNVRAMMMQKAVTKEPGRSWIQHEQTLHYFHANDRTHPRRE 519

Query:   477 AIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRE 536
              +  K++E+  ++K  GYVP+ S  L+D++EE KE+ L  HSEKLAL F ++  G    E
Sbjct:   520 EVLAKMKEISIKMKQAGYVPDLSCVLYDVDEEQKEKMLLGHSEKLALTFGLIATG----E 575

Query:   537 RSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
                IR+ KN+RICVDCHNF K+ S +  +E+ +RD NRFH   D ICSC DYW
Sbjct:   576 GIPIRVFKNLRICVDCHNFAKIFSKVFEREVSLRDKNRFHQIVDGICSCGDYW 628

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2155740 AT5G65570 [Arabidopsis thaliana (taxid:3702)]

 Score = 1054 (376.1 bits), Expect = 1.5e-106, P = 1.5e-106
 Identities = 218/563 (38%), Positives = 341/563 (60%)

Query:    38 EPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFC 97
             E  ++FV + L++MY KFG   +A+ + D + +++VV  TALI GY+Q G   E  + F 
Sbjct:   197 EVSNVFVGSALVDMYVKFGKTREAKLVLDRVEEKDVVLITALIVGYSQKGEDTEAVKAFQ 256

Query:    98 SLL-QYFFPNEFSLASVLISCDYL----HGKLVHALALKFSLDAHVYVANALINMYSK-S 151
             S+L +   PNE++ ASVLISC  L    +GKL+H L +K   ++ +    +L+ MY + S
Sbjct:   257 SMLVEKVQPNEYTYASVLISCGNLKDIGNGKLIHGLMVKSGFESALASQTSLLTMYLRCS 316

Query:   152 CADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREG 211
               D++ +VF+ +E+ N +SW S+I+                +   EE AL  FR++ R+ 
Sbjct:   317 LVDDSLRVFKCIEYPNQVSWTSLISGL-------------VQNGREEMALIEFRKMMRDS 363

Query:   212 MAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSK 271
             + P+  T S  L+ C+ L        +H ++ KYGF+ D    + LI  Y +CG   +++
Sbjct:   364 IKPNSFTLSSALRGCSNLAMFEEGRQIHGIVTKYGFDRDKYAGSGLIDLYGKCGCSDMAR 423

Query:   272 QVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFS---NMNVQPDSATFVSLLSACSHAG 328
              VFD ++  D++S N+++ +YA +G  +EAL LF    N+ +QP+  T +S+L AC+++ 
Sbjct:   424 LVFDTLSEVDVISLNTMIYSYAQNGFGREALDLFERMINLGLQPNDVTVLSVLLACNNSR 483

Query:   329 LVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVL 388
             LV+EG ++F S  ++  ++   DHYACMVDLLGR GR+ EAE L  E+ + PD V+W  L
Sbjct:   484 LVEEGCELFDSFRKDKIMLTN-DHYACMVDLLGRAGRLEEAEMLTTEV-INPDLVLWRTL 541

Query:   389 LGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVR 448
             L +C+ H +  +AE    K+ ++EPGD    + MSN+Y  +G +N+   ++ +MK  +++
Sbjct:   542 LSACKVHRKVEMAERITRKILEIEPGDEGTLILMSNLYASTGKWNRVIEMKSKMKDMKLK 601

Query:   449 KYPGLSWIEIENRVHEFASGGK-RHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEE 507
             K P +SW+EI    H F +G    HP  E I + LEELI + K +GYV + S    D+EE
Sbjct:   602 KNPAMSWVEINKETHTFMAGDLFSHPNSEQILENLEELIKKSKDLGYVEDKSCVFQDMEE 661

Query:   508 EHKEEQLYHHSEKLALVFAIM-NQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGKE 566
               KE  L+ HSEKLA+ FA+  N G        IRI+KN+R+CVDCH+++K+ S ++ +E
Sbjct:   662 TAKERSLHQHSEKLAIAFAVWRNVGGS------IRILKNLRVCVDCHSWIKIVSRVMKRE 715

Query:   567 IVVRDSNRFHHFKDRICSCNDYW 589
             I+ RDS RFHHF+D  CSC DYW
Sbjct:   716 IICRDSKRFHHFRDGSCSCGDYW 738

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2198546 AT1G20230 "AT1G20230" [Arabidopsis thaliana (taxid:3702)]

 Score = 946 (338.1 bits), Expect = 1.9e-106, Sum P(2) = 1.9e-106
 Identities = 191/459 (41%), Positives = 282/459 (61%)

Query:   140 VANALINMYSKS-CADEAWKVFE-----NMEFRNVISWNSMIAAFRACKLEAQAIELFAK 193
             V NA I   S++   D+A ++FE      ME  NV+SW S+IA    C    + IE    
Sbjct:   320 VCNAYITGLSRNGLVDKALEMFELFKEQTMEL-NVVSWTSIIAG---CAQNGKDIE---- 371

Query:   194 MKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVI 253
                   AL LFR++Q  G+ P+  T   +L AC  +    H  + H    +    D+  +
Sbjct:   372 ------ALELFREMQVAGVKPNHVTIPSMLPACGNIAALGHGRSTHGFAVRVHLLDNVHV 425

Query:   254 ANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM---NV 310
              +ALI  YA+CG I+LS+ VF+ M   +LV WNS++  +++HG+AKE + +F ++    +
Sbjct:   426 GSALIDMYAKCGRINLSQIVFNMMPTKNLVCWNSLMNGFSMHGKAKEVMSIFESLMRTRL 485

Query:   311 QPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAE 370
             +PD  +F SLLSAC   GL  EG K F  M E +G+ P+L+HY+CMV+LLGR G++ EA 
Sbjct:   486 KPDFISFTSLLSACGQVGLTDEGWKYFKMMSEEYGIKPRLEHYSCMVNLLGRAGKLQEAY 545

Query:   371 KLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSG 430
              LI+EMP EPDS +W  LL SCR      LAE+AA KL  LEP +   +V +SNIY   G
Sbjct:   546 DLIKEMPFEPDSCVWGALLNSCRLQNNVDLAEIAAEKLFHLEPENPGTYVLLSNIYAAKG 605

Query:   431 SFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLK 490
              + +   IR +M+   ++K PG SWI+++NRV+   +G K HPQ + I +K++E+  +++
Sbjct:   606 MWTEVDSIRNKMESLGLKKNPGCSWIQVKNRVYTLLAGDKSHPQIDQITEKMDEISKEMR 665

Query:   491 GMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRERSVIRIMKNIRICV 550
               G+ P    ALHD+EE+ +E+ L+ HSEKLA+VF ++N      + + ++++KN+RIC 
Sbjct:   666 KSGHRPNLDFALHDVEEQEQEQMLWGHSEKLAVVFGLLNTP----DGTPLQVIKNLRICG 721

Query:   551 DCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
             DCH  +K  S   G+EI +RD+NRFHHFKD ICSC D+W
Sbjct:   722 DCHAVIKFISSYAGREIFIRDTNRFHHFKDGICSCGDFW 760

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2012295 AT1G09410 [Arabidopsis thaliana (taxid:3702)]

 Score = 1047 (373.6 bits), Expect = 8.3e-106, P = 8.3e-106
 Identities = 219/558 (39%), Positives = 336/558 (60%)

Query:    40 QDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSL 99
             +D      +I+   K G +D+AR +FDEM +R+V++WT +++GY Q+   ++  ++F  +
Sbjct:   170 KDNIARTSMIHGLCKEGRVDEAREIFDEMSERSVITWTTMVTGYGQNNRVDDARKIFDVM 229

Query:   100 LQYFFPNEFSLASVLISCDYL-HGKLVHALALKFSLDAHVYVA-NALIN-MYSKSCADEA 156
              +     E S  S+L+   Y+ +G++  A  L   +     +A NA+I+ +  K    +A
Sbjct:   230 PE---KTEVSWTSMLMG--YVQNGRIEDAEELFEVMPVKPVIACNAMISGLGQKGEIAKA 284

Query:   157 WKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDW 216
              +VF++M+ RN  SW ++I        E    EL        EAL LF  +Q++G+ P +
Sbjct:   285 RRVFDSMKERNDASWQTVIKIH-----ERNGFEL--------EALDLFILMQKQGVRPTF 331

Query:   217 CTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDK 276
              T   +L  CA L +  H   VH+ + +  F+ D  +A+ L+  Y +CG +  SK +FD+
Sbjct:   332 PTLISILSVCASLASLHHGKQVHAQLVRCQFDVDVYVASVLMTMYIKCGELVKSKLIFDR 391

Query:   277 MTYHDLVSWNSILKAYALHGQAKEALQLFSNM----NVQPDSATFVSLLSACSHAGLVQE 332
                 D++ WNSI+  YA HG  +EAL++F  M    + +P+  TFV+ LSACS+AG+V+E
Sbjct:   392 FPSKDIIMWNSIISGYASHGLGEEALKVFCEMPLSGSTKPNEVTFVATLSACSYAGMVEE 451

Query:   333 GNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSC 392
             G K++ SM    GV P   HYACMVD+LGR GR  EA ++I  M +EPD+ +W  LLG+C
Sbjct:   452 GLKIYESMESVFGVKPITAHYACMVDMLGRAGRFNEAMEMIDSMTVEPDAAVWGSLLGAC 511

Query:   393 RKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPG 452
             R H +  +AE  A KL ++EP +S  ++ +SN+Y   G +     +RK MK   VRK PG
Sbjct:   512 RTHSQLDVAEFCAKKLIEIEPENSGTYILLSNMYASQGRWADVAELRKLMKTRLVRKSPG 571

Query:   453 LSWIEIENRVHEFASGG-KRHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKE 511
              SW E+EN+VH F  GG   HP++E+I K L+EL G L+  GY P+ S ALHD++EE K 
Sbjct:   572 CSWTEVENKVHAFTRGGINSHPEQESILKILDELDGLLREAGYNPDCSYALHDVDEEEKV 631

Query:   512 EQLYHHSEKLALVFAIMNQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRD 571
               L +HSE+LA+ +A++       E   IR+MKN+R+C DCH  +K+ S +  +EI++RD
Sbjct:   632 NSLKYHSERLAVAYALLKLS----EGIPIRVMKNLRVCSDCHTAIKIISKVKEREIILRD 687

Query:   572 SNRFHHFKDRICSCNDYW 589
             +NRFHHF++  CSC DYW
Sbjct:   688 ANRFHHFRNGECSCKDYW 705

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 1046 (373.3 bits), Expect = 1.1e-105, P = 1.1e-105
 Identities = 216/592 (36%), Positives = 343/592 (57%)

Query:     9 ATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEM 68
             +++  AC+    ++   +LH + + N   + ++ FV + L++MY     +   R +FD M
Sbjct:   306 SSVLPACSHLEMLRTGKELHAYALKNGSLD-ENSFVGSALVDMYCNCKQVLSGRRVFDGM 364

Query:    69 PKRNVVSWTALISGYAQHGNAEECFRLFCSLLQY--FFPNEFSLASVLISC----DYLHG 122
               R +  W A+I+GY+Q+ + +E   LF  + +      N  ++A V+ +C     +   
Sbjct:   365 FDRKIGLWNAMIAGYSQNEHDKEALLLFIGMEESAGLLANSTTMAGVVPACVRSGAFSRK 424

Query:   123 KLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEFRNVISWNSMIAAFRAC 181
             + +H   +K  LD   +V N L++MYS+    D A ++F  ME R++++WN+MI  +   
Sbjct:   425 EAIHGFVVKRGLDRDRFVQNTLMDMYSRLGKIDIAMRIFGKMEDRDLVTWNTMITGYVFS 484

Query:   182 KLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSL 241
             +    A+ L  KM+N E  +   +   R  + P+  T   +L +CA L        +H+ 
Sbjct:   485 EHHEDALLLLHKMQNLERKVS--KGASRVSLKPNSITLMTILPSCAALSALAKGKEIHAY 542

Query:   242 IAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEA 301
               K     D  + +AL+  YA+CG + +S++VFD++   ++++WN I+ AY +HG  +EA
Sbjct:   543 AIKNNLATDVAVGSALVDMYAKCGCLQMSRKVFDQIPQKNVITWNVIIMAYGMHGNGQEA 602

Query:   302 LQLFSNMNVQ---PDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVD 358
             + L   M VQ   P+  TF+S+ +ACSH+G+V EG ++F+ M  ++GV P  DHYAC+VD
Sbjct:   603 IDLLRMMMVQGVKPNEVTFISVFAACSHSGMVDEGLRIFYVMKPDYGVEPSSDHYACVVD 662

Query:   359 LLGRVGRILEAEKLIREMPMEPDSV-IWSVLLGSCRKHGETRLAELAATKLKQLEPGDSL 417
             LLGR GRI EA +L+  MP + +    WS LLG+ R H    + E+AA  L QLEP  + 
Sbjct:   663 LLGRAGRIKEAYQLMNMMPRDFNKAGAWSSLLGASRIHNNLEIGEIAAQNLIQLEPNVAS 722

Query:   418 GFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREA 477
              +V ++NIY  +G ++KA  +R+ MK   VRK PG SWIE  + VH+F +G   HPQ E 
Sbjct:   723 HYVLLANIYSSAGLWDKATEVRRNMKEQGVRKEPGCSWIEHGDEVHKFVAGDSSHPQSEK 782

Query:   478 IFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRER 537
             +   LE L  +++  GYVP+TS  LH++EE+ KE  L  HSEKLA+ F I+N        
Sbjct:   783 LSGYLETLWERMRKEGYVPDTSCVLHNVEEDEKEILLCGHSEKLAIAFGILNTSP----G 838

Query:   538 SVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
             ++IR+ KN+R+C DCH   K  S ++ +EI++RD  RFH FK+  CSC DYW
Sbjct:   839 TIIRVAKNLRVCNDCHLATKFISKIVDREIILRDVRRFHRFKNGTCSCGDYW 890

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" 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

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh4_pg.C_scaffold_41000228 hypothetical protein (527 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	589
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-141
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-129
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-49
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-37
pfam14432	116	pfam14432, DYW_deaminase, DYW family of nucleic ac	3e-21
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-17
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.001
pfam01535	31	pfam01535, PPR, PPR repeat	0.001
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.003
pfam01535	31	pfam01535, PPR, PPR repeat	0.004
pfam01535	31	pfam01535, PPR, PPR repeat	0.004

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

 Score =  425 bits (1095), Expect = e-141
 Identities = 210/593 (35%), Positives = 335/593 (56%), Gaps = 32/593 (5%)

Query: 8   YATLFHACALHGNIKQAMQLHEHMINN-FPNEPQDLFVTNHLINMYAKFGYLDDARHLFD 66
           Y  L  AC    +I+    ++ H+ ++ F  EP D ++ N ++ M+ K G L DAR LFD
Sbjct: 126 YDALVEACIALKSIRCVKAVYWHVESSGF--EP-DQYMMNRVLLMHVKCGMLIDARRLFD 182

Query: 67  EMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLI-----SCDYLH 121
           EMP+RN+ SW  +I G    GN  E F LF  + +     E     V++           
Sbjct: 183 EMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARA 242

Query: 122 GKLVHALALKFSLDAHVYVANALINMYSKSCA--DEAWKVFENMEFRNVISWNSMIAAFR 179
           G+ +H   LK  +    +V+ ALI+MYSK C   ++A  VF+ M  +  ++WNSM+A + 
Sbjct: 243 GQQLHCCVLKTGVVGDTFVSCALIDMYSK-CGDIEDARCVFDGMPEKTTVAWNSMLAGY- 300

Query: 180 ACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVH 239
                       A     EEAL L+ +++  G++ D  TFSI+++  + L    HA   H
Sbjct: 301 ------------ALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAH 348

Query: 240 SLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAK 299
           + + + GF  D V   AL+  Y++ G +  ++ VFD+M   +L+SWN+++  Y  HG+  
Sbjct: 349 AGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGT 408

Query: 300 EALQLFSNM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACM 356
           +A+++F  M    V P+  TF+++LSAC ++GL ++G ++F SM ENH + P+  HYACM
Sbjct: 409 KAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACM 468

Query: 357 VDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDS 416
           ++LLGR G + EA  +IR  P +P   +W+ LL +CR H    L  LAA KL  + P   
Sbjct: 469 IELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKL 528

Query: 417 LGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQRE 476
             +V + N+Y  SG   +A  + + +K   +  +P  +WIE++ + H F SG + HPQ  
Sbjct: 529 NNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSR 588

Query: 477 AIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRE 536
            I++KL+EL+ ++   GYV E +  L D++E+ ++    +HSEKLA+ F ++N      E
Sbjct: 589 EIYQKLDELMKEISEYGYVAEENELLPDVDEDEEKVSGRYHSEKLAIAFGLINTS----E 644

Query: 537 RSVIRIMKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW 589
            + ++I ++ RIC DCH  +K  + +  +EIVVRD++RFHHFK   CSC DYW
Sbjct: 645 WTPLQITQSHRICKDCHKVIKFIALVTKREIVVRDASRFHHFKLGKCSCGDYW 697

Length = 697

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

 Score =  399 bits (1028), Expect = e-129
 Identities = 210/585 (35%), Positives = 322/585 (55%), Gaps = 35/585 (5%)

Query: 14  ACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNV 73
           AC L G+ +   ++H +++        D+ V N LI MY   G   +A  +F  M  ++ 
Sbjct: 297 ACELLGDERLGREMHGYVVKT--GFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDA 354

Query: 74  VSWTALISGYAQHGNAEECFRLFCSL-LQYFFPNEFSLASVLISCDYL----HGKLVHAL 128
           VSWTA+ISGY ++G  ++    +  +      P+E ++ASVL +C  L     G  +H L
Sbjct: 355 VSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHEL 414

Query: 129 ALKFSLDAHVYVANALINMYSKS-CADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQA 187
           A +  L ++V VANALI MYSK  C D+A +VF N+  ++VISW S+IA  R        
Sbjct: 415 AERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLR-------- 466

Query: 188 IELFAKMKNEE-EALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYG 246
                 + N   EAL  FRQ+    + P+  T    L ACA +        +H+ + + G
Sbjct: 467 ------LNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTG 519

Query: 247 FEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFS 306
              D  + NAL+  Y RCG ++ +   F+     D+VSWN +L  Y  HG+   A++LF+
Sbjct: 520 IGFDGFLPNALLDLYVRCGRMNYAWNQFNSHE-KDVVSWNILLTGYVAHGKGSMAVELFN 578

Query: 307 NM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRV 363
            M    V PD  TF+SLL ACS +G+V +G + FHSM E + + P L HYAC+VDLLGR 
Sbjct: 579 RMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRA 638

Query: 364 GRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMS 423
           G++ EA   I +MP+ PD  +W  LL +CR H    L ELAA  + +L+P     ++ + 
Sbjct: 639 GKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLC 698

Query: 424 NIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKKLE 483
           N+Y  +G +++   +RK M+ + +   PG SW+E++ +VH F +  + HPQ + I   LE
Sbjct: 699 NLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLE 758

Query: 484 ELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQG-SLCRERSVIRI 542
               ++K  G     S ++ +IE   K++    HSE+LA+ F ++N    +      I +
Sbjct: 759 GFYEKMKASGLAGSESSSMDEIEVS-KDDIFCGHSERLAIAFGLINTVPGMP-----IWV 812

Query: 543 MKNIRICVDCHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCND 587
            KN+ +C +CHN +K  S ++ +EI VRD+ +FHHFKD  CSC D
Sbjct: 813 TKNLYMCENCHNTVKFISKIVRREISVRDTEQFHHFKDGECSCGD 857

Length = 857

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

 Score =  184 bits (468), Expect = 1e-49
 Identities = 122/427 (28%), Positives = 200/427 (46%), Gaps = 60/427 (14%)

Query: 13  HACALHGNIKQAMQLHEHMINNFPNEPQDLFVT--------------------------- 45
            A   HG ++QA++L E M        +D +V                            
Sbjct: 59  RALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPS 118

Query: 46  ------NHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSL 99
                 N +++M+ +FG L  A ++F +MP+R++ SW  L+ GYA+ G  +E   L+  +
Sbjct: 119 LGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRM 178

Query: 100 LQY-FFPNEFSLASVLISC----DYLHGKLVHALALKFSLDAHVYVANALINMYSKSCAD 154
           L     P+ ++   VL +C    D   G+ VHA  ++F  +  V V NALI MY K C D
Sbjct: 179 LWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVK-CGD 237

Query: 155 --EAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGM 212
              A  VF+ M  R+ ISWN+MI+ +       + +ELF  M+                +
Sbjct: 238 VVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELS-------------V 284

Query: 213 APDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQ 272
            PD  T + V+ AC  L  ER    +H  + K GF  D  + N+LI  Y   GS   +++
Sbjct: 285 DPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEK 344

Query: 273 VFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM---NVQPDSATFVSLLSACSHAGL 329
           VF +M   D VSW +++  Y  +G   +AL+ ++ M   NV PD  T  S+LSAC+  G 
Sbjct: 345 VFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGD 404

Query: 330 VQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIW-SVL 388
           +  G K+ H + E  G++  +     ++++  +   I +A ++   +P E D + W S++
Sbjct: 405 LDVGVKL-HELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIP-EKDVISWTSII 462

Query: 389 LGSCRKH 395
            G    +
Sbjct: 463 AGLRLNN 469

Length = 857

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

 Score =  148 bits (374), Expect = 2e-37
 Identities = 91/329 (27%), Positives = 157/329 (47%), Gaps = 24/329 (7%)

Query: 77  TALISGYAQHGNAEECFRLFCSLLQYFFP-NEFSLASVLISCD----YLHGKLVHALALK 131
            + +     HG  E+  +L  S+ +   P +E +  ++   C+       G  V + AL 
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALS 114

Query: 132 FSLDAHVYVANALINMYSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIEL 190
                 V + NA+++M+ +      AW VF  M  R++ SWN ++  +            
Sbjct: 115 SHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGY------------ 162

Query: 191 FAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDD 250
            AK    +EAL L+ ++   G+ PD  TF  VL+ C G+        VH+ + ++GFE D
Sbjct: 163 -AKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELD 221

Query: 251 TVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM-- 308
             + NALI  Y +CG +  ++ VFD+M   D +SWN+++  Y  +G+  E L+LF  M  
Sbjct: 222 VDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRE 281

Query: 309 -NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRIL 367
            +V PD  T  S++SAC   G  + G ++ H  +   G    +     ++ +   +G   
Sbjct: 282 LSVDPDLMTITSVISACELLGDERLGREM-HGYVVKTGFAVDVSVCNSLIQMYLSLGSWG 340

Query: 368 EAEKLIREMPMEPDSVIWSVLLGSCRKHG 396
           EAEK+   M  + D+V W+ ++    K+G
Sbjct: 341 EAEKVFSRMETK-DAVSWTAMISGYEKNG 368

Length = 857

>gnl|CDD|222749 pfam14432, DYW_deaminase, DYW family of nucleic acid deaminases

 Score = 89.0 bits (221), Expect = 3e-21
 Identities = 44/135 (32%), Positives = 60/135 (44%), Gaps = 25/135 (18%)

Query: 451 PGLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHK 510
           PG  W E      +  SG   HP         EEL  ++K  G VPET    HD++ E  
Sbjct: 1   PGCVWSEG----KKTLSGDGSHPT------SKEELFQRIKVEGVVPETKEIGHDVDAEEF 50

Query: 511 EEQLYH------HSEKLALVFAIMNQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLG 564
            +          H+EK AL + ++             I    R+C DCH F +  +   G
Sbjct: 51  RDNGIKGKLLASHAEKQALAYGLLTT---------RIIKVLKRMCGDCHEFFRYIAKYTG 101

Query: 565 KEIVVRDSNRFHHFK 579
           +EI+VRD +RFHHFK
Sbjct: 102 REIIVRDPSRFHHFK 116

A family of nucleic acid deaminases prototyped by the plant PPR DYW proteins that are implicated in chloroplast and mitochondrial RNA transcript maturation by numerous C to U editing events. The name derives from the DYW motif present at the C-terminus of the classical plant PPR DYW deaminases. Members of this family are present in bacteria, plants, Naegleria, and fungi. Plants and Naegleria show lineage-specific expansions of this family. The classical DYW family contain an additional C-terminal metal-binding cluster composed of 2 histidines and a CxC motif and are often fused to PPR repeats. Ascomycete versions, which are independent lateral transfers, contain a large insert within the domain and are often fused to ankyrin repeats. Bacterial versions are predicted to function as toxins in polymorphic toxin systems. Length = 116

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

 Score = 84.9 bits (210), Expect = 4e-17
 Identities = 60/215 (27%), Positives = 100/215 (46%), Gaps = 10/215 (4%)

Query: 188 IELFAKMKNEEEALFLFRQLQ-REGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYG 246
           IE         EAL LF  L+          T+  +++AC  L + R   AV+  +   G
Sbjct: 94  IEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSG 153

Query: 247 FEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFS 306
           FE D  + N ++  + +CG +  ++++FD+M   +L SW +I+      G  +EA  LF 
Sbjct: 154 FEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFR 213

Query: 307 NM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHY-AC-MVDLLG 361
            M       +  TFV +L A +  G  + G +  H  +   GVV   D + +C ++D+  
Sbjct: 214 EMWEDGSDAEPRTFVVMLRASAGLGSARAG-QQLHCCVLKTGVVG--DTFVSCALIDMYS 270

Query: 362 RVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHG 396
           + G I +A  +   MP E  +V W+ +L     HG
Sbjct: 271 KCGDIEDARCVFDGMP-EKTTVAWNSMLAGYALHG 304

Length = 697

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

 Score = 52.4 bits (127), Expect = 3e-09
 Identities = 14/49 (28%), Positives = 29/49 (59%), Gaps = 3/49 (6%)

Query: 281 DLVSWNSILKAYALHGQAKEALQLFSNM---NVQPDSATFVSLLSACSH 326
           D+V++N+++  Y   G+ +EAL+LF+ M    ++P+  T+  L+     
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 48.9 bits (118), Expect = 5e-08
 Identities = 20/47 (42%), Positives = 29/47 (61%), Gaps = 5/47 (10%)

Query: 44 VT-NHLINMYAKFGYLDDARHLFDEMPKR----NVVSWTALISGYAQ 85
          VT N LI+ Y K G +++A  LF+EM KR    NV +++ LI G  +
Sbjct: 4  VTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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 = 55.3 bits (133), Expect = 7e-08
 Identities = 71/345 (20%), Positives = 129/345 (37%), Gaps = 104/345 (30%)

Query: 131 KFSLDAHVYVANALINMYSKSCADEAWKVFENMEFRNVISWNSMIAA--FRACKLEAQAI 188
              +DA+      L +   K C D    + E+ME R ++  + +  A  F+ACK      
Sbjct: 371 PEYIDAY---NRLLRDGRIKDCID----LLEDMEKRGLLDMDKIYHAKFFKACK------ 417

Query: 189 ELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFE 248
               K +  +EA F F +L R    P   TF++++  CA       A  V  L+ + G +
Sbjct: 418 ----KQRAVKEA-FRFAKLIRN---PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLK 469

Query: 249 DDTVIANALIHAYARCGSISLSKQVFDKM----------TYH------------------ 280
            D  +   LI   A+ G +    +VF +M          T+                   
Sbjct: 470 ADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGA 529

Query: 281 -----------DLVSWNSILKAYALHGQAKEALQLFSNMN-----VQPDSATFVSLLSAC 324
                      D V +N+++ A    G    A  + + M      + PD  T  +L+ AC
Sbjct: 530 YGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKAC 589

Query: 325 SHAGLVQEGNKVFHSMLENH----------------------------------GVVPQL 350
           ++AG V    +V+  + E +                                  GV P  
Sbjct: 590 ANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDE 649

Query: 351 DHYACMVDLLGRVGRILEAEKLIREMP---MEPDSVIWSVLLGSC 392
             ++ +VD+ G  G + +A +++++     ++  +V +S L+G+C
Sbjct: 650 VFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGAC 694

Length = 1060

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

 Score = 54.5 bits (131), Expect = 1e-07
 Identities = 31/116 (26%), Positives = 58/116 (50%), Gaps = 9/116 (7%)

Query: 298 AKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMV 357
           A   L+L     ++ D   + +L+S C+ +G V    +VFH M  N GV   +  +  ++
Sbjct: 456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEM-VNAGVEANVHTFGALI 514

Query: 358 DLLGRVGRILE---AEKLIREMPMEPDSVIWSVLLGSCRKHGETR-----LAELAA 405
           D   R G++ +   A  ++R   ++PD V+++ L+ +C + G        LAE+ A
Sbjct: 515 DGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKA 570

Length = 1060

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

 Score = 46.2 bits (111), Expect = 5e-07
 Identities = 15/62 (24%), Positives = 34/62 (54%), Gaps = 15/62 (24%)

Query: 167 NVISWNSMIAAF-RACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKA 225
           +V+++N++I  + +  K+E +A++LF +MK             + G+ P+  T+SI++  
Sbjct: 2   DVVTYNTLIDGYCKKGKVE-EALKLFNEMK-------------KRGIKPNVYTYSILIDG 47

Query: 226 CA 227
             
Sbjct: 48  LC 49

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

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

 Score = 41.2 bits (98), Expect = 3e-05
 Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 2/47 (4%)

Query: 72  NVVSWTALISGYAQHGNAEECFRLFCSLLQY-FFPNEFSLASVLISC 117
           +VV++  LI GY + G  EE  +LF  + +    PN ++  S+LI  
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTY-SILIDG 47

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

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

 Score = 42.6 bits (100), Expect = 6e-04
 Identities = 46/243 (18%), Positives = 112/243 (46%), Gaps = 26/243 (10%)

Query: 171 WNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKAC--AG 228
           +N++I+A        +A ++ A+MK E   +            PD  T   ++KAC  AG
Sbjct: 545 FNALISACGQSGAVDRAFDVLAEMKAETHPI-----------DPDHITVGALMKACANAG 593

Query: 229 LVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVS---W 285
            V +R A  V+ +I +Y  +    +    +++ ++ G    +  ++D M    +     +
Sbjct: 594 QV-DR-AKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVF 651

Query: 286 NSILKAYALH-GQAKEALQLFSNMN---VQPDSATFVSLLSACSHAGLVQEGNKVFHSML 341
            S L   A H G   +A ++  +     ++  + ++ SL+ ACS+A   ++  +++   +
Sbjct: 652 FSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYED-I 710

Query: 342 ENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMP---MEPDSVIWSVLLGSCRKHGET 398
           ++  + P +     ++  L    ++ +A +++ EM    + P+++ +S+LL +  +  + 
Sbjct: 711 KSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDA 770

Query: 399 RLA 401
            + 
Sbjct: 771 DVG 773

Length = 1060

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

 Score = 37.0 bits (87), Expect = 0.001
 Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 7/46 (15%)

Query: 142 NALINMYSKSC-ADEAWKVFENMEFR----NVISWNSMIAAFRACK 182
           N LI+ Y K    +EA K+F  M+ R    NV +++ +I     CK
Sbjct: 7   NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL--CK 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|144943 pfam01535, PPR, PPR repeat

 Score = 35.9 bits (84), Expect = 0.001
 Identities = 11/28 (39%), Positives = 17/28 (60%)

Query: 74  VSWTALISGYAQHGNAEECFRLFCSLLQ 101
           V++ +LISGY + G  EE   LF  + +
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKE 28

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

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

 Score = 35.4 bits (83), Expect = 0.003
 Identities = 12/27 (44%), Positives = 16/27 (59%), Gaps = 1/27 (3%)

Query: 44 VT-NHLINMYAKFGYLDDARHLFDEMP 69
          VT N LI+   + G +D+A  L DEM 
Sbjct: 8  VTYNTLIDGLCRAGRVDEAVELLDEME 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 = 34.7 bits (81), Expect = 0.004
 Identities = 13/28 (46%), Positives = 18/28 (64%)

Query: 46 NHLINMYAKFGYLDDARHLFDEMPKRNV 73
          N LI+ Y K G L++A  LF EM ++ V
Sbjct: 4  NSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 34.7 bits (81), Expect = 0.004
 Identities = 11/26 (42%), Positives = 18/26 (69%)

Query: 283 VSWNSILKAYALHGQAKEALQLFSNM 308
           V++NS++  Y   G+ +EAL+LF  M
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEM 26

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	589
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
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
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.96
PF14432	116	DYW_deaminase: DYW family of nucleic acid deaminas	99.96
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.96
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.87
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.86
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.86
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.86
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.86
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.85
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.85
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.82
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.81
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.81
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.81
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.8
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.78
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.76
PRK14574	822	hmsH outer membrane protein; Provisional	99.75
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.68
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.64
PRK14574	822	hmsH outer membrane protein; Provisional	99.64
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.63
KOG2003	840	consensus TPR repeat-containing protein [General f	99.61
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.58
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.54
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.52
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.49
KOG1126	638	consensus DNA-binding cell division cycle control	99.49
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.49
KOG2076	895	consensus RNA polymerase III transcription factor	99.47
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.46
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.46
KOG1126	638	consensus DNA-binding cell division cycle control	99.44
KOG2076	895	consensus RNA polymerase III transcription factor	99.44
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.43
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.43
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.43
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.42
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.4
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.4
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.39
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.37
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.37
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.36
KOG2003	840	consensus TPR repeat-containing protein [General f	99.34
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.33
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.3
PF13041	50	PPR_2: PPR repeat family	99.28
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.24
PRK12370	553	invasion protein regulator; Provisional	99.23
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.22
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.18
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.18
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.17
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.16
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.15
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.14
PRK12370	553	invasion protein regulator; Provisional	99.12
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.1
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.1
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.09
PRK11189	296	lipoprotein NlpI; Provisional	99.07
PF13041	50	PPR_2: PPR repeat family	99.07
PRK11189	296	lipoprotein NlpI; Provisional	99.05
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.03
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.02
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.01
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.99
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.98
KOG1129	478	consensus TPR repeat-containing protein [General f	98.97
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.96
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.95
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.87
KOG1129	478	consensus TPR repeat-containing protein [General f	98.82
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.8
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.79
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.78
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.77
KOG1125	579	consensus TPR repeat-containing protein [General f	98.75
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.75
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.72
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.7
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.69
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.68
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.67
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.66
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.64
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.62
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.6
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.59
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.59
PRK04841	903	transcriptional regulator MalT; Provisional	98.58
PF12854	34	PPR_1: PPR repeat	98.57
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.55
PF12854	34	PPR_1: PPR repeat	98.54
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.47
PRK04841	903	transcriptional regulator MalT; Provisional	98.46
PLN02789	320	farnesyltranstransferase	98.45
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.43
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.43
PRK15359	144	type III secretion system chaperone protein SscB;	98.42
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.38
KOG1125	579	consensus TPR repeat-containing protein [General f	98.38
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.37
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.34
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.33
PRK15359	144	type III secretion system chaperone protein SscB;	98.32
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.32
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.31
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.31
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.29
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.27
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.24
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.23
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.19
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.19
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.19
PLN02789	320	farnesyltranstransferase	98.18
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.17
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.16
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.15
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.11
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.09
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.08
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.06
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.05
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.99
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.95
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.95
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.94
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.9
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.9
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.82
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.81
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.8
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.78
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.76
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.74
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.74
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.68
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.68
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.67
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.66
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.65
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.61
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.6
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.59
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.58
KOG0553	304	consensus TPR repeat-containing protein [General f	97.58
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.52
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.5
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.49
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.45
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.44
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.42
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.42
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.38
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.37
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.35
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.34
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.34
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.33
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.32
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.31
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.31
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.25
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.24
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.2
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.19
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.15
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.13
KOG0553	304	consensus TPR repeat-containing protein [General f	97.12
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.12
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.11
PF13371	73	TPR_9: Tetratricopeptide repeat	97.09
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.08
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.06
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.02
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.02
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.0
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.0
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.0
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.98
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	96.93
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.93
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.91
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.86
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.82
PRK15331	165	chaperone protein SicA; Provisional	96.82
PF12688	120	TPR_5: Tetratrico peptide repeat	96.8
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.68
PF13431	34	TPR_17: Tetratricopeptide repeat	96.65
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.65
PF12688	120	TPR_5: Tetratrico peptide repeat	96.63
PRK10803	263	tol-pal system protein YbgF; Provisional	96.62
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.61
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	96.6
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.58
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.51
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.49
PF13371	73	TPR_9: Tetratricopeptide repeat	96.48
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.48
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.48
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.46
PF13428	44	TPR_14: Tetratricopeptide repeat	96.39
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	96.31
PRK10803	263	tol-pal system protein YbgF; Provisional	96.3
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.18
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.14
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.11
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	96.11
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.0
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.82
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.79
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	95.66
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.59
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.56
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.51
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	95.41
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.2
KOG3941	406	consensus Intermediate in Toll signal transduction	95.18
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	95.04
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.03
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.0
KOG1585	308	consensus Protein required for fusion of vesicles	95.0
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	94.85
KOG4555	175	consensus TPR repeat-containing protein [Function	94.82
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.72
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.58
KOG1941	518	consensus Acetylcholine receptor-associated protei	94.57
PRK11906	458	transcriptional regulator; Provisional	94.56
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.39
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.31
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.3
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.27
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	94.27
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	94.13
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.03
KOG3941	406	consensus Intermediate in Toll signal transduction	94.02
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	93.92
PF13512	142	TPR_18: Tetratricopeptide repeat	93.83
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.6
PF13512	142	TPR_18: Tetratricopeptide repeat	93.58
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.38
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	93.36
KOG4555	175	consensus TPR repeat-containing protein [Function	93.14
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	93.09
smart00299	140	CLH Clathrin heavy chain repeat homology.	93.06
COG0457	291	NrfG FOG: TPR repeat [General function prediction	92.94
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.92
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	92.87
COG3118	304	Thioredoxin domain-containing protein [Posttransla	92.78
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	92.76
KOG2610	491	consensus Uncharacterized conserved protein [Funct	92.59
COG3629	280	DnrI DNA-binding transcriptional activator of the	92.53
PRK11906	458	transcriptional regulator; Provisional	92.46
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	92.42
PF13428	44	TPR_14: Tetratricopeptide repeat	92.33
COG4105	254	ComL DNA uptake lipoprotein [General function pred	92.29
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	92.28
KOG1258	577	consensus mRNA processing protein [RNA processing	92.04
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	91.85
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	91.8
PRK15331	165	chaperone protein SicA; Provisional	91.27
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	91.04
COG3629	280	DnrI DNA-binding transcriptional activator of the	90.75
KOG2610	491	consensus Uncharacterized conserved protein [Funct	90.74
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	90.67
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	90.58
KOG1941	518	consensus Acetylcholine receptor-associated protei	90.47
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	90.29
PF13431	34	TPR_17: Tetratricopeptide repeat	90.25
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	90.04
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	90.02
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	89.66
COG4105	254	ComL DNA uptake lipoprotein [General function pred	89.61
PRK09687	280	putative lyase; Provisional	89.43
PRK12798	421	chemotaxis protein; Reviewed	89.33
KOG4234	271	consensus TPR repeat-containing protein [General f	89.1
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	88.3
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	87.82
KOG1586	288	consensus Protein required for fusion of vesicles	87.8
KOG4570	418	consensus Uncharacterized conserved protein [Funct	87.75
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	87.41
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	87.29
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	86.99
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	86.31
KOG1585	308	consensus Protein required for fusion of vesicles	86.03
PF04190	260	DUF410: Protein of unknown function (DUF410) ; Int	85.19
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	84.94
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	84.7
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	84.59
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	84.43
COG3947	361	Response regulator containing CheY-like receiver a	84.27
PRK11619	644	lytic murein transglycosylase; Provisional	84.11
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	83.83
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	83.38
COG1747	711	Uncharacterized N-terminal domain of the transcrip	82.25
KOG4648	536	consensus Uncharacterized conserved protein, conta	82.09
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	81.86
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	81.8
KOG4648	536	consensus Uncharacterized conserved protein, conta	81.32
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	80.75
PRK09687	280	putative lyase; Provisional	80.62
KOG4279	1226	consensus Serine/threonine protein kinase [Signal	80.57
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	80.5
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	80.15
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	80.02

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

Probab=100.00  E-value=1.1e-117  Score=966.18  Aligned_cols=570  Identities=36%  Similarity=0.645  Sum_probs=561.9

Q ss_pred             CCCChhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHHHH
Q 043490            1 FLHSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALI   80 (589)
Q Consensus         1 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li   80 (589)
                      +.||..+|+.++.+|++.++++.|.++|..|.+.  |..||..++|.|+.+|+++|++++|+++|++|++||.++||++|
T Consensus       119 ~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~--g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li  196 (697)
T PLN03081        119 FTLPASTYDALVEACIALKSIRCVKAVYWHVESS--GFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTII  196 (697)
T ss_pred             CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHH
Confidence            4689999999999999999999999999999998  55599999999999999999999999999999999999999999


Q ss_pred             HHHHhCCChhHHHHHHHHHHhc-cCCCceeHHHHHHHhc----hhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHH
Q 043490           81 SGYAQHGNAEECFRLFCSLLQY-FFPNEFSLASVLISCD----YLHGKLVHALALKFSLDAHVYVANALINMYSK-SCAD  154 (589)
Q Consensus        81 ~~~~~~g~~~~A~~~~~~m~~~-~~p~~~t~~~~l~a~~----~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~  154 (589)
                      .+|++.|++++|+++|++|.+. ..||..||..++.+|.    ...++++|..+.+.|+.+|..++|+|+++|++ |+++
T Consensus       197 ~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~  276 (697)
T PLN03081        197 GGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIE  276 (697)
T ss_pred             HHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHH
Confidence            9999999999999999999998 9999999999999998    88999999999999999999999999999999 9999


Q ss_pred             HHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHH
Q 043490          155 EAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERH  234 (589)
Q Consensus       155 ~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~  234 (589)
                      +|.++|++|+++|+++||+||.+|             .+.|+.++|+++|++|.+.|+.||..||++++.+|++.|+++.
T Consensus       277 ~A~~vf~~m~~~~~vt~n~li~~y-------------~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~  343 (697)
T PLN03081        277 DARCVFDGMPEKTTVAWNSMLAGY-------------ALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEH  343 (697)
T ss_pred             HHHHHHHhCCCCChhHHHHHHHHH-------------HhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHH
Confidence            999999999999999999999999             9999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC---CCC
Q 043490          235 ASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM---NVQ  311 (589)
Q Consensus       235 a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~  311 (589)
                      |.++|..|.+.|++||..++++|+++|+++|++++|.++|++|.++|+++||+||.+|+++|+.++|+++|++|   |+.
T Consensus       344 a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~  423 (697)
T PLN03081        344 AKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVA  423 (697)
T ss_pred             HHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999   999


Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 043490          312 PDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGS  391 (589)
Q Consensus       312 p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~  391 (589)
                      ||..||+.++.+|++.|++++|.++|+.|.+++|+.|+..+|++|+++|+++|++++|.+++++|+..|+..+|++|+.+
T Consensus       424 Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a  503 (697)
T PLN03081        424 PNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTA  503 (697)
T ss_pred             CCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHH
Confidence            99999999999999999999999999999888899999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCCccCCceeeEEECCEEEEEeeCCCC
Q 043490          392 CRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKR  471 (589)
Q Consensus       392 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~~~~~~~~  471 (589)
                      |+.+|+.+.|..+++++.+++|++..+|..|+++|++.|+|++|.++++.|+++|+++.|++||+++++.+|.|.+|+.+
T Consensus       504 ~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~g~s~i~~~~~~~~f~~~d~~  583 (697)
T PLN03081        504 CRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRL  583 (697)
T ss_pred             HHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCCCeeEEEECCeEEEEccCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CccHHHHHHHHHHHHHHHHhCCcccCCCccccccchhHHhhhhhhhhHHHHHHHHhhhCCCCCCCCCeEEEEecccccCC
Q 043490          472 HPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRERSVIRIMKNIRICVD  551 (589)
Q Consensus       472 ~~~~~~~~~~l~~l~~~m~~~g~~pd~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~c~~  551 (589)
                      ||+.++|+..+.++..+|++.||.||+.+++|++++++|+..+..||||||+||||+++|    +|.||||+||||+|+|
T Consensus       584 h~~~~~i~~~l~~l~~~~~~~gy~~~~~~~~~~~~~~~~~~~~~~hsekla~a~~l~~~~----~~~~i~i~knlr~c~d  659 (697)
T PLN03081        584 HPQSREIYQKLDELMKEISEYGYVAEENELLPDVDEDEEKVSGRYHSEKLAIAFGLINTS----EWTPLQITQSHRICKD  659 (697)
T ss_pred             CccHHHHHHHHHHHHHHHHHcCCCCCcchhhccccHHHHHHHHHhccHHHHHHhhCccCC----CCCeEEEecCCEECCC
Confidence            999999999999999999999999999999999999999999999999999999999999    9999999999999999


Q ss_pred             CchhhHhhhhhhCceEEEecCCccccccCCccCCCCCC
Q 043490          552 CHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCNDYW  589 (589)
Q Consensus       552 ~~~~~~~~~~~~~~~~~~~~~~~~h~~~~g~~s~~~~~  589 (589)
                      ||+|+|+||++.+|+|||||.+|||||+||+|||+|||
T Consensus       660 ch~~~k~~s~~~~r~i~~rd~~rfh~f~~g~csc~d~w  697 (697)
T PLN03081        660 CHKVIKFIALVTKREIVVRDASRFHHFKLGKCSCGDYW  697 (697)
T ss_pred             chhhHHHHhhhcceEEEEecCCccccCCCCcccccccC
Confidence            99999999999999999999999999999999999999

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=8e-112  Score=941.79  Aligned_cols=565  Identities=37%  Similarity=0.661  Sum_probs=552.4

Q ss_pred             CCCChhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHHHH
Q 043490            1 FLHSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALI   80 (589)
Q Consensus         1 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li   80 (589)
                      +.||..||+.++.+|++.|+++.|.++|..+.+.  |..||..+||+|+.+|+++|++++|.++|++|++||+++||+||
T Consensus       284 ~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~--g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li  361 (857)
T PLN03077        284 VDPDLMTITSVISACELLGDERLGREMHGYVVKT--GFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMI  361 (857)
T ss_pred             CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHh--CCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHH
Confidence            4699999999999999999999999999999998  55599999999999999999999999999999999999999999


Q ss_pred             HHHHhCCChhHHHHHHHHHHhc-cCCCceeHHHHHHHhc----hhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHH
Q 043490           81 SGYAQHGNAEECFRLFCSLLQY-FFPNEFSLASVLISCD----YLHGKLVHALALKFSLDAHVYVANALINMYSK-SCAD  154 (589)
Q Consensus        81 ~~~~~~g~~~~A~~~~~~m~~~-~~p~~~t~~~~l~a~~----~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~  154 (589)
                      .+|++.|++++|+++|++|.+. +.||..||++++.+|+    .+.+.++|+.+.+.|+.++..++|+|+++|++ |+++
T Consensus       362 ~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~  441 (857)
T PLN03077        362 SGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCID  441 (857)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHH
Confidence            9999999999999999999998 9999999999999998    89999999999999999999999999999999 9999


Q ss_pred             HHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHH
Q 043490          155 EAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERH  234 (589)
Q Consensus       155 ~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~  234 (589)
                      +|.++|++|.++|+++||+||.+|             .++|+.++|+++|++|.. +++||..||+++|.+|++.|+++.
T Consensus       442 ~A~~vf~~m~~~d~vs~~~mi~~~-------------~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~  507 (857)
T PLN03077        442 KALEVFHNIPEKDVISWTSIIAGL-------------RLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMC  507 (857)
T ss_pred             HHHHHHHhCCCCCeeeHHHHHHHH-------------HHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHH
Confidence            999999999999999999999999             999999999999999986 599999999999999999999999


Q ss_pred             HHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC---CCC
Q 043490          235 ASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM---NVQ  311 (589)
Q Consensus       235 a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~  311 (589)
                      +.++|..+.+.|+.+|..++|+|+++|+++|++++|.++|+.+ .+|+++||+||.+|+++|+.++|+++|++|   |+.
T Consensus       508 ~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~  586 (857)
T PLN03077        508 GKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVN  586 (857)
T ss_pred             hHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC
Confidence            9999999999999999999999999999999999999999999 999999999999999999999999999999   999


Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 043490          312 PDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGS  391 (589)
Q Consensus       312 p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~  391 (589)
                      ||..||+.+|.+|++.|++++|.++|+.|.+++|+.|+..+|++|+++|+++|++++|.+++++|+++||..+|++|+.+
T Consensus       587 Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~a  666 (857)
T PLN03077        587 PDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNA  666 (857)
T ss_pred             CCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHH
Confidence            99999999999999999999999999999878899999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCCccCCceeeEEECCEEEEEeeCCCC
Q 043490          392 CRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKR  471 (589)
Q Consensus       392 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~~~~~~~~  471 (589)
                      |..+|+.+.++.+.+++.+++|+++..|..|.++|++.|+|++|.++++.|+++|++|+||+||+++++.+|.|.+||.+
T Consensus       667 c~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~d~~  746 (857)
T PLN03077        667 CRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDES  746 (857)
T ss_pred             HHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEECCEEEEEecCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CccHHHHHHHHHHHHHHHHhCCcccCCCccccccchhHHhhhhhhhhHHHHHHHHhhhCCCCCCCCCeEEEEecccccCC
Q 043490          472 HPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRERSVIRIMKNIRICVD  551 (589)
Q Consensus       472 ~~~~~~~~~~l~~l~~~m~~~g~~pd~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~c~~  551 (589)
                      ||+.++|+..|+++.++|++.||.||+..++++ ++++|+..+..||||||+|||||++|    +++||||+||||+|+|
T Consensus       747 h~~~~~i~~~l~~l~~~~~~~g~~~~~~~~~~~-~~~~k~~~~~~hse~la~a~~l~~~~----~~~~i~i~knlr~c~d  821 (857)
T PLN03077        747 HPQIKEINTVLEGFYEKMKASGLAGSESSSMDE-IEVSKDDIFCGHSERLAIAFGLINTV----PGMPIWVTKNLYMCEN  821 (857)
T ss_pred             CcchHHHHHHHHHHHHHHHhCCcCCCcchhccc-cHHHHHHHHHhccHHHHHHHhhhcCC----CCCeEEEeCCCEeCcc
Confidence            999999999999999999999999999988844 78899999999999999999999999    9999999999999999


Q ss_pred             CchhhHhhhhhhCceEEEecCCccccccCCccCCCC
Q 043490          552 CHNFMKLASDLLGKEIVVRDSNRFHHFKDRICSCND  587 (589)
Q Consensus       552 ~~~~~~~~~~~~~~~~~~~~~~~~h~~~~g~~s~~~  587 (589)
                      ||+++|+||++.+|+|||||.+|||||+||+|||+|
T Consensus       822 ch~~~k~~s~~~~r~i~~rd~~rfh~f~~g~csc~d  857 (857)
T PLN03077        822 CHNTVKFISKIVRREISVRDTEQFHHFKDGECSCGD  857 (857)
T ss_pred             HHHHHHHHHHHhCeEEEEecCCcceeCCCCcccCCC
Confidence            999999999999999999999999999999999997

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.7e-71  Score=618.53  Aligned_cols=547  Identities=23%  Similarity=0.381  Sum_probs=478.0

Q ss_pred             CCChhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHHHHH
Q 043490            2 LHSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALIS   81 (589)
Q Consensus         2 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~   81 (589)
                      .|+..+|..++.+|.+.+.++.|.++|..+.+.  +..++..++|+|+.+|+++|+++.|+++|++|++||+++||+||+
T Consensus        83 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~n~li~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~  160 (857)
T PLN03077         83 PVDEDAYVALFRLCEWKRAVEEGSRVCSRALSS--HPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVG  160 (857)
T ss_pred             CCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHc--CCCCCchHHHHHHHHHHhCCChHHHHHHHhcCCCCCeeEHHHHHH
Confidence            578888999999999999999999999988887  334889999999999999999999999999999999999999999


Q ss_pred             HHHhCCChhHHHHHHHHHHhc-cCCCceeHHHHHHHhc----hhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHH
Q 043490           82 GYAQHGNAEECFRLFCSLLQY-FFPNEFSLASVLISCD----YLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADE  155 (589)
Q Consensus        82 ~~~~~g~~~~A~~~~~~m~~~-~~p~~~t~~~~l~a~~----~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~  155 (589)
                      +|++.|++++|+++|++|... +.||.+||++++.+|+    +..++++|+.+.+.|+.||..++|+|+++|++ |++++
T Consensus       161 ~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~  240 (857)
T PLN03077        161 GYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVS  240 (857)
T ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHH
Confidence            999999999999999999998 9999999999999998    78899999999999999999999999999999 99999


Q ss_pred             HHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHH
Q 043490          156 AWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHA  235 (589)
Q Consensus       156 A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a  235 (589)
                      |.++|++|++||+++||+||.+|             .+.|++++|+++|.+|...|+.||..||++++.+|++.|+++.|
T Consensus       241 A~~lf~~m~~~d~~s~n~li~~~-------------~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a  307 (857)
T PLN03077        241 ARLVFDRMPRRDCISWNAMISGY-------------FENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLG  307 (857)
T ss_pred             HHHHHhcCCCCCcchhHHHHHHH-------------HhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHH
Confidence            99999999999999999999999             99999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC---CCCC
Q 043490          236 SAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM---NVQP  312 (589)
Q Consensus       236 ~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~p  312 (589)
                      .++|..+.+.|+.||..+||+|+.+|+++|++++|.++|++|.+||+++||+||.+|++.|++++|+++|++|   |+.|
T Consensus       308 ~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~P  387 (857)
T PLN03077        308 REMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSP  387 (857)
T ss_pred             HHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999   9999


Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 043490          313 DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSC  392 (589)
Q Consensus       313 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~  392 (589)
                      |..||+.++.+|++.|++++|.++++.+.+ .|+.|+..+|++||++|+++|++++|.++|++|. +||..+|++++.+|
T Consensus       388 d~~t~~~ll~a~~~~g~~~~a~~l~~~~~~-~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~-~~d~vs~~~mi~~~  465 (857)
T PLN03077        388 DEITIASVLSACACLGDLDVGVKLHELAER-KGLISYVVVANALIEMYSKCKCIDKALEVFHNIP-EKDVISWTSIIAGL  465 (857)
T ss_pred             CceeHHHHHHHHhccchHHHHHHHHHHHHH-hCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCC-CCCeeeHHHHHHHH
Confidence            999999999999999999999999999965 5999999999999999999999999999999997 68999999999999


Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCCccCCc--------------------
Q 043490          393 RKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPG--------------------  452 (589)
Q Consensus       393 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~--------------------  452 (589)
                      .++|+.++|..+|++|.+.-++|..+|..++.+|++.|..+.+.+++..|.+.|+.++..                    
T Consensus       466 ~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~  545 (857)
T PLN03077        466 RLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWN  545 (857)
T ss_pred             HHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHH
Confidence            999999999999999986555577777777766666666666666665555555543321                    


Q ss_pred             ---------eeeEEECCEEEEEeeCCCCCccHHHHHHHHHHHHHHHHhCCcccCCCccccccchhHHhhhh---hhhhHH
Q 043490          453 ---------LSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQL---YHHSEK  520 (589)
Q Consensus       453 ---------~s~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~m~~~g~~pd~~~~~~~~~~~~~~~~~---~~~~~~  520 (589)
                               .+|+.       .+.++..|++.+++    .+++++|++.|+.||..++...+..+.+.+.+   ....+.
T Consensus       546 ~f~~~~~d~~s~n~-------lI~~~~~~G~~~~A----~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~  614 (857)
T PLN03077        546 QFNSHEKDVVSWNI-------LLTGYVAHGKGSMA----VELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHS  614 (857)
T ss_pred             HHHhcCCChhhHHH-------HHHHHHHcCCHHHH----HHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHH
Confidence                     24433       35667778887776    47899999999999987776555555544433   223344


Q ss_pred             HHHHHHhhhCCCCCCCCCeEEEEecccccCCCchhhHhhhhhhCc------eEEEecCCccccccCC
Q 043490          521 LALVFAIMNQGSLCRERSVIRIMKNIRICVDCHNFMKLASDLLGK------EIVVRDSNRFHHFKDR  581 (589)
Q Consensus       521 l~~~~~l~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~------~~~~~~~~~~h~~~~g  581 (589)
                      +...+|+.+..    .+ .-++++.+.++|+.++|.++|.+|+.+      ..++..|+.+.+.+.|
T Consensus       615 M~~~~gi~P~~----~~-y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~  676 (857)
T PLN03077        615 MEEKYSITPNL----KH-YACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELG  676 (857)
T ss_pred             HHHHhCCCCch----HH-HHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHH
Confidence            44456655443    22 337899999999999999999999743      2344455554444443

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.3e-60  Score=521.80  Aligned_cols=432  Identities=18%  Similarity=0.228  Sum_probs=403.5

Q ss_pred             CChhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCC----CCCcchHHH
Q 043490            3 HSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMP----KRNVVSWTA   78 (589)
Q Consensus         3 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~----~~~~~~~~~   78 (589)
                      ||..+|+.+|.+|++.|+++.|.++|+.|.+.  |..||..+|+.||.+|+++|++++|.++|++|.    .||.++||+
T Consensus       435 pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~--Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTyna  512 (1060)
T PLN03218        435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEA--GLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGA  512 (1060)
T ss_pred             CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            89999999999999999999999999999998  555999999999999999999999999999998    589999999


Q ss_pred             HHHHHHhCCChhHHHHHHHHHHhc-cCCCceeHHHHHHHhc----hhhHHHHHHHHHH--hcCCCchhHHHHHHHHHhc-
Q 043490           79 LISGYAQHGNAEECFRLFCSLLQY-FFPNEFSLASVLISCD----YLHGKLVHALALK--FSLDAHVYVANALINMYSK-  150 (589)
Q Consensus        79 li~~~~~~g~~~~A~~~~~~m~~~-~~p~~~t~~~~l~a~~----~~~~~~~~~~~~~--~g~~~~~~~~~~li~~y~~-  150 (589)
                      ||.+|++.|++++|+++|++|.+. +.||..||+.++.+|.    .+.+..++..|.+  .|+.||..+|+++|.+|++ 
T Consensus       513 LI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~  592 (1060)
T PLN03218        513 LIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANA  592 (1060)
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHC
Confidence            999999999999999999999998 9999999999999998    8899999999976  6899999999999999999 


Q ss_pred             CCHHHHHHHHhhCCC----CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 043490          151 SCADEAWKVFENMEF----RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKAC  226 (589)
Q Consensus       151 g~~~~A~~lf~~m~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  226 (589)
                      |++++|.++|+.|.+    |+..+||++|.+|             ++.|++++|+++|++|.+.|+.||..||++++.+|
T Consensus       593 G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay-------------~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~  659 (1060)
T PLN03218        593 GQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSC-------------SQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVA  659 (1060)
T ss_pred             CCHHHHHHHHHHHHHcCCCCChHHHHHHHHHH-------------HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            999999999999974    6779999999999             99999999999999999999999999999999999


Q ss_pred             hCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC----CCChhHHHHHHHHHHHcCCHHHHH
Q 043490          227 AGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT----YHDLVSWNSILKAYALHGQAKEAL  302 (589)
Q Consensus       227 ~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~  302 (589)
                      ++.|++++|.++|+.|.+.|++||..+|++||.+|+++|++++|.++|+.|.    .||+.+||+||.+|++.|+.++|+
T Consensus       660 ~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAl  739 (1060)
T PLN03218        660 GHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKAL  739 (1060)
T ss_pred             HhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            9999999999999999999999999999999999999999999999999995    799999999999999999999999


Q ss_pred             HHHHhC---CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHh----hcC-----------
Q 043490          303 QLFSNM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLG----RVG-----------  364 (589)
Q Consensus       303 ~~~~~m---~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~----~~g-----------  364 (589)
                      ++|++|   |+.||..||+.++.+|++.|++++|.++|..|.+ .|+.||..+|++|+.++.    +++           
T Consensus       740 elf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k-~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~  818 (1060)
T PLN03218        740 EVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKE-DGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDS  818 (1060)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhc
Confidence            999999   9999999999999999999999999999999965 599999999999997743    222           


Q ss_pred             --------CHHHHHHHHHhC---CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc-CCCChhHHHHHHHHhhhcCCh
Q 043490          365 --------RILEAEKLIREM---PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQL-EPGDSLGFVQMSNIYCLSGSF  432 (589)
Q Consensus       365 --------~~~~A~~~~~~m---~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-~p~~~~~~~~l~~~~~~~g~~  432 (589)
                              ..++|..+|++|   ++.||..||+.++.++.+.+..+.+..+++.+... .+++..+|+.|++++.+.  .
T Consensus       819 g~~~~~n~w~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~  896 (1060)
T PLN03218        819 GRPQIENKWTSWALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--D  896 (1060)
T ss_pred             cccccccchHHHHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--h
Confidence                    246799999999   89999999999998888888999998888887643 356889999999998432  3


Q ss_pred             HHHHHHHHHHhcCCCccCCc
Q 043490          433 NKARLIRKEMKGSRVRKYPG  452 (589)
Q Consensus       433 ~~a~~~~~~m~~~~~~~~~~  452 (589)
                      ++|..++++|.+.|+.|+..
T Consensus       897 ~~A~~l~~em~~~Gi~p~~~  916 (1060)
T PLN03218        897 PRAFSLLEEAASLGVVPSVS  916 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCCcc
Confidence            68999999999999988764

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.5e-60  Score=518.36  Aligned_cols=517  Identities=14%  Similarity=0.214  Sum_probs=329.4

Q ss_pred             CChhHHHHHHHHHHccCCHHHHHHHHHHHHHh--CCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHHHH
Q 043490            3 HSTQIYATLFHACALHGNIKQAMQLHEHMINN--FPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALI   80 (589)
Q Consensus         3 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li   80 (589)
                      ++...|..++..+++.|++++|+++|+.|.+.  .+   ++...++.++..|.+.|.+++|.++|+.|+.||..+||.+|
T Consensus       368 ~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~---~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL  444 (1060)
T PLN03218        368 RKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLD---MDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLM  444 (1060)
T ss_pred             CCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCC---chHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            45677888999999999999999999999987  34   78888899999999999999999999999999999999999


Q ss_pred             HHHHhCCChhHHHHHHHHHHhc-cCCCceeHHHHHHHhc----hhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHH
Q 043490           81 SGYAQHGNAEECFRLFCSLLQY-FFPNEFSLASVLISCD----YLHGKLVHALALKFSLDAHVYVANALINMYSK-SCAD  154 (589)
Q Consensus        81 ~~~~~~g~~~~A~~~~~~m~~~-~~p~~~t~~~~l~a~~----~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~  154 (589)
                      .+|++.|++++|.++|++|.+. ..||..+|++++.+|+    .+.+..++..|.+.|+.||..+|+++|.+|++ |+++
T Consensus       445 ~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~e  524 (1060)
T PLN03218        445 SVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVA  524 (1060)
T ss_pred             HHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHH
Confidence            9999999999999999999887 6666666666666655    55566666666666666666666666666666 6666


Q ss_pred             HHHHHHhhCC----CCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCCCHHHHHHHHHHHhC
Q 043490          155 EAWKVFENME----FRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQR--EGMAPDWCTFSIVLKACAG  228 (589)
Q Consensus       155 ~A~~lf~~m~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~--~g~~p~~~t~~~ll~a~~~  228 (589)
                      +|.++|++|.    .||.++||+||.+|             ++.|++++|.++|.+|..  .|+.||..||++++.+|++
T Consensus       525 eAl~lf~~M~~~Gv~PD~vTYnsLI~a~-------------~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k  591 (1060)
T PLN03218        525 KAFGAYGIMRSKNVKPDRVVFNALISAC-------------GQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACAN  591 (1060)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHH-------------HHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHH
Confidence            6666666664    35666666666666             666666666666666654  4556666666666666666


Q ss_pred             cCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC----CCChhHHHHHHHHHHHcCCHHHHHHH
Q 043490          229 LVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT----YHDLVSWNSILKAYALHGQAKEALQL  304 (589)
Q Consensus       229 ~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~  304 (589)
                      .|++++|.++|+.|.+.|++|+..+|+++|.+|++.|++++|.++|++|.    .||..+|+++|.+|++.|+.++|.++
T Consensus       592 ~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l  671 (1060)
T PLN03218        592 AGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEI  671 (1060)
T ss_pred             CCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHH
Confidence            66666666666666666666666666666666666666666666666665    35566666666666666666666666


Q ss_pred             HHhC---CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC---CC
Q 043490          305 FSNM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM---PM  378 (589)
Q Consensus       305 ~~~m---~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~  378 (589)
                      |++|   |+.||..+|+.+|.+|++.|++++|.++|+.|.+ .|+.||..+|++||.+|++.|++++|.++|++|   ++
T Consensus       672 ~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~-~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi  750 (1060)
T PLN03218        672 LQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKS-IKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGL  750 (1060)
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC
Confidence            6666   5666666666666666666666666666666633 356666666666666666666666666666655   55


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC-CCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCCc-cCCceeeE
Q 043490          379 EPDSVIWSVLLGSCRKHGETRLAELAATKLKQLE-PGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVR-KYPGLSWI  456 (589)
Q Consensus       379 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~-~~~~~s~~  456 (589)
                      .||..+|++++.+|.+.|+++.|.+++++|.+.+ .+|..+|..|+.+|.  ++++++.++.+.+...+.. +.....| 
T Consensus       751 ~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~--~~y~ka~~l~~~v~~f~~g~~~~~n~w-  827 (1060)
T PLN03218        751 CPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCL--RRFEKACALGEPVVSFDSGRPQIENKW-  827 (1060)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH--HHHHHHhhhhhhhhhhhccccccccch-
Confidence            5666666666666666666666666666665544 235555666555433  1333333333322211000 0000011 


Q ss_pred             EECCEEEEEeeCCCCCccHHHHHHHHHHHHHHHHhCCcccCCCccccccchhHHhhhhhhhhHHHHHHHHhhhCCCCCCC
Q 043490          457 EIENRVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLALVFAIMNQGSLCRE  536 (589)
Q Consensus       457 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~m~~~g~~pd~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~  536 (589)
                                        ..    ....++++|.+.|+.||..++...+....+.+. ......+-..+++.+.+    +
T Consensus       828 ------------------~~----~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~-~~~~~~m~~~m~~~~~~----~  880 (1060)
T PLN03218        828 ------------------TS----WALMVYRETISAGTLPTMEVLSQVLGCLQLPHD-ATLRNRLIENLGISADS----Q  880 (1060)
T ss_pred             ------------------HH----HHHHHHHHHHHCCCCCCHHHHHHHHHHhccccc-HHHHHHHHHHhccCCCC----c
Confidence                              11    234789999999999996555333211111111 11223333334443332    3


Q ss_pred             CCe--EEEEecccccCCCchhhHhhhhhhCceEE
Q 043490          537 RSV--IRIMKNIRICVDCHNFMKLASDLLGKEIV  568 (589)
Q Consensus       537 ~~~--~~~~~~~~~c~~~~~~~~~~~~~~~~~~~  568 (589)
                      +..  ..+++.++  ..-++|..++..|..+.|+
T Consensus       881 ~~~~y~~Li~g~~--~~~~~A~~l~~em~~~Gi~  912 (1060)
T PLN03218        881 KQSNLSTLVDGFG--EYDPRAFSLLEEAASLGVV  912 (1060)
T ss_pred             chhhhHHHHHhhc--cChHHHHHHHHHHHHcCCC
Confidence            322  23455442  1235799999999887654

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

Probab=100.00  E-value=1.1e-58  Score=504.13  Aligned_cols=476  Identities=22%  Similarity=0.322  Sum_probs=411.9

Q ss_pred             CCcchHHHHHHHHHhCCChhHHHHHHHHHHhc--cCCCceeHHHHHHHhc----hhhHHHHHHHHHHhcCCCchhHHHHH
Q 043490           71 RNVVSWTALISGYAQHGNAEECFRLFCSLLQY--FFPNEFSLASVLISCD----YLHGKLVHALALKFSLDAHVYVANAL  144 (589)
Q Consensus        71 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~p~~~t~~~~l~a~~----~~~~~~~~~~~~~~g~~~~~~~~~~l  144 (589)
                      ++.++|+.+|.+|++.|++++|+++|+.|...  ..||..||+.++.+|.    .+.++++|..+.+.|+.||..++|.|
T Consensus        85 ~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~L  164 (697)
T PLN03081         85 KSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRV  164 (697)
T ss_pred             CCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHH
Confidence            57789999999999999999999999999876  6899999999999998    77899999999999999999999999


Q ss_pred             HHHHhc-CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 043490          145 INMYSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVL  223 (589)
Q Consensus       145 i~~y~~-g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  223 (589)
                      +++|++ |++++|.++|++|++||.++||++|.+|             .+.|++++|+++|++|.+.|+.||..||+.++
T Consensus       165 i~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~-------------~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll  231 (697)
T PLN03081        165 LLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGL-------------VDAGNYREAFALFREMWEDGSDAEPRTFVVML  231 (697)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHH-------------HHCcCHHHHHHHHHHHHHhCCCCChhhHHHHH
Confidence            999999 9999999999999999999999999999             99999999999999999999999999999999


Q ss_pred             HHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHH
Q 043490          224 KACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQ  303 (589)
Q Consensus       224 ~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  303 (589)
                      .+|++.|+.+.+.++|..+.+.|+.||..++|+|+++|+++|++++|.++|+.|.++|+++||+||.+|++.|+.++|++
T Consensus       232 ~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~  311 (697)
T PLN03081        232 RASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALC  311 (697)
T ss_pred             HHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhC---CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCC
Q 043490          304 LFSNM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEP  380 (589)
Q Consensus       304 ~~~~m---~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p  380 (589)
                      +|++|   |+.||..||+.++.+|++.|++++|.+++..|.+. |+.||..+|++||++|+++|++++|.++|++|. +|
T Consensus       312 lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~-g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~-~~  389 (697)
T PLN03081        312 LYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRT-GFPLDIVANTALVDLYSKWGRMEDARNVFDRMP-RK  389 (697)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHh-CCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC-CC
Confidence            99999   99999999999999999999999999999999665 999999999999999999999999999999997 68


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC-CCChhHHHHHHHHhhhcCChHHHHHHHHHHhc-CCCccCCceeeEEE
Q 043490          381 DSVIWSVLLGSCRKHGETRLAELAATKLKQLE-PGDSLGFVQMSNIYCLSGSFNKARLIRKEMKG-SRVRKYPGLSWIEI  458 (589)
Q Consensus       381 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-~~~~~~~~~s~~~~  458 (589)
                      |..+|++||.+|.++|+.++|.++|++|.+.+ .+|..+|..++.+|++.|+.++|.++|+.|.+ .|+.|+......  
T Consensus       390 d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~--  467 (697)
T PLN03081        390 NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYAC--  467 (697)
T ss_pred             CeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHh--
Confidence            99999999999999999999999999999865 35899999999999999999999999999985 688776532111  


Q ss_pred             CCEEEEEeeCCCCCccHHHHHHHHHHHHHHHHhCCcccCCCccccccchhHHhhhhh---hhhHHHHHHHHhhhCCCCCC
Q 043490          459 ENRVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLY---HHSEKLALVFAIMNQGSLCR  535 (589)
Q Consensus       459 ~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~m~~~g~~pd~~~~~~~~~~~~~~~~~~---~~~~~l~~~~~l~~~~~~~~  535 (589)
                            ++.+....++.++++       +.+++.++.||...+..-+..+.+.+.+.   ...+++   +++-+..    
T Consensus       468 ------li~~l~r~G~~~eA~-------~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l---~~~~p~~----  527 (697)
T PLN03081        468 ------MIELLGREGLLDEAY-------AMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKL---YGMGPEK----  527 (697)
T ss_pred             ------HHHHHHhcCCHHHHH-------HHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHH---hCCCCCC----
Confidence                  233344555555553       34556789999755433333332222111   111111   2322221    


Q ss_pred             CCCeEEEEecccccCCCchhhHhhhhhhCceEEE-------ecCCccccccCCcc
Q 043490          536 ERSVIRIMKNIRICVDCHNFMKLASDLLGKEIVV-------RDSNRFHHFKDRIC  583 (589)
Q Consensus       536 ~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~-------~~~~~~h~~~~g~~  583 (589)
                      .+..+.+++.+..+|+..+|.+++..|..+.+-.       .-.+..|.|-.|-.
T Consensus       528 ~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~g~s~i~~~~~~~~f~~~d~  582 (697)
T PLN03081        528 LNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDR  582 (697)
T ss_pred             CcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCCCeeEEEECCeEEEEccCCC
Confidence            3445566778999999999999999999886521       22345677765543

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

Probab=99.96  E-value=1.5e-25  Score=254.47  Aligned_cols=429  Identities=14%  Similarity=0.070  Sum_probs=300.7

Q ss_pred             hHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC---CCcchHHHHHHH
Q 043490            6 QIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK---RNVVSWTALISG   82 (589)
Q Consensus         6 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~   82 (589)
                      .....++..+.+.|++++|..+++.+.+..|   .++.++..+...|...|++++|.+.|+++.+   .+...+..+...
T Consensus       432 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~  508 (899)
T TIGR02917       432 RADLLLILSYLRSGQFDKALAAAKKLEKKQP---DNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARI  508 (899)
T ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHhCC---CCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCcHHHHHHHHHH
Confidence            3455667788888999999998888887655   7778888888889999999999998887653   345677778888


Q ss_pred             HHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhc----hhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHH
Q 043490           83 YAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCD----YLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAW  157 (589)
Q Consensus        83 ~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~----~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~  157 (589)
                      +...|++++|.+.|+++....+.+..++..+...+.    .+.+...+..+.+.+ +.+...+..+...|.+ |++++|.
T Consensus       509 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  587 (899)
T TIGR02917       509 DIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKAL  587 (899)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHH
Confidence            888899999999988887753333334444433332    556666666665543 3455667778888888 8888888


Q ss_pred             HHHhhCCC---CChhHHHHHHHHHHcCCcHHHHHHHH---------------------HHcCCHHHHHHHHHHHHHcCCC
Q 043490          158 KVFENMEF---RNVISWNSMIAAFRACKLEAQAIELF---------------------AKMKNEEEALFLFRQLQREGMA  213 (589)
Q Consensus       158 ~lf~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~---------------------~~~g~~~~A~~~~~~m~~~g~~  213 (589)
                      .+++.+..   .+...|..+...|...|++++|++.|                     .+.|++++|...|+++.+.. +
T Consensus       588 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~  666 (899)
T TIGR02917       588 AILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELK-P  666 (899)
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-C
Confidence            88888753   45677888888886666666665543                     45567777777777776542 3


Q ss_pred             CCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC--CCChhHHHHHHHH
Q 043490          214 PDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT--YHDLVSWNSILKA  291 (589)
Q Consensus       214 p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~  291 (589)
                      .+..++..+...+...|+++.|.++++.+.+.. +.+...+..+...|.+.|++++|.+.|+.+.  .|+..++..++..
T Consensus       667 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~  745 (899)
T TIGR02917       667 DNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRA  745 (899)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHH
Confidence            345666677777777777777777777776665 5566666677777777777777777777665  3444566667777


Q ss_pred             HHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHH
Q 043490          292 YALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEA  369 (589)
Q Consensus       292 ~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  369 (589)
                      +.+.|+.++|.+.++++ ...| +...+..+...|...|+.++|.++|+.+.+..  +++...++.+...+.+.|+ .+|
T Consensus       746 ~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~-~~A  822 (899)
T TIGR02917       746 LLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA--PDNAVVLNNLAWLYLELKD-PRA  822 (899)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCc-HHH
Confidence            77777777777777777 3333 45566666677777777777777777775431  3355567777777777777 667


Q ss_pred             HHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          370 EKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       370 ~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      +..++++ ...|+ ..++..+...+...|++++|...++++++.+|.++.++..++.+|.+.|++++|.+++++|.
T Consensus       823 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       823 LEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPEAAAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             HHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            7777766 33443 55666677777777777777777777777777777777777777777777777777777764

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.

>PF14432 DYW_deaminase: DYW family of nucleic acid deaminases

Probab=99.96  E-value=5.7e-30  Score=206.29  Aligned_cols=106  Identities=58%  Similarity=1.066  Sum_probs=96.1

Q ss_pred             ceeeEEECCEEEEEeeCCCCCccHHHHHHHHHHHHHHHHhCCcccCCCccccccchhHH--------hhhhhhhhHHHHH
Q 043490          452 GLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPETSLALHDIEEEHK--------EEQLYHHSEKLAL  523 (589)
Q Consensus       452 ~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~m~~~g~~pd~~~~~~~~~~~~~--------~~~~~~~~~~l~~  523 (589)
                      ++||+++    |.|++|+.+||+.        ++..++...||.|++..+.|++.++++        +..+..||||||+
T Consensus         2 ~~~w~~~----h~F~sgd~shp~~--------~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~d~~~~~~~~~~HSEKlAi   69 (116)
T PF14432_consen    2 GCSWIEV----HSFVSGDRSHPQS--------ELINKMKEEGYVPDTKEVGHDVDEEEKHDYDEEEKEESLCYHSEKLAI   69 (116)
T ss_pred             CCCccce----EEEEeCCCcCccH--------HHHHHHHHcCCcchhhhhCCCchhhhhhhcccccchhhhhccHHHHHH
Confidence            6899876    9999999999997        456788889999999999998877655        5688999999999


Q ss_pred             HHHhhhCCCCCCCCCeEEEEecc-cccCCCchhhHhhhhhhCceEEEecCCcccccc
Q 043490          524 VFAIMNQGSLCRERSVIRIMKNI-RICVDCHNFMKLASDLLGKEIVVRDSNRFHHFK  579 (589)
Q Consensus       524 ~~~l~~~~~~~~~~~~~~~~~~~-~~c~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~  579 (589)
                      ||||+++          +|+||+ |+|+|||+++|+||++.+|+|||||++|||||+
T Consensus        70 afgli~~----------~vvkn~~RvC~DCH~~~K~iS~~~~ReIiVRD~~rfHhFk  116 (116)
T PF14432_consen   70 AFGLINT----------RVVKNLKRVCGDCHSFIKFISKITGREIIVRDSNRFHHFK  116 (116)
T ss_pred             Hhcccce----------eEEecCCccchHHHHHHHHHHHHHCeEEEEeCCCeeeeCC
Confidence            9999874          789999 999999999999999999999999999999996

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

Probab=99.96  E-value=1.2e-24  Score=246.91  Aligned_cols=435  Identities=14%  Similarity=0.057  Sum_probs=244.6

Q ss_pred             ChhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-CcchHHHHH
Q 043490            4 STQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--R-NVVSWTALI   80 (589)
Q Consensus         4 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li   80 (589)
                      +...+..+...+.+.|++++|.++++.+.+..|   .+...+..+...+...|++++|.+.|+++.+  | +...+..++
T Consensus       362 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~  438 (899)
T TIGR02917       362 DPAALSLLGEAYLALGDFEKAAEYLAKATELDP---ENAAARTQLGISKLSQGDPSEAIADLETAAQLDPELGRADLLLI  438 (899)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC---CCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCcchhhHHHHH
Confidence            456677777788888888888888888776544   5666677777777777777777777776543  1 233445555


Q ss_pred             HHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhc----hhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHH
Q 043490           81 SGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCD----YLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADE  155 (589)
Q Consensus        81 ~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~----~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~  155 (589)
                      ..+.+.|++++|+.+++.+.....++..++..+...+.    .+.+...+..+++.. +.+...+..+...+.. |++++
T Consensus       439 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~  517 (899)
T TIGR02917       439 LSYLRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDD  517 (899)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHH
Confidence            66666666666666666665542233333333333322    444555555444332 2233344445555555 55665


Q ss_pred             HHHHHhhCCC---CChhHHHHHHHHHHcCCcHHHHHHHH---------------------HHcCCHHHHHHHHHHHHHcC
Q 043490          156 AWKVFENMEF---RNVISWNSMIAAFRACKLEAQAIELF---------------------AKMKNEEEALFLFRQLQREG  211 (589)
Q Consensus       156 A~~lf~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~---------------------~~~g~~~~A~~~~~~m~~~g  211 (589)
                      |.+.|+++.+   .+..++..+...+.+.|+.++|...+                     .+.|++++|+.+++++....
T Consensus       518 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  597 (899)
T TIGR02917       518 AIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAA  597 (899)
T ss_pred             HHHHHHHHHHhCcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            6555555432   23445555555555555555554442                     33455555555555555432


Q ss_pred             CCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CC--------
Q 043490          212 MAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YH--------  280 (589)
Q Consensus       212 ~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~--------  280 (589)
                       +.+..+|..+..++...|+++.|...+..+.+.. +.+...+..+...|.+.|++++|..+|+++.   +.        
T Consensus       598 -~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  675 (899)
T TIGR02917       598 -PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGL  675 (899)
T ss_pred             -CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence             3344555555555555555555555555555443 3344445555555555555555555555443   12        


Q ss_pred             --------------------------ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHH
Q 043490          281 --------------------------DLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDSATFVSLLSACSHAGLVQEG  333 (589)
Q Consensus       281 --------------------------~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~~g~~~~a  333 (589)
                                                +...+..+...+...|++++|++.|+++ ...|+..++..+..++.+.|++++|
T Consensus       676 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  755 (899)
T TIGR02917       676 AQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEA  755 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHH
Confidence                                      3334444445555555555555555555 4444445555555555555555555


Q ss_pred             HHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Q 043490          334 NKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQL  411 (589)
Q Consensus       334 ~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  411 (589)
                      .+.++.+.+.  .+.+...+..+...|.+.|++++|.+.|+++ ...| +..+++.+...+...|+ ++|+..++++.+.
T Consensus       756 ~~~~~~~l~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~  832 (899)
T TIGR02917       756 VKTLEAWLKT--HPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKL  832 (899)
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhh
Confidence            5555555432  1234445555666666666666666666665 2223 35566666666666666 5566666666666


Q ss_pred             CCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCC
Q 043490          412 EPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRV  447 (589)
Q Consensus       412 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  447 (589)
                      .|+++..+..++.+|...|++++|.++++++.+.+.
T Consensus       833 ~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~  868 (899)
T TIGR02917       833 APNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAP  868 (899)
T ss_pred             CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            666666666666666777777777777776665543

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.

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

Probab=99.87  E-value=2.4e-19  Score=175.24  Aligned_cols=397  Identities=15%  Similarity=0.138  Sum_probs=306.4

Q ss_pred             HHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-CcchHHHHHHHHHhCCChh
Q 043490           14 ACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--R-NVVSWTALISGYAQHGNAE   90 (589)
Q Consensus        14 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~~~~~g~~~   90 (589)
                      .+.+..+++...+--....+..+   .-..+|..+.+.+-..|++++|+..++.+.+  | .+..|..+..++...|+.+
T Consensus        91 i~~q~~r~d~s~a~~~~a~r~~~---q~ae~ysn~aN~~kerg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~  167 (966)
T KOG4626|consen   91 IFFQGSRLDKSSAGSLLAIRKNP---QGAEAYSNLANILKERGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLE  167 (966)
T ss_pred             hhhcccchhhhhhhhhhhhhccc---hHHHHHHHHHHHHHHhchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCc
Confidence            34445555555544444444444   5667888888888888999999988887764  3 5668888888899999999


Q ss_pred             HHHHHHHHHHhccCCCcee----HHHHHHHhc-hhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCC
Q 043490           91 ECFRLFCSLLQYFFPNEFS----LASVLISCD-YLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENME  164 (589)
Q Consensus        91 ~A~~~~~~m~~~~~p~~~t----~~~~l~a~~-~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~  164 (589)
                      .|...|.+.++. .|+.+.    ...++++.. +.+++..+-.++... +.-..+|+.|-..+-. |++..|..-|++..
T Consensus       168 ~a~~~~~~alql-nP~l~ca~s~lgnLlka~Grl~ea~~cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAv  245 (966)
T KOG4626|consen  168 LAVQCFFEALQL-NPDLYCARSDLGNLLKAEGRLEEAKACYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAV  245 (966)
T ss_pred             ccHHHHHHHHhc-CcchhhhhcchhHHHHhhcccchhHHHHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhh
Confidence            998888877764 443332    334444444 555555444444332 1224567777777777 99999999998876


Q ss_pred             C--CC-hhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhCcCcHHHHHHHHH
Q 043490          165 F--RN-VISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPD-WCTFSIVLKACAGLVTERHASAVHS  240 (589)
Q Consensus       165 ~--~~-~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~~~~~~a~~i~~  240 (589)
                      .  |+ ...|-.|...|             ...+.+++|+..|.+....  .|+ ...+..+...|-..|.++.|..-++
T Consensus       246 kldP~f~dAYiNLGnV~-------------ke~~~~d~Avs~Y~rAl~l--rpn~A~a~gNla~iYyeqG~ldlAI~~Yk  310 (966)
T KOG4626|consen  246 KLDPNFLDAYINLGNVY-------------KEARIFDRAVSCYLRALNL--RPNHAVAHGNLACIYYEQGLLDLAIDTYK  310 (966)
T ss_pred             cCCCcchHHHhhHHHHH-------------HHHhcchHHHHHHHHHHhc--CCcchhhccceEEEEeccccHHHHHHHHH
Confidence            4  43 35677777777             8888888888888877663  454 4677777777889999999999999


Q ss_pred             HHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCH-H
Q 043490          241 LIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDS-A  315 (589)
Q Consensus       241 ~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-~  315 (589)
                      +.++.. +.-...|+.|..++-..|++.+|.+.|.+..   .....+.+.|...|...|.+++|..+|... .+.|.- .
T Consensus       311 ral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~~aa  389 (966)
T KOG4626|consen  311 RALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNIYREQGKIEEATRLYLKALEVFPEFAA  389 (966)
T ss_pred             HHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhccchHHHHHHHHHHhhChhhhh
Confidence            988764 4457789999999999999999999999877   234568888999999999999999999998 888864 5


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccC-cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHH
Q 043490          316 TFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ-LDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSC  392 (589)
Q Consensus       316 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~  392 (589)
                      .++.|...|-+.|++++|...+++.+   .++|+ ...|+.+...|-..|+.+.|.+.+.+. .+.|. ....+.|...|
T Consensus       390 a~nNLa~i~kqqgnl~~Ai~~Ykeal---rI~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~  466 (966)
T KOG4626|consen  390 AHNNLASIYKQQGNLDDAIMCYKEAL---RIKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIY  466 (966)
T ss_pred             hhhhHHHHHHhcccHHHHHHHHHHHH---hcCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHh
Confidence            78889999999999999999998876   66785 457888899999999999999998887 77887 77889999999


Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHH
Q 043490          393 RKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNK  434 (589)
Q Consensus       393 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  434 (589)
                      ...|+..+|+..++..++++|+.+.+|..++.+..--.+|.+
T Consensus       467 kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~vcdw~D  508 (966)
T KOG4626|consen  467 KDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIVCDWTD  508 (966)
T ss_pred             hccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHHhcccc
Confidence            999999999999999999999999999888877655555544

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.86  E-value=2.4e-17  Score=189.04  Aligned_cols=430  Identities=12%  Similarity=0.025  Sum_probs=243.6

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHH-HHHHHhcCChHHHHHHHhcCCC--C-CcchHHHHHHHHH
Q 043490            9 ATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHL-INMYAKFGYLDDARHLFDEMPK--R-NVVSWTALISGYA   84 (589)
Q Consensus         9 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~l-i~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~~~   84 (589)
                      ..+...+...|++++|.+.++.+.+..|   ++....... .......|+.++|++.|+++.+  | +...+..+...+.
T Consensus       116 l~~A~ll~~~g~~~eA~~~~~~~l~~~p---~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~~~LA~ll~  192 (1157)
T PRK11447        116 LQQARLLATTGRTEEALASYDKLFNGAP---PELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLRNTLALLLF  192 (1157)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHccCCC---CChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            3445567889999999999999987644   554321111 2222345999999999999875  4 4567888899999


Q ss_pred             hCCChhHHHHHHHHHHhccCCCce----eHHH-------------HHHHhc--------hhhHHHHHHHHHHhcCCCchh
Q 043490           85 QHGNAEECFRLFCSLLQYFFPNEF----SLAS-------------VLISCD--------YLHGKLVHALALKFSLDAHVY  139 (589)
Q Consensus        85 ~~g~~~~A~~~~~~m~~~~~p~~~----t~~~-------------~l~a~~--------~~~~~~~~~~~~~~g~~~~~~  139 (589)
                      ..|+.++|+..|+++... .+...    .+..             .+..+.        ...+...+....+....|+..
T Consensus       193 ~~g~~~eAl~~l~~~~~~-~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~  271 (1157)
T PRK11447        193 SSGRRDEGFAVLEQMAKS-PAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFR  271 (1157)
T ss_pred             ccCCHHHHHHHHHHHhhC-CCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchH
Confidence            999999999999998653 11000    0000             000000        001111111111111122211


Q ss_pred             HHHHHHHHHhc-CCHHHHHHHHhhCCC--C-ChhHHHHHHHHHHcCCcHHHHHHHH------------------------
Q 043490          140 VANALINMYSK-SCADEAWKVFENMEF--R-NVISWNSMIAAFRACKLEAQAIELF------------------------  191 (589)
Q Consensus       140 ~~~~li~~y~~-g~~~~A~~lf~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~------------------------  191 (589)
                       .......+.. |++++|...|++..+  | +...+..+...|.+.|++++|++.|                        
T Consensus       272 -~~~~G~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~  350 (1157)
T PRK11447        272 -ARAQGLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNR  350 (1157)
T ss_pred             -HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhh
Confidence             1122334445 777777777766542  2 4556666666666666655555443                        


Q ss_pred             -----------HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHH-
Q 043490          192 -----------AKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIH-  259 (589)
Q Consensus       192 -----------~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~-  259 (589)
                                 .+.|++++|+..|++..+.. +.+...+..+...+...|++++|.+.++.+++.. +.+...+..+.. 
T Consensus       351 ~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l  428 (1157)
T PRK11447        351 YWLLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANL  428 (1157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence                       24566777777777777643 2344556666677777778888888777777653 333333333333 


Q ss_pred             -----------------------------------------HHHhcCCHHHHHHHHhhcC--CC-ChhHHHHHHHHHHHc
Q 043490          260 -----------------------------------------AYARCGSISLSKQVFDKMT--YH-DLVSWNSILKAYALH  295 (589)
Q Consensus       260 -----------------------------------------~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~  295 (589)
                                                               .+...|++++|.+.|++..  .| +...+..+...|.+.
T Consensus       429 ~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~  508 (1157)
T PRK11447        429 YRQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQA  508 (1157)
T ss_pred             HHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence                                                     3334556666666665554  12 334555556666666


Q ss_pred             CCHHHHHHHHHhC-CCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHh------------------------------
Q 043490          296 GQAKEALQLFSNM-NVQPDS-ATFVSLLSACSHAGLVQEGNKVFHSMLEN------------------------------  343 (589)
Q Consensus       296 g~~~~A~~~~~~m-~~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~------------------------------  343 (589)
                      |++++|...|+++ ...|+. ..+..+...+...++.++|...++.+...                              
T Consensus       509 G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~  588 (1157)
T PRK11447        509 GQRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGK  588 (1157)
T ss_pred             CCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCC
Confidence            6666666666666 444432 22222212222233333333333221000                              


Q ss_pred             -------c-CCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCC
Q 043490          344 -------H-GVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEP  413 (589)
Q Consensus       344 -------~-~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  413 (589)
                             . ..+++...+..+...|.+.|++++|++.|++. ...|+ ...+..+...+...|+.++|+..++++.+..|
T Consensus       589 ~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p  668 (1157)
T PRK11447        589 EAEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPATAN  668 (1157)
T ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCC
Confidence                   0 01123334455666666667777777777666 33443 66666777777777777777777777777777


Q ss_pred             CChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          414 GDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       414 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      +++..+..+..++...|++++|.++++++...
T Consensus       669 ~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        669 DSLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            66666677777777777777777777776654

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

Probab=99.86  E-value=7.4e-18  Score=181.43  Aligned_cols=421  Identities=12%  Similarity=-0.006  Sum_probs=294.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-CcchHHHHHHHH
Q 043490            7 IYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--R-NVVSWTALISGY   83 (589)
Q Consensus         7 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~~   83 (589)
                      .+......+.+.|++++|...|+..++. .   |++..|..+...|.+.|++++|++.+++..+  | +...|..+..+|
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~-~---p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~  204 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIEC-K---PDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAY  204 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc-C---CchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            3455677888899999999999998865 2   5678899999999999999999999998764  3 556899999999


Q ss_pred             HhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhcCCHHHHHHHHhhC
Q 043490           84 AQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSKSCADEAWKVFENM  163 (589)
Q Consensus        84 ~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~g~~~~A~~lf~~m  163 (589)
                      ...|++++|+.-|.........+......++.......+.......++. .+.+...+..+.+.+.....+.+..-++..
T Consensus       205 ~~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  283 (615)
T TIGR00990       205 DGLGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILET-KPENLPSVTFVGNYLQSFRPKPRPAGLEDS  283 (615)
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhc-CCCCCCCHHHHHHHHHHccCCcchhhhhcc
Confidence            9999999999988765443111111111111111011111111111111 111111222221111111111111111111


Q ss_pred             CCCCh---hHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCC-CHHHHHHHHHHHhCcCcHHHHHHH
Q 043490          164 EFRNV---ISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREG-MAP-DWCTFSIVLKACAGLVTERHASAV  238 (589)
Q Consensus       164 ~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g-~~p-~~~t~~~ll~a~~~~~~~~~a~~i  238 (589)
                      .+-+.   ..+..+...+.         + ....+++++|++.|++....+ ..| +...+..+...+...|++++|...
T Consensus       284 ~~~~~~~~~~~~~l~~~~~---------e-~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~  353 (615)
T TIGR00990       284 NELDEETGNGQLQLGLKSP---------E-SKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALAD  353 (615)
T ss_pred             cccccccccchHHHHHHHH---------H-hhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            11111   11111110000         0 023468899999999998765 234 345677777778899999999999


Q ss_pred             HHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-
Q 043490          239 HSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-  313 (589)
Q Consensus       239 ~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-  313 (589)
                      ++..++.. +.+...|..+...|...|++++|...|++..   ..+...|..+...|...|++++|+..|++. .+.|+ 
T Consensus       354 ~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~  432 (615)
T TIGR00990       354 LSKSIELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDF  432 (615)
T ss_pred             HHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccC
Confidence            99998864 4456788899999999999999999999876   345788999999999999999999999999 77775 


Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCH--------HH
Q 043490          314 SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPDS--------VI  384 (589)
Q Consensus       314 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~--------~~  384 (589)
                      ...+..+..++.+.|++++|...|+...+..  +.+...++.+...|...|++++|.+.|++. .+.|+.        ..
T Consensus       433 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~~--P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l  510 (615)
T TIGR00990       433 IFSHIQLGVTQYKEGSIASSMATFRRCKKNF--PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPL  510 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHH
Confidence            5577778888999999999999999987532  235678899999999999999999999986 444431        11


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          385 WSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       385 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      ++..+..+...|++++|...++++++++|++...+..++.+|...|++++|.+.|++..+.
T Consensus       511 ~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       511 INKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            2222233445699999999999999999999889999999999999999999999987653

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

Probab=99.86  E-value=9.7e-20  Score=177.90  Aligned_cols=414  Identities=14%  Similarity=0.160  Sum_probs=328.8

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC---CCcchHHHHHHHHH
Q 043490            8 YATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK---RNVVSWTALISGYA   84 (589)
Q Consensus         8 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~   84 (589)
                      ...|.+..-+.|++.+|++.-..+-...+   .+....-.+-..+.+..+.+....--....+   .-..+|..+.+.+-
T Consensus        51 ~l~lah~~yq~gd~~~a~~h~nmv~~~d~---t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~k  127 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQEDP---TNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILK  127 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccCC---CcccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHH
Confidence            34566777789999999986655444344   4444444445667777777665443322222   24568999999999


Q ss_pred             hCCChhHHHHHHHHHHhccCCCce-eHHHHHHHhc----hhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc--CCHHHHH
Q 043490           85 QHGNAEECFRLFCSLLQYFFPNEF-SLASVLISCD----YLHGKLVHALALKFSLDAHVYVANALINMYSK--SCADEAW  157 (589)
Q Consensus        85 ~~g~~~~A~~~~~~m~~~~~p~~~-t~~~~l~a~~----~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~--g~~~~A~  157 (589)
                      ..|++++|+.+|+.|.+. .|+-. .|..+-.++.    ...+-+.+..+++  +.|+.....+-+.-+.+  |++++|.
T Consensus       128 erg~~~~al~~y~~aiel-~p~fida~inla~al~~~~~~~~a~~~~~~alq--lnP~l~ca~s~lgnLlka~Grl~ea~  204 (966)
T KOG4626|consen  128 ERGQLQDALALYRAAIEL-KPKFIDAYINLAAALVTQGDLELAVQCFFEALQ--LNPDLYCARSDLGNLLKAEGRLEEAK  204 (966)
T ss_pred             HhchHHHHHHHHHHHHhc-CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHh--cCcchhhhhcchhHHHHhhcccchhH
Confidence            999999999999999886 44433 3444333333    4455555555543  46666655554444444  9999998


Q ss_pred             HHHhhCCC--CC-hhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhCcCcHH
Q 043490          158 KVFENMEF--RN-VISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPD-WCTFSIVLKACAGLVTER  233 (589)
Q Consensus       158 ~lf~~m~~--~~-~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~~~~~  233 (589)
                      ..+-+..+  |. .+.|+.|...+             ...|+..+|+..|++...  +.|+ ...|..+...+...+.++
T Consensus       205 ~cYlkAi~~qp~fAiawsnLg~~f-------------~~~Gei~~aiq~y~eAvk--ldP~f~dAYiNLGnV~ke~~~~d  269 (966)
T KOG4626|consen  205 ACYLKAIETQPCFAIAWSNLGCVF-------------NAQGEIWLAIQHYEEAVK--LDPNFLDAYINLGNVYKEARIFD  269 (966)
T ss_pred             HHHHHHHhhCCceeeeehhcchHH-------------hhcchHHHHHHHHHHhhc--CCCcchHHHhhHHHHHHHHhcch
Confidence            88877553  43 46799998888             889999999999999876  4555 357888888999999999


Q ss_pred             HHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC--CC-hhHHHHHHHHHHHcCCHHHHHHHHHhC-C
Q 043490          234 HASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY--HD-LVSWNSILKAYALHGQAKEALQLFSNM-N  309 (589)
Q Consensus       234 ~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~  309 (589)
                      .|...+..+.... +....++..|...|-..|.+|.|...|++..+  |+ ..+|+.|..++-..|+..+|.+.|.+. .
T Consensus       270 ~Avs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~  348 (966)
T KOG4626|consen  270 RAVSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALR  348 (966)
T ss_pred             HHHHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHH
Confidence            9999988887664 55677888888999999999999999999874  43 469999999999999999999999999 7


Q ss_pred             CCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccC-cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHH
Q 043490          310 VQPDS-ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ-LDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIW  385 (589)
Q Consensus       310 ~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~  385 (589)
                      ..|+. .+.+.|...+...|.+++|..+|....   .+.|. ....+.|...|-+.|++++|+..+++. .++|+ ...+
T Consensus       349 l~p~hadam~NLgni~~E~~~~e~A~~ly~~al---~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~  425 (966)
T KOG4626|consen  349 LCPNHADAMNNLGNIYREQGKIEEATRLYLKAL---EVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADAL  425 (966)
T ss_pred             hCCccHHHHHHHHHHHHHhccchHHHHHHHHHH---hhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHH
Confidence            77875 588999999999999999999998775   44564 457889999999999999999999988 88998 8899


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          386 SVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       386 ~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      +.+...|...|+.+.|.+.+.+++..+|.-..++..|..+|-.+|+..+|+.-++...+..
T Consensus       426 ~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklk  486 (966)
T KOG4626|consen  426 SNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLK  486 (966)
T ss_pred             HhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccC
Confidence            9999999999999999999999999999888999999999999999999999999887644

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.86  E-value=3.7e-17  Score=187.48  Aligned_cols=423  Identities=14%  Similarity=0.090  Sum_probs=280.8

Q ss_pred             HHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--CCc---chHHHH--------
Q 043490           13 HACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--RNV---VSWTAL--------   79 (589)
Q Consensus        13 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~~~---~~~~~l--------   79 (589)
                      ..+...|++++|...++.+++..|   .+..++..|...|.+.|++++|+..|++..+  |+.   ..|..+        
T Consensus       277 ~~~~~~g~~~~A~~~l~~aL~~~P---~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~  353 (1157)
T PRK11447        277 LAAVDSGQGGKAIPELQQAVRANP---KDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWL  353 (1157)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHH
Confidence            344556777777777777766545   5666677777777777777777777766543  221   122222        


Q ss_pred             ----HHHHHhCCChhHHHHHHHHHHhccCCCce-eHHHHHHHhc----hhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc
Q 043490           80 ----ISGYAQHGNAEECFRLFCSLLQYFFPNEF-SLASVLISCD----YLHGKLVHALALKFSLDAHVYVANALINMYSK  150 (589)
Q Consensus        80 ----i~~~~~~g~~~~A~~~~~~m~~~~~p~~~-t~~~~l~a~~----~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~  150 (589)
                          ...+.+.|++++|+..|++..+. .|+.. .+..+-....    .+.+...+..+++.. +.+...+..+...|..
T Consensus       354 ~~~~g~~~~~~g~~~eA~~~~~~Al~~-~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~  431 (1157)
T PRK11447        354 LIQQGDAALKANNLAQAERLYQQARQV-DNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQ  431 (1157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHh
Confidence                23455667777777777776654 22222 1111111111    445555555555432 1223334444444433


Q ss_pred             CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcC
Q 043490          151 SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLV  230 (589)
Q Consensus       151 g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~  230 (589)
                      ++.++|...++.++.............+ ....+..--+.+...|++++|++.|++..+.. +-+...+..+...+.+.|
T Consensus       432 ~~~~~A~~~l~~l~~~~~~~~~~~~~~l-~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G  509 (1157)
T PRK11447        432 QSPEKALAFIASLSASQRRSIDDIERSL-QNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAG  509 (1157)
T ss_pred             cCHHHHHHHHHhCCHHHHHHHHHHHHHh-hhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence            4455666555554422111110000000 00000000112367899999999999998853 224567778888899999


Q ss_pred             cHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCC----Chh---------HHHHHHHHHHHcCC
Q 043490          231 TERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYH----DLV---------SWNSILKAYALHGQ  297 (589)
Q Consensus       231 ~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~---------~~~~li~~~~~~g~  297 (589)
                      +.++|...++.+++.. +.+...+..+...+...|+.++|...++.+...    +..         .+..+...+...|+
T Consensus       510 ~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~  588 (1157)
T PRK11447        510 QRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGK  588 (1157)
T ss_pred             CHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCC
Confidence            9999999999998764 456666666666778899999999999998632    111         12345667889999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 043490          298 AKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM  376 (589)
Q Consensus       298 ~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m  376 (589)
                      .++|+++++.-  +++...+..+...+.+.|++++|.+.|+...+.   .| +...+..+...|...|++++|++.++..
T Consensus       589 ~~eA~~~l~~~--p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~---~P~~~~a~~~la~~~~~~g~~~eA~~~l~~l  663 (1157)
T PRK11447        589 EAEAEALLRQQ--PPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR---EPGNADARLGLIEVDIAQGDLAAARAQLAKL  663 (1157)
T ss_pred             HHHHHHHHHhC--CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            99999999853  334456777888899999999999999998754   44 5678889999999999999999999988


Q ss_pred             -CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCh------hHHHHHHHHhhhcCChHHHHHHHHHHh-cCCC
Q 043490          377 -PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDS------LGFVQMSNIYCLSGSFNKARLIRKEMK-GSRV  447 (589)
Q Consensus       377 -~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~------~~~~~l~~~~~~~g~~~~a~~~~~~m~-~~~~  447 (589)
                       ...|+ ..++..+..++...|++++|.+.++++.+..|+++      ..+..++.++.+.|++++|...+++.. ..|+
T Consensus       664 l~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~~  743 (1157)
T PRK11447        664 PATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVASGI  743 (1157)
T ss_pred             hccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcCC
Confidence             44554 66777888899999999999999999998765443      356677899999999999999998775 3444


Q ss_pred             c
Q 043490          448 R  448 (589)
Q Consensus       448 ~  448 (589)
                      .
T Consensus       744 ~  744 (1157)
T PRK11447        744 T  744 (1157)
T ss_pred             C
Confidence            3

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.85  E-value=8.8e-19  Score=178.94  Aligned_cols=287  Identities=12%  Similarity=0.118  Sum_probs=240.0

Q ss_pred             Hhc-CCHHHHHHHHhhCCC--C-ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC---HHHHH
Q 043490          148 YSK-SCADEAWKVFENMEF--R-NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPD---WCTFS  220 (589)
Q Consensus       148 y~~-g~~~~A~~lf~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~t~~  220 (589)
                      +.. |++++|...|.++.+  | +..+|..+...+             ...|++++|..+++.+...+..++   ..++.
T Consensus        45 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~-------------~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~  111 (389)
T PRK11788         45 FLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLF-------------RRRGEVDRAIRIHQNLLSRPDLTREQRLLALQ  111 (389)
T ss_pred             HHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHH-------------HHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHH
Confidence            445 999999999999874  3 455788888888             899999999999999987543222   25678


Q ss_pred             HHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCC--------hhHHHHHHHHH
Q 043490          221 IVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHD--------LVSWNSILKAY  292 (589)
Q Consensus       221 ~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--------~~~~~~li~~~  292 (589)
                      .+...+...|+++.|..++..+.+.. +.+..+++.++..|.+.|++++|.+.|+.+.+.+        ...|..+...+
T Consensus       112 ~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~  190 (389)
T PRK11788        112 ELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQA  190 (389)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHH
Confidence            88889999999999999999998764 5678899999999999999999999999986321        12456677888


Q ss_pred             HHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccC--cchHHHHHHHHhhcCCHHH
Q 043490          293 ALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ--LDHYACMVDLLGRVGRILE  368 (589)
Q Consensus       293 ~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~  368 (589)
                      .+.|+.++|+..|+++ ...|+ ..++..+...+.+.|++++|.++++.+.+.   .|+  ..+++.++.+|.+.|++++
T Consensus       191 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~---~p~~~~~~~~~l~~~~~~~g~~~~  267 (389)
T PRK11788        191 LARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQ---DPEYLSEVLPKLMECYQALGDEAE  267 (389)
T ss_pred             HhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH---ChhhHHHHHHHHHHHHHHcCCHHH
Confidence            9999999999999999 66665 457778888999999999999999998753   343  4567889999999999999


Q ss_pred             HHHHHHhC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhh---cCChHHHHHHHHHHhc
Q 043490          369 AEKLIREM-PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCL---SGSFNKARLIRKEMKG  444 (589)
Q Consensus       369 A~~~~~~m-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~---~g~~~~a~~~~~~m~~  444 (589)
                      |...++++ ...|+...+..+...+.+.|++++|..+++++.+..|++ ..+..++..+..   .|+.+++..++++|.+
T Consensus       268 A~~~l~~~~~~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~-~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~  346 (389)
T PRK11788        268 GLEFLRRALEEYPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSL-RGFHRLLDYHLAEAEEGRAKESLLLLRDLVG  346 (389)
T ss_pred             HHHHHHHHHHhCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCH-HHHHHHHHHhhhccCCccchhHHHHHHHHHH
Confidence            99999998 557887777889999999999999999999999999955 466666666554   5699999999999999


Q ss_pred             CCCccCCc
Q 043490          445 SRVRKYPG  452 (589)
Q Consensus       445 ~~~~~~~~  452 (589)
                      ++++++|.
T Consensus       347 ~~~~~~p~  354 (389)
T PRK11788        347 EQLKRKPR  354 (389)
T ss_pred             HHHhCCCC
Confidence            99998885

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.85  E-value=1.8e-18  Score=176.62  Aligned_cols=284  Identities=15%  Similarity=0.150  Sum_probs=211.3

Q ss_pred             HHHHHhcCChHHHHHHHhcCCC--C-CcchHHHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHH
Q 043490           49 INMYAKFGYLDDARHLFDEMPK--R-NVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLV  125 (589)
Q Consensus        49 i~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~  125 (589)
                      ...+...|++++|...|+++.+  | +..+|..+...+.+.|++++|+.+++.+...  |+...                
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~--~~~~~----------------  103 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSR--PDLTR----------------  103 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcC--CCCCH----------------
Confidence            3445677888888888888764  3 3456778888888888888888888888764  11000                


Q ss_pred             HHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCC---CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHH
Q 043490          126 HALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEF---RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEAL  201 (589)
Q Consensus       126 ~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~  201 (589)
                               .....++..+...|.+ |++++|..+|+++.+   .+..+++.++..+             .+.|++++|+
T Consensus       104 ---------~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~-------------~~~g~~~~A~  161 (389)
T PRK11788        104 ---------EQRLLALQELGQDYLKAGLLDRAEELFLQLVDEGDFAEGALQQLLEIY-------------QQEKDWQKAI  161 (389)
T ss_pred             ---------HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCcchHHHHHHHHHHH-------------HHhchHHHHH
Confidence                     0012356677778888 888888888888764   4566788888888             8888888888


Q ss_pred             HHHHHHHHcCCCCCH----HHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhc
Q 043490          202 FLFRQLQREGMAPDW----CTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKM  277 (589)
Q Consensus       202 ~~~~~m~~~g~~p~~----~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  277 (589)
                      +.++++...+..++.    ..+..+...+...|++++|...++.+.+.. +.+...+..+...|.+.|++++|.+.|+++
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~  240 (389)
T PRK11788        162 DVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERV  240 (389)
T ss_pred             HHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            888888776544332    234556667778888888888888888764 445667778888888888888888888887


Q ss_pred             CC--CC--hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcch
Q 043490          278 TY--HD--LVSWNSILKAYALHGQAKEALQLFSNM-NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDH  352 (589)
Q Consensus       278 ~~--~~--~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~  352 (589)
                      .+  |+  ..+++.++.+|...|+.++|...++++ ...|+...+..+...+.+.|++++|.++++.+.+.   .|+...
T Consensus       241 ~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~---~P~~~~  317 (389)
T PRK11788        241 EEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALAQLLEEQEGPEAAQALLREQLRR---HPSLRG  317 (389)
T ss_pred             HHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh---CcCHHH
Confidence            73  33  245778888888888888888888888 66777777777888888888888888888877643   577777


Q ss_pred             HHHHHHHHhh---cCCHHHHHHHHHhC
Q 043490          353 YACMVDLLGR---VGRILEAEKLIREM  376 (589)
Q Consensus       353 ~~~li~~~~~---~g~~~~A~~~~~~m  376 (589)
                      ++.++..+..   .|+.+++..++++|
T Consensus       318 ~~~l~~~~~~~~~~g~~~~a~~~~~~~  344 (389)
T PRK11788        318 FHRLLDYHLAEAEEGRAKESLLLLRDL  344 (389)
T ss_pred             HHHHHHHhhhccCCccchhHHHHHHHH
Confidence            8877777664   45888888888877

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.82  E-value=2.9e-16  Score=172.23  Aligned_cols=391  Identities=12%  Similarity=0.040  Sum_probs=283.7

Q ss_pred             hhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-CcchHHHHHH
Q 043490            5 TQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--R-NVVSWTALIS   81 (589)
Q Consensus         5 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~   81 (589)
                      +.-..-.+......|+.++|.+++.......+   .+...+..+...+...|++++|..+|++..+  | +...+..+..
T Consensus        15 ~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~~---~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~   91 (765)
T PRK10049         15 NNQIADWLQIALWAGQDAEVITVYNRYRVHMQ---LPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLIL   91 (765)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            34455667788889999999999998876434   6666789999999999999999999998542  3 5667888889


Q ss_pred             HHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHH
Q 043490           82 GYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVF  160 (589)
Q Consensus        82 ~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf  160 (589)
                      .+.+.|++++|+..+++..+. .                              +.+.. +..+..++.. |+.++|...+
T Consensus        92 ~l~~~g~~~eA~~~l~~~l~~-~------------------------------P~~~~-~~~la~~l~~~g~~~~Al~~l  139 (765)
T PRK10049         92 TLADAGQYDEALVKAKQLVSG-A------------------------------PDKAN-LLALAYVYKRAGRHWDELRAM  139 (765)
T ss_pred             HHHHCCCHHHHHHHHHHHHHh-C------------------------------CCCHH-HHHHHHHHHHCCCHHHHHHHH
Confidence            999999999999999998765 1                              22334 6667777888 9999999999


Q ss_pred             hhCCC--C-ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH------HHHHHHHHHH-----
Q 043490          161 ENMEF--R-NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDW------CTFSIVLKAC-----  226 (589)
Q Consensus       161 ~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~------~t~~~ll~a~-----  226 (589)
                      ++..+  | +...+..+...+             ...|..++|++.+++...   .|+.      .....++...     
T Consensus       140 ~~al~~~P~~~~~~~~la~~l-------------~~~~~~e~Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~  203 (765)
T PRK10049        140 TQALPRAPQTQQYPTEYVQAL-------------RNNRLSAPALGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTR  203 (765)
T ss_pred             HHHHHhCCCCHHHHHHHHHHH-------------HHCCChHHHHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhccccc
Confidence            98764  3 445566677777             666777777776665442   2221      0111112221     


Q ss_pred             hCcCcH---HHHHHHHHHHHHh-CCCCcHH-HH-HH---HHHHHHhcCCHHHHHHHHhhcCCCC---hh-HHHHHHHHHH
Q 043490          227 AGLVTE---RHASAVHSLIAKY-GFEDDTV-IA-NA---LIHAYARCGSISLSKQVFDKMTYHD---LV-SWNSILKAYA  293 (589)
Q Consensus       227 ~~~~~~---~~a~~i~~~~~~~-g~~~~~~-~~-~~---li~~~~~~g~~~~A~~~~~~~~~~~---~~-~~~~li~~~~  293 (589)
                      ...+.+   +.|.+.++.+.+. .-.|+.. .+ .+   .+..+...|++++|...|+.+...+   +. .-..+...|.
T Consensus       204 ~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl  283 (765)
T PRK10049        204 SEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYL  283 (765)
T ss_pred             ChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHH
Confidence            112233   6777788887754 2222221 11 11   1233456789999999999988432   11 1222567889


Q ss_pred             HcCCHHHHHHHHHhC-CCCCCH-----HHHHHHHHHHhccCcHHHHHHHHHHhHHhcC----------CccC---cchHH
Q 043490          294 LHGQAKEALQLFSNM-NVQPDS-----ATFVSLLSACSHAGLVQEGNKVFHSMLENHG----------VVPQ---LDHYA  354 (589)
Q Consensus       294 ~~g~~~~A~~~~~~m-~~~p~~-----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~----------~~p~---~~~~~  354 (589)
                      ..|++++|+..|+++ ...|..     .....+..++...|++++|.++++.+.....          -.|+   ...+.
T Consensus       284 ~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~  363 (765)
T PRK10049        284 KLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQS  363 (765)
T ss_pred             hcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHH
Confidence            999999999999998 444432     3456667778899999999999998865321          0122   12345


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCCh
Q 043490          355 CMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSF  432 (589)
Q Consensus       355 ~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  432 (589)
                      .+...+...|++++|++.++++ ...|+ ...+..+...+...|++++|++.++++++++|++...+..++..+.+.|++
T Consensus       364 ~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~  443 (765)
T PRK10049        364 LLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEW  443 (765)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCH
Confidence            6778888999999999999998 44554 788899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCC
Q 043490          433 NKARLIRKEMKGSR  446 (589)
Q Consensus       433 ~~a~~~~~~m~~~~  446 (589)
                      ++|..+++.+.+..
T Consensus       444 ~~A~~~~~~ll~~~  457 (765)
T PRK10049        444 RQMDVLTDDVVARE  457 (765)
T ss_pred             HHHHHHHHHHHHhC
Confidence            99999999987643

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.81  E-value=2.6e-15  Score=165.13  Aligned_cols=432  Identities=10%  Similarity=-0.011  Sum_probs=302.3

Q ss_pred             ChhHHHHH-HHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHh-cCChHHHHHHHhcCCCCCcchHHHHHH
Q 043490            4 STQIYATL-FHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAK-FGYLDDARHLFDEMPKRNVVSWTALIS   81 (589)
Q Consensus         4 ~~~~~~~l-l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~~A~~~f~~m~~~~~~~~~~li~   81 (589)
                      ++.+.... .+.+.+.|++++|..++..+.+..+   .+......|..+|.. .++ ++|..++....+.|+..+..+..
T Consensus       180 ~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~p---l~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~  255 (987)
T PRK09782        180 EGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNT---LSAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYAT  255 (987)
T ss_pred             CcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCC---CCHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHH
Confidence            34445555 8999999999999999999999855   667767888888888 477 99999987655578899999999


Q ss_pred             HHHhCCChhHHHHHHHHHHhc--cCCCceeHHHHHHHhc-h----------------------------hhHHHHHHHHH
Q 043490           82 GYAQHGNAEECFRLFCSLLQY--FFPNEFSLASVLISCD-Y----------------------------LHGKLVHALAL  130 (589)
Q Consensus        82 ~~~~~g~~~~A~~~~~~m~~~--~~p~~~t~~~~l~a~~-~----------------------------~~~~~~~~~~~  130 (589)
                      .|.+.|+.++|.++++++...  ..|+..++.-.+.-.. .                            ..+.......+
T Consensus       256 ~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  335 (987)
T PRK09782        256 ALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKL  335 (987)
T ss_pred             HHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHH
Confidence            999999999999999998776  4466666655544332 0                            00000000001


Q ss_pred             HhcCCCchh----------------------------------HHHHHHHHHhc-CCHHHHHHHHhhCCC--C----Chh
Q 043490          131 KFSLDAHVY----------------------------------VANALINMYSK-SCADEAWKVFENMEF--R----NVI  169 (589)
Q Consensus       131 ~~g~~~~~~----------------------------------~~~~li~~y~~-g~~~~A~~lf~~m~~--~----~~~  169 (589)
                       ....|...                                  ..--+.-...+ |+.++|.++|...-.  +    +..
T Consensus       336 -~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  414 (987)
T PRK09782        336 -LATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQT  414 (987)
T ss_pred             -hcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHH
Confidence             01111111                                  11111112233 555666666655432  1    122


Q ss_pred             HHHHHHHHHHcCCc---HHHHHHHH---------HHcCCHHHHHHHHHHHHHc-CC-CC--CHHHHHHHHHHHhCcCcHH
Q 043490          170 SWNSMIAAFRACKL---EAQAIELF---------AKMKNEEEALFLFRQLQRE-GM-AP--DWCTFSIVLKACAGLVTER  233 (589)
Q Consensus       170 ~~~~li~~~~~~g~---~~~a~~~~---------~~~g~~~~A~~~~~~m~~~-g~-~p--~~~t~~~ll~a~~~~~~~~  233 (589)
                      .-+-++..|.+.+.   ..++..+-         .-.|+..++.......... +. ++  +...|..+..++.. ++.+
T Consensus       415 l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~  493 (987)
T PRK09782        415 LMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPG  493 (987)
T ss_pred             HHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcH
Confidence            33355556655544   22222220         0123333323223322221 12 23  45666666666665 7888


Q ss_pred             HHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC--CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CC
Q 043490          234 HASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT--YHDLVSWNSILKAYALHGQAKEALQLFSNM-NV  310 (589)
Q Consensus       234 ~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~  310 (589)
                      +|...+.......  |+......+...+...|++++|...|+++.  .++...+..+...+.+.|+.++|...|++. ..
T Consensus       494 eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l  571 (987)
T PRK09782        494 VALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQR  571 (987)
T ss_pred             HHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            8999887777653  555444455556678999999999999876  345566777888899999999999999999 66


Q ss_pred             CCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHH
Q 043490          311 QPDSA-TFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSV  387 (589)
Q Consensus       311 ~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~  387 (589)
                      .|+.. .+..+.......|++++|...++...+   +.|+...|..+..++.+.|+.++|+..+++. ...|+ ...++.
T Consensus       572 ~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~---l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~n  648 (987)
T PRK09782        572 GLGDNALYWWLHAQRYIPGQPELALNDLTRSLN---IAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAA  648 (987)
T ss_pred             CCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH---hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            66554 333444455567999999999998874   4677888999999999999999999999988 66776 778888


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          388 LLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       388 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      +..++...|+.++|+..++++++.+|.++..+..+..+|...|++++|...+++..+..
T Consensus       649 LG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        649 LGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            88899999999999999999999999999999999999999999999999999987654

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.81  E-value=2.1e-15  Score=165.77  Aligned_cols=418  Identities=12%  Similarity=0.044  Sum_probs=282.8

Q ss_pred             ccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--CCcchHHHHHHHHHhCCChhHHHH
Q 043490           17 LHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--RNVVSWTALISGYAQHGNAEECFR   94 (589)
Q Consensus        17 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~~~~~~~~li~~~~~~g~~~~A~~   94 (589)
                      ..|++++|...|+++++..|   .+..++..|...|.+.|+.++|+..+++..+  |+-.-|..++..+   +++.+|..
T Consensus        56 ~~Gd~~~A~~~l~~Al~~dP---~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~n~~~~~~La~i---~~~~kA~~  129 (987)
T PRK09782         56 KNNDEATAIREFEYIHQQVP---DNIPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPGDARLERSLAAI---PVEVKSVT  129 (987)
T ss_pred             hCCCHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHh---ccChhHHH
Confidence            44899999999999998877   7788899999999999999999999998765  3323333333322   78888889


Q ss_pred             HHHHHHhccCCCceeHHHHHHHh---------c-hhhHHHHHHHHHHhcCCCchhHHHHH-HHHHhc-CCHHHHHHHHhh
Q 043490           95 LFCSLLQYFFPNEFSLASVLISC---------D-YLHGKLVHALALKFSLDAHVYVANAL-INMYSK-SCADEAWKVFEN  162 (589)
Q Consensus        95 ~~~~m~~~~~p~~~t~~~~l~a~---------~-~~~~~~~~~~~~~~g~~~~~~~~~~l-i~~y~~-g~~~~A~~lf~~  162 (589)
                      +|+++... .|+......++...         . .+.+..... .......|+..+.... ...|.+ |++++|.+++.+
T Consensus       130 ~ye~l~~~-~P~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~  207 (987)
T PRK09782        130 TVEELLAQ-QKACDAVPTLRCRSEVGQNALRLAQLPVARAQLN-DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNE  207 (987)
T ss_pred             HHHHHHHh-CCCChhHHHHHHHHhhccchhhhhhHHHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHH
Confidence            99988876 33333332222221         1 333333333 2222222333333333 555555 555555555544


Q ss_pred             CC----------------------------------CCChhHHHHHHHHHHcCCcHHHHHHHH-----------------
Q 043490          163 ME----------------------------------FRNVISWNSMIAAFRACKLEAQAIELF-----------------  191 (589)
Q Consensus       163 m~----------------------------------~~~~~~~~~li~~~~~~g~~~~a~~~~-----------------  191 (589)
                      +.                                  +.|...+..+...|.+.|+.++|.+.+                 
T Consensus       208 L~k~~pl~~~~~~~L~~ay~q~l~~~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~  287 (987)
T PRK09782        208 ARQQNTLSAAERRQWFDVLLAGQLDDRLLALQSQGIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWL  287 (987)
T ss_pred             HHhcCCCCHHHHHHHHHHHHHhhCHHHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHH
Confidence            32                                  123444555666666666666665441                 


Q ss_pred             --------------------------------------------------------------------------------
Q 043490          192 --------------------------------------------------------------------------------  191 (589)
Q Consensus       192 --------------------------------------------------------------------------------  191 (589)
                                                                                                      
T Consensus       288 ~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~  367 (987)
T PRK09782        288 YLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRLARL  367 (987)
T ss_pred             HHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHHHHH
Confidence                                                                                            


Q ss_pred             -------------------HHcCCHHHHHHHHHHHHHc-C-CCCCHHHHHHHHHHHhCcCc---HHHHHHH---------
Q 043490          192 -------------------AKMKNEEEALFLFRQLQRE-G-MAPDWCTFSIVLKACAGLVT---ERHASAV---------  238 (589)
Q Consensus       192 -------------------~~~g~~~~A~~~~~~m~~~-g-~~p~~~t~~~ll~a~~~~~~---~~~a~~i---------  238 (589)
                                         .+.|+.++|.++|++.... + -.++.....-++..+.+.+.   ...+..+         
T Consensus       368 ~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~  447 (987)
T PRK09782        368 LYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQ  447 (987)
T ss_pred             HHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchh
Confidence                               4567777777777776552 1 22333344456666655544   2222111         


Q ss_pred             -------------HHHHHHh-CC-CC--cHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHH--HHHcCCHH
Q 043490          239 -------------HSLIAKY-GF-ED--DTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKA--YALHGQAK  299 (589)
Q Consensus       239 -------------~~~~~~~-g~-~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~--~~~~g~~~  299 (589)
                                   .....+. +. ++  +...+..+...+.. |+.++|...|.+.....+..++.+..+  +.+.|+++
T Consensus       448 ~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~Pd~~~~L~lA~al~~~Gr~e  526 (987)
T PRK09782        448 RQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQPDAWQHRAVAYQAYQVEDYA  526 (987)
T ss_pred             HHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhCCchHHHHHHHHHHHHCCCHH
Confidence                         1111111 11 34  66777888888877 788889987777653222344444444  46899999


Q ss_pred             HHHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCc-chHHHHHHHHhhcCCHHHHHHHHHhC-
Q 043490          300 EALQLFSNM-NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQL-DHYACMVDLLGRVGRILEAEKLIREM-  376 (589)
Q Consensus       300 ~A~~~~~~m-~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m-  376 (589)
                      +|+..|+++ ...|+...+..+..++.+.|+.++|.+.++...+.   .|+. ..+..+...+.+.|++++|...+++. 
T Consensus       527 eAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l---~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL  603 (987)
T PRK09782        527 TALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQR---GLGDNALYWWLHAQRYIPGQPELALNDLTRSL  603 (987)
T ss_pred             HHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCccHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            999999999 55666666777788889999999999999988653   3432 23333334445569999999999988 


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          377 PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       377 ~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      ...|+...|..+..++.+.|++++|+..++++.+++|+++..+..+..++...|++++|+..+++..+..
T Consensus       604 ~l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~  673 (987)
T PRK09782        604 NIAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGL  673 (987)
T ss_pred             HhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            6678888999999999999999999999999999999999999999999999999999999999887653

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.81  E-value=2.7e-16  Score=168.89  Aligned_cols=314  Identities=11%  Similarity=0.020  Sum_probs=169.7

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-CcchHHHHHHHHHhCC
Q 043490           11 LFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--R-NVVSWTALISGYAQHG   87 (589)
Q Consensus        11 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~~~~~g   87 (589)
                      ++..+.+.|++++|..+++.++...|   .+......++......|++++|...|+++.+  | +...|..+...+.+.|
T Consensus        48 ~~~~~~~~g~~~~A~~l~~~~l~~~p---~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~~g  124 (656)
T PRK15174         48 FAIACLRKDETDVGLTLLSDRVLTAK---NGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLLKSK  124 (656)
T ss_pred             HHHHHHhcCCcchhHHHhHHHHHhCC---CchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcC
Confidence            44555566666666666666665544   4444555555555566666666666666543  2 3445566666666666


Q ss_pred             ChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCC--
Q 043490           88 NAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENME--  164 (589)
Q Consensus        88 ~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~--  164 (589)
                      ++++|+..|++..+. .                              +.+...+..+...|.. |++++|...++.+.  
T Consensus       125 ~~~~Ai~~l~~Al~l-~------------------------------P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~  173 (656)
T PRK15174        125 QYATVADLAEQAWLA-F------------------------------SGNSQIFALHLRTLVLMDKELQAISLARTQAQE  173 (656)
T ss_pred             CHHHHHHHHHHHHHh-C------------------------------CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHh
Confidence            666666666665542 1                              1223344555555666 66666666665542  


Q ss_pred             CCC-hhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHH
Q 043490          165 FRN-VISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIA  243 (589)
Q Consensus       165 ~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~  243 (589)
                      .|+ ...+..+ ..+             .+.|++++|...++++......++...+..+..++...|+.++|.+.++.+.
T Consensus       174 ~P~~~~a~~~~-~~l-------------~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al  239 (656)
T PRK15174        174 VPPRGDMIATC-LSF-------------LNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESAL  239 (656)
T ss_pred             CCCCHHHHHHH-HHH-------------HHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            122 2222222 224             5556666666666665544322333334444455556666666666666666


Q ss_pred             HhCCCCcHHHHHHHHHHHHhcCCHHH----HHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCH-
Q 043490          244 KYGFEDDTVIANALIHAYARCGSISL----SKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDS-  314 (589)
Q Consensus       244 ~~g~~~~~~~~~~li~~~~~~g~~~~----A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-  314 (589)
                      +.. +.+...+..+...|...|++++    |...|++..   ..+...+..+...+.+.|++++|+..+++. ...|+. 
T Consensus       240 ~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~  318 (656)
T PRK15174        240 ARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLP  318 (656)
T ss_pred             hcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCH
Confidence            554 4445555566666666666654    555555554   223445556666666666666666666666 444442 


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcc-hHHHHHHHHhhcCCHHHHHHHHHhC
Q 043490          315 ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLD-HYACMVDLLGRVGRILEAEKLIREM  376 (589)
Q Consensus       315 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m  376 (589)
                      .....+..++...|++++|...++.+...   .|+.. .+..+..++...|+.++|.+.|++.
T Consensus       319 ~a~~~La~~l~~~G~~~eA~~~l~~al~~---~P~~~~~~~~~a~al~~~G~~deA~~~l~~a  378 (656)
T PRK15174        319 YVRAMYARALRQVGQYTAASDEFVQLARE---KGVTSKWNRYAAAALLQAGKTSEAESVFEHY  378 (656)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CccchHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            34444555555666666666666555432   23322 2222344555566666666666554

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.80  E-value=3.8e-16  Score=167.80  Aligned_cols=321  Identities=12%  Similarity=0.018  Sum_probs=251.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHhcCCC--C-CcchHHHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhH
Q 043490           46 NHLINMYAKFGYLDDARHLFDEMPK--R-NVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHG  122 (589)
Q Consensus        46 ~~li~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~  122 (589)
                      .-.+..+.+.|++++|+.+++....  | +...+..++.+....|++++|+..|+++... .                  
T Consensus        46 ~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~-~------------------  106 (656)
T PRK15174         46 ILFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAV-N------------------  106 (656)
T ss_pred             HHHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHh-C------------------
Confidence            3455667788999999998887653  2 4456666667777899999999999988764 2                  


Q ss_pred             HHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCC--C-ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHH
Q 043490          123 KLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEF--R-NVISWNSMIAAFRACKLEAQAIELFAKMKNEE  198 (589)
Q Consensus       123 ~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~  198 (589)
                                  +.+...+..+...+.+ |++++|...|++...  | +...|..+...+             .+.|+++
T Consensus       107 ------------P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l-------------~~~g~~~  161 (656)
T PRK15174        107 ------------VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTL-------------VLMDKEL  161 (656)
T ss_pred             ------------CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH-------------HHCCChH
Confidence                        2234456667778888 999999999998764  3 566788888888             9999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC
Q 043490          199 EALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT  278 (589)
Q Consensus       199 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  278 (589)
                      +|...++++......+ ...+.. +..+...|++++|...++.+++..-.++......+...+.+.|++++|...|++..
T Consensus       162 eA~~~~~~~~~~~P~~-~~a~~~-~~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al  239 (656)
T PRK15174        162 QAISLARTQAQEVPPR-GDMIAT-CLSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESAL  239 (656)
T ss_pred             HHHHHHHHHHHhCCCC-HHHHHH-HHHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            9999999887654322 223323 33477889999999999998876533445555666788899999999999999876


Q ss_pred             ---CCChhHHHHHHHHHHHcCCHHH----HHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-
Q 043490          279 ---YHDLVSWNSILKAYALHGQAKE----ALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-  348 (589)
Q Consensus       279 ---~~~~~~~~~li~~~~~~g~~~~----A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-  348 (589)
                         ..+...+..+...|...|++++    |+..|++. ...|+ ...+..+...+...|++++|...++...+.   .| 
T Consensus       240 ~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l---~P~  316 (656)
T PRK15174        240 ARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT---HPD  316 (656)
T ss_pred             hcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCC
Confidence               3456788889999999999986    89999999 77776 457888889999999999999999998753   45 


Q ss_pred             CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHH-HHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC
Q 043490          349 QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPDSVI-WSVLLGSCRKHGETRLAELAATKLKQLEPGD  415 (589)
Q Consensus       349 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~-~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  415 (589)
                      +...+..+...|.+.|++++|.+.++++ ...|+... +..+..++...|+.++|...++++.+..|++
T Consensus       317 ~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~  385 (656)
T PRK15174        317 LPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASH  385 (656)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhh
Confidence            3456777889999999999999999988 45676433 4445678899999999999999999998865

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.78  E-value=4.3e-15  Score=163.10  Aligned_cols=367  Identities=13%  Similarity=0.061  Sum_probs=276.0

Q ss_pred             hhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-CcchHHHHHH
Q 043490            5 TQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--R-NVVSWTALIS   81 (589)
Q Consensus         5 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~   81 (589)
                      ...+..+...+...|++++|.++++..++..|   .+...+..+...+...|++++|+..+++..+  | +.. |..+..
T Consensus        49 a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P---~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~P~~~~-~~~la~  124 (765)
T PRK10049         49 ARGYAAVAVAYRNLKQWQNSLTLWQKALSLEP---QNDDYQRGLILTLADAGQYDEALVKAKQLVSGAPDKAN-LLALAY  124 (765)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHH
Confidence            34578888999999999999999999998766   7788888999999999999999999998754  4 455 888889


Q ss_pred             HHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHH
Q 043490           82 GYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVF  160 (589)
Q Consensus        82 ~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf  160 (589)
                      .+...|+.++|+..++++.+. .                              +.+......+...+.+ +..+.|.+.+
T Consensus       125 ~l~~~g~~~~Al~~l~~al~~-~------------------------------P~~~~~~~~la~~l~~~~~~e~Al~~l  173 (765)
T PRK10049        125 VYKRAGRHWDELRAMTQALPR-A------------------------------PQTQQYPTEYVQALRNNRLSAPALGAI  173 (765)
T ss_pred             HHHHCCCHHHHHHHHHHHHHh-C------------------------------CCCHHHHHHHHHHHHHCCChHHHHHHH
Confidence            999999999999999999875 2                              2234444556677777 9999999999


Q ss_pred             hhCCCCChh--------HHHHHHHHHHcCCcHHHHHHHHHHcCCH---HHHHHHHHHHHHc-CCCCCHH-HHH----HHH
Q 043490          161 ENMEFRNVI--------SWNSMIAAFRACKLEAQAIELFAKMKNE---EEALFLFRQLQRE-GMAPDWC-TFS----IVL  223 (589)
Q Consensus       161 ~~m~~~~~~--------~~~~li~~~~~~g~~~~a~~~~~~~g~~---~~A~~~~~~m~~~-g~~p~~~-t~~----~ll  223 (589)
                      +.... ++.        ....++......+.        ...+++   ++|++.++.+.+. ...|+.. .+.    ..+
T Consensus       174 ~~~~~-~p~~~~~l~~~~~~~~~r~~~~~~~--------~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l  244 (765)
T PRK10049        174 DDANL-TPAEKRDLEADAAAELVRLSFMPTR--------SEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRL  244 (765)
T ss_pred             HhCCC-CHHHHHHHHHHHHHHHHHhhccccc--------ChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHH
Confidence            98775 221        11111211100000        112233   7788889888854 2233321 111    113


Q ss_pred             HHHhCcCcHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCC-------hhHHHHHHHHHHHc
Q 043490          224 KACAGLVTERHASAVHSLIAKYGFE-DDTVIANALIHAYARCGSISLSKQVFDKMTYHD-------LVSWNSILKAYALH  295 (589)
Q Consensus       224 ~a~~~~~~~~~a~~i~~~~~~~g~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-------~~~~~~li~~~~~~  295 (589)
                      .++...|+.++|...|+.+.+.+-+ |+- ....+...|...|++++|+..|+++...+       ...+..+..++...
T Consensus       245 ~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~  323 (765)
T PRK10049        245 GALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLES  323 (765)
T ss_pred             HHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhc
Confidence            4456779999999999999987632 221 22335778999999999999999876322       23466677788999


Q ss_pred             CCHHHHHHHHHhC-CCCC-------------CH---HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHH
Q 043490          296 GQAKEALQLFSNM-NVQP-------------DS---ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVD  358 (589)
Q Consensus       296 g~~~~A~~~~~~m-~~~p-------------~~---~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  358 (589)
                      |++++|...++++ ...|             +.   ..+..+...+...|++++|.+.++.+....  +.+...+..+..
T Consensus       324 g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~--P~n~~l~~~lA~  401 (765)
T PRK10049        324 ENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA--PGNQGLRIDYAS  401 (765)
T ss_pred             ccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHH
Confidence            9999999999999 4433             31   244566778888999999999999987542  335678889999


Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhH
Q 043490          359 LLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLG  418 (589)
Q Consensus       359 ~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  418 (589)
                      .+...|++++|++.+++. ...|+ ...+..+...+...|++++|+.+++++++..|+++.+
T Consensus       402 l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~~~  463 (765)
T PRK10049        402 VLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDPGV  463 (765)
T ss_pred             HHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHH
Confidence            999999999999999998 66776 6677777888999999999999999999999988754

>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=99.76  E-value=1.3e-14  Score=156.44  Aligned_cols=384  Identities=13%  Similarity=0.016  Sum_probs=272.1

Q ss_pred             CCChhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCC---CcchHHH
Q 043490            2 LHSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKR---NVVSWTA   78 (589)
Q Consensus         2 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~---~~~~~~~   78 (589)
                      .|++..|..+..++.+.|++++|...+..+++..|   .+...+..+..+|...|++++|+.-|......   +......
T Consensus       157 ~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p---~~~~a~~~~a~a~~~lg~~~eA~~~~~~~~~~~~~~~~~~~~  233 (615)
T TIGR00990       157 KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDP---DYSKALNRRANAYDGLGKYADALLDLTASCIIDGFRNEQSAQ  233 (615)
T ss_pred             CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccHHHHH
Confidence            47888899999999999999999999999998766   77889999999999999999999887654321   1111122


Q ss_pred             HHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHH---HHHhchhhHHHHHHHHHHhcCCCchhHHHHHHH-----HH-h
Q 043490           79 LISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASV---LISCDYLHGKLVHALALKFSLDAHVYVANALIN-----MY-S  149 (589)
Q Consensus        79 li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~---l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~-----~y-~  149 (589)
                      ++.-+..    ..+........+...++...+..+   +..........-..    .....+......++.     .. .
T Consensus       234 ~~~~~l~----~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~l~~~~~e~~  305 (615)
T TIGR00990       234 AVERLLK----KFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLE----DSNELDEETGNGQLQLGLKSPESK  305 (615)
T ss_pred             HHHHHHH----HHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhh----cccccccccccchHHHHHHHHHhh
Confidence            2221111    122232333323211111122111   11100000000000    000111111111111     11 2


Q ss_pred             c-CCHHHHHHHHhhCCC-----C-ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-HHHHHH
Q 043490          150 K-SCADEAWKVFENMEF-----R-NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPD-WCTFSI  221 (589)
Q Consensus       150 ~-g~~~~A~~lf~~m~~-----~-~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~  221 (589)
                      . +++++|.+.|+...+     | +...|+.+...+             ...|++++|+..|++....  .|+ ...|..
T Consensus       306 ~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~-------------~~~g~~~eA~~~~~kal~l--~P~~~~~~~~  370 (615)
T TIGR00990       306 ADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFK-------------CLKGKHLEALADLSKSIEL--DPRVTQSYIK  370 (615)
T ss_pred             hhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHH-------------HHcCCHHHHHHHHHHHHHc--CCCcHHHHHH
Confidence            2 789999999988753     2 345677777777             8899999999999998875  454 557888


Q ss_pred             HHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCH
Q 043490          222 VLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQA  298 (589)
Q Consensus       222 ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~  298 (589)
                      +...+...|++++|...++.+++.. +.+..++..+...|...|++++|...|++..   ..+...|..+...+.+.|++
T Consensus       371 la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~  449 (615)
T TIGR00990       371 RASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSI  449 (615)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCH
Confidence            8888899999999999999998875 6678899999999999999999999999886   33567888899999999999


Q ss_pred             HHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCc-ch-------HHHHHHHHhhcCCHHH
Q 043490          299 KEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQL-DH-------YACMVDLLGRVGRILE  368 (589)
Q Consensus       299 ~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~-------~~~li~~~~~~g~~~~  368 (589)
                      ++|+..|++. ...|+ ...+..+..++...|++++|.+.|+...+.   .|+. ..       ++.....+...|++++
T Consensus       450 ~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l---~p~~~~~~~~~~~l~~~a~~~~~~~~~~~e  526 (615)
T TIGR00990       450 ASSMATFRRCKKNFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL---EKETKPMYMNVLPLINKALALFQWKQDFIE  526 (615)
T ss_pred             HHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc---CCccccccccHHHHHHHHHHHHHHhhhHHH
Confidence            9999999999 66665 568888899999999999999999987643   3421 11       1222233445799999


Q ss_pred             HHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC
Q 043490          369 AEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGD  415 (589)
Q Consensus       369 A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  415 (589)
                      |.+++++. ...|+ ...+..+...+...|++++|...++++.++.+..
T Consensus       527 A~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~~  575 (615)
T TIGR00990       527 AENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAELARTE  575 (615)
T ss_pred             HHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhccH
Confidence            99999986 55665 5678999999999999999999999999887643

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.75  E-value=1.2e-13  Score=148.93  Aligned_cols=412  Identities=11%  Similarity=0.049  Sum_probs=268.3

Q ss_pred             HHHccCCHHHHHHHHHHHHHhCCCCCCCh-hHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHH-H--HHHHHhCCCh
Q 043490           14 ACALHGNIKQAMQLHEHMINNFPNEPQDL-FVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTA-L--ISGYAQHGNA   89 (589)
Q Consensus        14 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~-l--i~~~~~~g~~   89 (589)
                      ...+.|++..|...+.++++..|   .+. .++ .++..+...|+.++|+..+++...|+...+.. +  ...|...|++
T Consensus        43 i~~r~Gd~~~Al~~L~qaL~~~P---~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdy  118 (822)
T PRK14574         43 IRARAGDTAPVLDYLQEESKAGP---LQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRW  118 (822)
T ss_pred             HHHhCCCHHHHHHHHHHHHhhCc---cchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCH
Confidence            34678999999999999998754   442 344 88899999999999999999998775544443 3  4477888999


Q ss_pred             hHHHHHHHHHHhccCCCceeH-HHHHHHhc----hhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhC
Q 043490           90 EECFRLFCSLLQYFFPNEFSL-ASVLISCD----YLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENM  163 (589)
Q Consensus        90 ~~A~~~~~~m~~~~~p~~~t~-~~~l~a~~----~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m  163 (589)
                      ++|+++|+++.+. .|+.... ..+.....    .+.+......+.+  ..|+...+-.++..+.. ++..+|...++++
T Consensus       119 d~Aiely~kaL~~-dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~--~dp~~~~~l~layL~~~~~~~~~AL~~~ekl  195 (822)
T PRK14574        119 DQALALWQSSLKK-DPTNPDLISGMIMTQADAGRGGVVLKQATELAE--RDPTVQNYMTLSYLNRATDRNYDALQASSEA  195 (822)
T ss_pred             HHHHHHHHHHHhh-CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcc--cCcchHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            9999999999886 3333221 11111111    2222222222222  23333333333333333 4444455555555


Q ss_pred             CC--C-ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHH------HHHHHHH-----hCc
Q 043490          164 EF--R-NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTF------SIVLKAC-----AGL  229 (589)
Q Consensus       164 ~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~------~~ll~a~-----~~~  229 (589)
                      .+  | +...+..+..+.             .+.|-...|+++..+-... +.+...-.      ...++.-     ...
T Consensus       196 l~~~P~n~e~~~~~~~~l-------------~~~~~~~~a~~l~~~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~  261 (822)
T PRK14574        196 VRLAPTSEEVLKNHLEIL-------------QRNRIVEPALRLAKENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSET  261 (822)
T ss_pred             HHhCCCCHHHHHHHHHHH-------------HHcCCcHHHHHHHHhCccc-cCHHHHHHHHHHHHHHHHhhcccccccch
Confidence            42  2 233334444444             6666666666554432211 11111000      0111000     011


Q ss_pred             Cc---HHHHHHHHHHHHHh-C-CCCcHHHH-HH---HHHHHHhcCCHHHHHHHHhhcCCC--C--hhHHHHHHHHHHHcC
Q 043490          230 VT---ERHASAVHSLIAKY-G-FEDDTVIA-NA---LIHAYARCGSISLSKQVFDKMTYH--D--LVSWNSILKAYALHG  296 (589)
Q Consensus       230 ~~---~~~a~~i~~~~~~~-g-~~~~~~~~-~~---li~~~~~~g~~~~A~~~~~~~~~~--~--~~~~~~li~~~~~~g  296 (589)
                      .+   .+.|..-++.+... + .|+....| .+   .+-++.+.|++.++.+.|+.+...  .  ..+--.+..+|...+
T Consensus       262 ~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~  341 (822)
T PRK14574        262 ERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRR  341 (822)
T ss_pred             hhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcC
Confidence            12   23344444444432 1 23322222 22   344667889999999999999833  2  235567889999999


Q ss_pred             CHHHHHHHHHhC-CC-------CCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCC----------ccCcc---hHHH
Q 043490          297 QAKEALQLFSNM-NV-------QPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGV----------VPQLD---HYAC  355 (589)
Q Consensus       297 ~~~~A~~~~~~m-~~-------~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~----------~p~~~---~~~~  355 (589)
                      ++++|+.+|+++ .-       .++......|..++..++++++|..+++.+.+....          .|+..   .+..
T Consensus       342 ~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l  421 (822)
T PRK14574        342 LPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTL  421 (822)
T ss_pred             CcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHH
Confidence            999999999998 21       123334578899999999999999999999652110          12221   3455


Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChH
Q 043490          356 MVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFN  433 (589)
Q Consensus       356 li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  433 (589)
                      ++..+...|++.+|++.++++ ...| |...+..+...+...|.+.+|++.++.+..++|++..+...++.++...|+|+
T Consensus       422 ~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~  501 (822)
T PRK14574        422 LVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWH  501 (822)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHH
Confidence            677889999999999999999 4445 68889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCC
Q 043490          434 KARLIRKEMKGSR  446 (589)
Q Consensus       434 ~a~~~~~~m~~~~  446 (589)
                      +|..+.+.+.+..
T Consensus       502 ~A~~~~~~l~~~~  514 (822)
T PRK14574        502 QMELLTDDVISRS  514 (822)
T ss_pred             HHHHHHHHHHhhC
Confidence            9999998876644

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.68  E-value=1.3e-12  Score=123.44  Aligned_cols=388  Identities=15%  Similarity=0.155  Sum_probs=257.1

Q ss_pred             hHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhc--CC-hHHHHHHHhcCC-------------
Q 043490            6 QIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKF--GY-LDDARHLFDEMP-------------   69 (589)
Q Consensus         6 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~--g~-~~~A~~~f~~m~-------------   69 (589)
                      .+=+.|++.- .+|.+..+.-+++.|...  |.+.+..+...|.+.-+-.  .. +-.-++.|-.|.             
T Consensus       117 ~~E~nL~kmI-S~~EvKDs~ilY~~m~~e--~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G  193 (625)
T KOG4422|consen  117 ETENNLLKMI-SSREVKDSCILYERMRSE--NVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSG  193 (625)
T ss_pred             cchhHHHHHH-hhcccchhHHHHHHHHhc--CCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccc
Confidence            3455566543 468899999999999988  3336766666665543322  11 111122333332             


Q ss_pred             ----------CCCcchHHHHHHHHHhCCChhHHHHHHHHHHhc-cCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCch
Q 043490           70 ----------KRNVVSWTALISGYAQHGNAEECFRLFCSLLQY-FFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHV  138 (589)
Q Consensus        70 ----------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~  138 (589)
                                .....+|..||.|+++-...+.|.++|++-... ++.+..+|+.++.+.....++.+...|+...+.||.
T Consensus       194 ~vAdL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~K~Lv~EMisqkm~Pnl  273 (625)
T KOG4422|consen  194 AVADLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVGKKLVAEMISQKMTPNL  273 (625)
T ss_pred             cHHHHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhccHHHHHHHHHhhcCCch
Confidence                      245678999999999999999999999999988 999999999999999988889999999999999999


Q ss_pred             hHHHHHHHHHhc-CCHHHHHHHH----hhCC----CCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHH-HHHHHHHHH
Q 043490          139 YVANALINMYSK-SCADEAWKVF----ENME----FRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEE-ALFLFRQLQ  208 (589)
Q Consensus       139 ~~~~~li~~y~~-g~~~~A~~lf----~~m~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~-A~~~~~~m~  208 (589)
                      +++|+++...++ |+++.|++.+    .+|.    +|...+|.-+|..+             .+.++..+ |..++.+.+
T Consensus       274 ~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f-------------~re~dp~k~as~~i~dI~  340 (625)
T KOG4422|consen  274 FTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNF-------------KRESDPQKVASSWINDIQ  340 (625)
T ss_pred             HhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHh-------------cccCCchhhhHHHHHHHH
Confidence            999999999999 9988776544    4443    58888888888887             66655533 444555543


Q ss_pred             H----cCCC---C-CHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhC----CCCc---HHHHHHHHHHHHhcCCHHHHHHH
Q 043490          209 R----EGMA---P-DWCTFSIVLKACAGLVTERHASAVHSLIAKYG----FEDD---TVIANALIHAYARCGSISLSKQV  273 (589)
Q Consensus       209 ~----~g~~---p-~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g----~~~~---~~~~~~li~~~~~~g~~~~A~~~  273 (589)
                      .    +.++   | |...|.+.+..|.+..+.+.|.+++..+....    +.|+   .+-|..+....+....++.-...
T Consensus       341 N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~  420 (625)
T KOG4422|consen  341 NSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKW  420 (625)
T ss_pred             HhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3    2222   2 45678888888888888888888887665321    2333   23455667777777778888888


Q ss_pred             HhhcC----CCChhHHHHHHHHHHHcCCHHHHHHHHHhC---CCCCCHHHHHHHHHHHhccC------------------
Q 043490          274 FDKMT----YHDLVSWNSILKAYALHGQAKEALQLFSNM---NVQPDSATFVSLLSACSHAG------------------  328 (589)
Q Consensus       274 ~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~p~~~t~~~ll~a~~~~g------------------  328 (589)
                      |+.|.    -|+..+-..++.+....|+++-.-+++..+   |-.-+...-.-++.-+++.+                  
T Consensus       421 Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~  500 (625)
T KOG4422|consen  421 YEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKC  500 (625)
T ss_pred             HHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHH
Confidence            88776    355566666777777777777777777666   32222222222222222221                  


Q ss_pred             --cHHHHHHH-HHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-------CCCCCHHHHHHHHHHHHHcCCH
Q 043490          329 --LVQEGNKV-FHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-------PMEPDSVIWSVLLGSCRKHGET  398 (589)
Q Consensus       329 --~~~~a~~~-~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~~~~~~~ll~~~~~~g~~  398 (589)
                        ++.++.+. -..+.   ..+......++..-.+.|.|+.++|.++|.-.       +..|......-++.+..+.+++
T Consensus       501 aad~~e~~e~~~~R~r---~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~sp  577 (625)
T KOG4422|consen  501 AADIKEAYESQPIRQR---AQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSP  577 (625)
T ss_pred             HHHHHHHHHhhHHHHH---hccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCH
Confidence              01111110 01111   22334445666777777788887777776544       4445555555666666777777


Q ss_pred             HHHHHHHHHHhhcC
Q 043490          399 RLAELAATKLKQLE  412 (589)
Q Consensus       399 ~~a~~~~~~~~~~~  412 (589)
                      ..|..+++-+...+
T Consensus       578 sqA~~~lQ~a~~~n  591 (625)
T KOG4422|consen  578 SQAIEVLQLASAFN  591 (625)
T ss_pred             HHHHHHHHHHHHcC
Confidence            77777777775544

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

Probab=99.64  E-value=1.2e-12  Score=135.49  Aligned_cols=425  Identities=14%  Similarity=0.090  Sum_probs=295.5

Q ss_pred             CChhHHHHHHHHHHccCCHHHHHHHHHHHHHh-CCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--CC--cchHH
Q 043490            3 HSTQIYATLFHACALHGNIKQAMQLHEHMINN-FPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--RN--VVSWT   77 (589)
Q Consensus         3 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~~--~~~~~   77 (589)
                      .|+...+.|.+-+--.|+++.+..+...+... .. -..-...+-.+.++|...|++++|...|.+..+  +|  +..+-
T Consensus       268 ~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~-~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~  346 (1018)
T KOG2002|consen  268 ENPVALNHLANHFYFKKDYERVWHLAEHAIKNTEN-KSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLV  346 (1018)
T ss_pred             CCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhh-hHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCcccccc
Confidence            46677778888888888888888888888776 21 002234566788888888888888888876653  33  33445


Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhc---------hhhHHHHHHHHHHhcCCCchhHHHHHHHHH
Q 043490           78 ALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCD---------YLHGKLVHALALKFSLDAHVYVANALINMY  148 (589)
Q Consensus        78 ~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~---------~~~~~~~~~~~~~~g~~~~~~~~~~li~~y  148 (589)
                      -|.+.|.+.|+.+.+...|+..... .||..--..+|....         .+.+..+.....+.- +.|...|-.+..+|
T Consensus       347 GlgQm~i~~~dle~s~~~fEkv~k~-~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~  424 (1018)
T KOG2002|consen  347 GLGQMYIKRGDLEESKFCFEKVLKQ-LPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLL  424 (1018)
T ss_pred             chhHHHHHhchHHHHHHHHHHHHHh-CcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHH
Confidence            6778888888888888888888775 555554444443332         133333333333322 44555666666666


Q ss_pred             hcCCHHHHHHHHhhC--------CCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCCH-
Q 043490          149 SKSCADEAWKVFENM--------EFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQRE---GMAPDW-  216 (589)
Q Consensus       149 ~~g~~~~A~~lf~~m--------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~---g~~p~~-  216 (589)
                      ..++.-.+..+|...        ...-+...|.+..-+             ...|++.+|...|.+....   ...+|. 
T Consensus       425 e~~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslh-------------f~~g~~~~A~~~f~~A~~~~~~~~n~de~  491 (1018)
T KOG2002|consen  425 EQTDPWASLDAYGNALDILESKGKQIPPEVLNNVASLH-------------FRLGNIEKALEHFKSALGKLLEVANKDEG  491 (1018)
T ss_pred             HhcChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHH-------------HHhcChHHHHHHHHHHhhhhhhhcCcccc
Confidence            665443334433322        234556677777777             7778888888888776554   122333 


Q ss_pred             ----HHHH-HHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHH
Q 043490          217 ----CTFS-IVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSI  288 (589)
Q Consensus       217 ----~t~~-~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l  288 (589)
                          .|.. .+....-..++.+.|.++|..+.+.. |.-+..|--|..+.-..+...+|...+....   ..|+..|+.+
T Consensus       492 ~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh-p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~  570 (1018)
T KOG2002|consen  492 KSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH-PGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLL  570 (1018)
T ss_pred             ccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC-chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHH
Confidence                2222 23334466779999999999998864 3334445555544445577888998888776   5677888888


Q ss_pred             HHHHHHcCCHHHHHHHHHhC----CCCCCHHHHHHHHHHHhc------------cCcHHHHHHHHHHhHHhcCCccCcch
Q 043490          289 LKAYALHGQAKEALQLFSNM----NVQPDSATFVSLLSACSH------------AGLVQEGNKVFHSMLENHGVVPQLDH  352 (589)
Q Consensus       289 i~~~~~~g~~~~A~~~~~~m----~~~p~~~t~~~ll~a~~~------------~g~~~~a~~~~~~~~~~~~~~p~~~~  352 (589)
                      ...|.....+..|.+-|+..    ...+|..+..+|.+.|.+            .+..+.|.++|.++++.  -+.|...
T Consensus       571 G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~--dpkN~yA  648 (1018)
T KOG2002|consen  571 GNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRN--DPKNMYA  648 (1018)
T ss_pred             HHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhc--Ccchhhh
Confidence            88999998888888866666    444888888888886653            24567888888877643  2347778


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC--CCChhHHHHHHHHhhh
Q 043490          353 YACMVDLLGRVGRILEAEKLIREM--PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLE--PGDSLGFVQMSNIYCL  428 (589)
Q Consensus       353 ~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~~~  428 (589)
                      -|.+.-.++..|++.+|..+|.+.  ....+..+|-.+...|...|++..|+++|+...+..  .+++.+...|+.++.+
T Consensus       649 ANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~  728 (1018)
T KOG2002|consen  649 ANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYE  728 (1018)
T ss_pred             ccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHH
Confidence            888888999999999999999988  223356789999999999999999999999987643  3567788899999999


Q ss_pred             cCChHHHHHHHHHHhcCC
Q 043490          429 SGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       429 ~g~~~~a~~~~~~m~~~~  446 (589)
                      .|++.+|.+.........
T Consensus       729 ~~~~~eak~~ll~a~~~~  746 (1018)
T KOG2002|consen  729 AGKLQEAKEALLKARHLA  746 (1018)
T ss_pred             hhhHHHHHHHHHHHHHhC
Confidence            999999999887765543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.64  E-value=3.5e-12  Score=137.84  Aligned_cols=398  Identities=12%  Similarity=0.065  Sum_probs=285.4

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-CcchHHHHHHHHHhC
Q 043490           10 TLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--R-NVVSWTALISGYAQH   86 (589)
Q Consensus        10 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~~~~~   86 (589)
                      .++..+...|+.++|...+++.....+   ........+...|...|++++|.++|+++.+  | |...+..++..|.+.
T Consensus        73 dll~l~~~~G~~~~A~~~~eka~~p~n---~~~~~llalA~ly~~~gdyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~  149 (822)
T PRK14574         73 DWLQIAGWAGRDQEVIDVYERYQSSMN---ISSRGLASAARAYRNEKRWDQALALWQSSLKKDPTNPDLISGMIMTQADA  149 (822)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHhccCCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhc
Confidence            788888899999999999998873222   3344444446788899999999999999875  3 456677888899999


Q ss_pred             CChhHHHHHHHHHHhccCCCceeHHHHHHHhc----hhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHh
Q 043490           87 GNAEECFRLFCSLLQYFFPNEFSLASVLISCD----YLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFE  161 (589)
Q Consensus        87 g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~----~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~  161 (589)
                      ++.++|++.++++... .|+...+..+.....    ...+...+..+++.. +.+...+..++....+ |-...|.++..
T Consensus       150 ~q~~eAl~~l~~l~~~-dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~  227 (822)
T PRK14574        150 GRGGVVLKQATELAER-DPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAK  227 (822)
T ss_pred             CCHHHHHHHHHHhccc-CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHH
Confidence            9999999999998776 555444422222221    223555555665553 4456777888888888 99999999888


Q ss_pred             hCCC---CChhHH--HHHHHHHHcCCcHHHHHHHHHHcC---CHHHHHHHHHHHHH-cCCCCCH-H----HHHHHHHHHh
Q 043490          162 NMEF---RNVISW--NSMIAAFRACKLEAQAIELFAKMK---NEEEALFLFRQLQR-EGMAPDW-C----TFSIVLKACA  227 (589)
Q Consensus       162 ~m~~---~~~~~~--~~li~~~~~~g~~~~a~~~~~~~g---~~~~A~~~~~~m~~-~g~~p~~-~----t~~~ll~a~~  227 (589)
                      +-+.   +...-|  ...+.-.++.+....-    ....   -.+.|+.-++.+.. .+-.|.. .    ...-.+-++.
T Consensus       228 ~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~----~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~  303 (822)
T PRK14574        228 ENPNLVSAEHYRQLERDAAAEQVRMAVLPTR----SETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALL  303 (822)
T ss_pred             hCccccCHHHHHHHHHHHHHHHHhhcccccc----cchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHH
Confidence            7663   111111  0001111000000000    0111   23556666666654 2222322 2    2234466778


Q ss_pred             CcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCC---------ChhHHHHHHHHHHHcCCH
Q 043490          228 GLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYH---------DLVSWNSILKAYALHGQA  298 (589)
Q Consensus       228 ~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---------~~~~~~~li~~~~~~g~~  298 (589)
                      ..++...+.+.++.+...+.+.-..+-.++.++|...+++++|..+|..+...         +......|.-+|...+++
T Consensus       304 ~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~  383 (822)
T PRK14574        304 VRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQL  383 (822)
T ss_pred             HhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccH
Confidence            89999999999999999887666678889999999999999999999988532         233356789999999999


Q ss_pred             HHHHHHHHhC-CCCC---------------CHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHh
Q 043490          299 KEALQLFSNM-NVQP---------------DSA-TFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLG  361 (589)
Q Consensus       299 ~~A~~~~~~m-~~~p---------------~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~  361 (589)
                      ++|..+++++ ...|               |-. .+..++..+.-.|++.+|++.++.+...  -+-|......+.+.+.
T Consensus       384 ~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~--aP~n~~l~~~~A~v~~  461 (822)
T PRK14574        384 DKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSST--APANQNLRIALASIYL  461 (822)
T ss_pred             HHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            9999999999 3222               222 3445566778899999999999999653  2337888999999999


Q ss_pred             hcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhH
Q 043490          362 RVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLG  418 (589)
Q Consensus       362 ~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  418 (589)
                      ..|.+.+|++.++.. ...|+ ..+......++...++++.|..+.+.+.+..|+++.+
T Consensus       462 ~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~Pe~~~~  520 (822)
T PRK14574        462 ARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVISRSPEDIPS  520 (822)
T ss_pred             hcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCCCchhH
Confidence            999999999999877 55676 6677788888899999999999999999999988754

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

Probab=99.63  E-value=2e-12  Score=134.00  Aligned_cols=420  Identities=13%  Similarity=0.122  Sum_probs=303.2

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-CcchHHHHHHH
Q 043490            7 IYATLFHACALHGNIKQAMQLHEHMINNFPNEPQD-LFVTNHLINMYAKFGYLDDARHLFDEMPK--R-NVVSWTALISG   82 (589)
Q Consensus         7 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~   82 (589)
                      .|-.+.+++-..|+++.|...|-+..+..+   .+ +..+--|..+|.+.|+++.|...|++..+  | +..+.-.|...
T Consensus       309 s~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~---d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~L  385 (1018)
T KOG2002|consen  309 SFYQLGRSYHAQGDFEKAFKYYMESLKADN---DNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCL  385 (1018)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHccCC---CCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhH
Confidence            466678888899999999999998887633   23 55666789999999999999999998864  3 44566666666


Q ss_pred             HHhCC----ChhHHHHHHHHHHhccCCCceeHHHHHHHhc---hhhHHH----HHHHHHHhcCCCchhHHHHHHHHHhc-
Q 043490           83 YAQHG----NAEECFRLFCSLLQYFFPNEFSLASVLISCD---YLHGKL----VHALALKFSLDAHVYVANALINMYSK-  150 (589)
Q Consensus        83 ~~~~g----~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~---~~~~~~----~~~~~~~~g~~~~~~~~~~li~~y~~-  150 (589)
                      |+..+    ..+.|..++....+...-|...|..+-...-   ......    ....+...+-.+.+.+.|.+...+.. 
T Consensus       386 ya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laql~e~~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~  465 (1018)
T KOG2002|consen  386 YAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQLLEQTDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRL  465 (1018)
T ss_pred             HHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHh
Confidence            76664    3455666655555443334444544443333   111122    22233345556888899999999999 


Q ss_pred             CCHHHHHHHHhhCCC-------CChh-------HHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH
Q 043490          151 SCADEAWKVFENMEF-------RNVI-------SWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDW  216 (589)
Q Consensus       151 g~~~~A~~lf~~m~~-------~~~~-------~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~  216 (589)
                      |.++.|...|+....       +|..       -|| +...+             -..++++.|.++|......  .|.-
T Consensus       466 g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YN-larl~-------------E~l~~~~~A~e~Yk~Ilke--hp~Y  529 (1018)
T KOG2002|consen  466 GNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYN-LARLL-------------EELHDTEVAEEMYKSILKE--HPGY  529 (1018)
T ss_pred             cChHHHHHHHHHHhhhhhhhcCccccccchhHHHHH-HHHHH-------------HhhhhhhHHHHHHHHHHHH--Cchh
Confidence            999999999987642       2221       232 22333             6778999999999999875  4554


Q ss_pred             H-HHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC-----CCChhHHHHHHH
Q 043490          217 C-TFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT-----YHDLVSWNSILK  290 (589)
Q Consensus       217 ~-t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~  290 (589)
                      + .|.-++...-..+...+|...+..+.... ..++.+++.+.+.|.+...+..|.+-|+.+.     .+|..+.-+|..
T Consensus       530 Id~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN  608 (1018)
T KOG2002|consen  530 IDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGN  608 (1018)
T ss_pred             HHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhH
Confidence            4 34444433345577888998888887765 5677778888889999999988888666654     235554444444


Q ss_pred             HHH------------HcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHH
Q 043490          291 AYA------------LHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACM  356 (589)
Q Consensus       291 ~~~------------~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  356 (589)
                      .|.            ..+..++|+++|.+. ...| |...-+.+.-.++..|++.+|..+|.++.+..  .-...+|-.+
T Consensus       609 ~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~--~~~~dv~lNl  686 (1018)
T KOG2002|consen  609 VYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREAT--SDFEDVWLNL  686 (1018)
T ss_pred             HHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcchhhhccchhhhhhhccCchHHHHHHHHHHHHH--hhCCceeeeH
Confidence            333            235678899999998 6666 67788888889999999999999999987642  3455688899


Q ss_pred             HHHHhhcCCHHHHHHHHHhC----CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHh------
Q 043490          357 VDLLGRVGRILEAEKLIREM----PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIY------  426 (589)
Q Consensus       357 i~~~~~~g~~~~A~~~~~~m----~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~------  426 (589)
                      ...|..+|++-.|.++|+..    .-..+..+.+.|..++...|.+.+|.+.+..+....|.++..-..++-..      
T Consensus       687 ah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s  766 (1018)
T KOG2002|consen  687 AHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAES  766 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHH
Confidence            99999999999999999876    32346889999999999999999999999999999998877655444433      


Q ss_pred             -------------hhcCChHHHHHHHHHHhcCCCc
Q 043490          427 -------------CLSGSFNKARLIRKEMKGSRVR  448 (589)
Q Consensus       427 -------------~~~g~~~~a~~~~~~m~~~~~~  448 (589)
                                   ...+..+.|.++|..|...+-+
T Consensus       767 ~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  767 ILRLEKRTLEEVLEAVKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHhcccccHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence                         2234567888999999876544

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

Probab=99.61  E-value=5.9e-13  Score=126.29  Aligned_cols=416  Identities=13%  Similarity=0.126  Sum_probs=262.9

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHh--CCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--CC------cchHHH
Q 043490            9 ATLFHACALHGNIKQAMQLHEHMINN--FPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--RN------VVSWTA   78 (589)
Q Consensus         9 ~~ll~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~~------~~~~~~   78 (589)
                      ..|.+.|.......+|+..++.+++.  +|   ..-..--.+.+.+.+...+.+|++.+.....  |+      +...|.
T Consensus       205 ~nlaqqy~~ndm~~ealntyeiivknkmf~---nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~n  281 (840)
T KOG2003|consen  205 FNLAQQYEANDMTAEALNTYEIIVKNKMFP---NAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNN  281 (840)
T ss_pred             HHHHHHhhhhHHHHHHhhhhhhhhcccccC---CCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhh
Confidence            34556666667788899999988887  44   3333334556778888889999888764332  21      224555


Q ss_pred             HHHHHHhCCChhHHHHHHHHHHhccCCCcee-HHHHHHHhc---hhhHHHHHHHHHHhc------------CCCchhHHH
Q 043490           79 LISGYAQHGNAEECFRLFCSLLQYFFPNEFS-LASVLISCD---YLHGKLVHALALKFS------------LDAHVYVAN  142 (589)
Q Consensus        79 li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t-~~~~l~a~~---~~~~~~~~~~~~~~g------------~~~~~~~~~  142 (589)
                      +--.+++.|.++.|+..|+...+. .|+-.+ ++..+.+++   .+..+..+..++..-            -+|+....|
T Consensus       282 igvtfiq~gqy~dainsfdh~m~~-~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~  360 (840)
T KOG2003|consen  282 IGVTFIQAGQYDDAINSFDHCMEE-APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLN  360 (840)
T ss_pred             cCeeEEecccchhhHhhHHHHHHh-CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHH
Confidence            555788999999999999998775 555443 343444444   344444454444221            123333333


Q ss_pred             HHHH-----HHhcCCHHHHHHHH-------hhCCCCChhH-HHHHHHHHHcCCcHHHHHHH-------HHHcCCHHHHHH
Q 043490          143 ALIN-----MYSKSCADEAWKVF-------ENMEFRNVIS-WNSMIAAFRACKLEAQAIEL-------FAKMKNEEEALF  202 (589)
Q Consensus       143 ~li~-----~y~~g~~~~A~~lf-------~~m~~~~~~~-~~~li~~~~~~g~~~~a~~~-------~~~~g~~~~A~~  202 (589)
                      -.|.     -..+.+-..|++..       .-...|+-.. +.=-+...-.+...+.|.++       +.++|+++.|++
T Consensus       361 eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aie  440 (840)
T KOG2003|consen  361 EAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIE  440 (840)
T ss_pred             HHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHH
Confidence            2221     12221112222221       1111222110 00011111111112222222       456666666666


Q ss_pred             HHHHHHHcCCCCC---------------------HHHH----------HHH-----HHHHhCcCcHHHHHHHHHHHHHhC
Q 043490          203 LFRQLQREGMAPD---------------------WCTF----------SIV-----LKACAGLVTERHASAVHSLIAKYG  246 (589)
Q Consensus       203 ~~~~m~~~g~~p~---------------------~~t~----------~~l-----l~a~~~~~~~~~a~~i~~~~~~~g  246 (589)
                      +++-..+..-+.-                     ...|          +..     .+.....|+++.|.+.+++.+...
T Consensus       441 ilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~nd  520 (840)
T KOG2003|consen  441 ILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALNND  520 (840)
T ss_pred             HHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCc
Confidence            6655543321110                     0111          100     001113478888888888887654


Q ss_pred             CCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHH
Q 043490          247 FEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLL  321 (589)
Q Consensus       247 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll  321 (589)
                      -.-....|| +.-.+-+.|++++|+..|-++.   ..++...-.+...|-...+..+|++++-+. .+-| |+..+.-|.
T Consensus       521 asc~ealfn-iglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~slip~dp~ilskl~  599 (840)
T KOG2003|consen  521 ASCTEALFN-IGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSLIPNDPAILSKLA  599 (840)
T ss_pred             hHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCCHHHHHHHH
Confidence            222223333 3345677899999999988765   556777777888888899999999999888 5555 567788888


Q ss_pred             HHHhccCcHHHHHHHHHHhHHhcCC-ccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHH-HHcCCH
Q 043490          322 SACSHAGLVQEGNKVFHSMLENHGV-VPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPDSVIWSVLLGSC-RKHGET  398 (589)
Q Consensus       322 ~a~~~~g~~~~a~~~~~~~~~~~~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~~~-~~~g~~  398 (589)
                      ..|-+.|+-.+|.+.+-.-   +.. +.+.++..-|..-|....-+++|+..|++. -++|+..-|..++..| ++.|++
T Consensus       600 dlydqegdksqafq~~yds---yryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgny  676 (840)
T KOG2003|consen  600 DLYDQEGDKSQAFQCHYDS---YRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGNY  676 (840)
T ss_pred             HHhhcccchhhhhhhhhhc---ccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhcccH
Confidence            8999999999998877532   333 447888888888899999999999999998 6789999999988766 567999


Q ss_pred             HHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCCh
Q 043490          399 RLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSF  432 (589)
Q Consensus       399 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  432 (589)
                      +.|..+++...+..|.|......|++.+...|..
T Consensus       677 qka~d~yk~~hrkfpedldclkflvri~~dlgl~  710 (840)
T KOG2003|consen  677 QKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGLK  710 (840)
T ss_pred             HHHHHHHHHHHHhCccchHHHHHHHHHhccccch
Confidence            9999999999999999999999999999888754

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

Probab=99.58  E-value=7.8e-15  Score=142.10  Aligned_cols=247  Identities=17%  Similarity=0.162  Sum_probs=112.0

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHH-HHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPDWCTFSI-VLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLS  270 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~-ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  270 (589)
                      .+.|++++|++++++......+|+...|.. +...+...++.+.|.+.++.+.+.+ +.+...+..++.. ...+++++|
T Consensus        19 ~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~~~~~~A   96 (280)
T PF13429_consen   19 YQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQDGDPEEA   96 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccccccccc
Confidence            788999999999976554432455555544 4445567899999999999999876 3467778888877 789999999


Q ss_pred             HHHHhhcC--CCChhHHHHHHHHHHHcCCHHHHHHHHHhC----CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhc
Q 043490          271 KQVFDKMT--YHDLVSWNSILKAYALHGQAKEALQLFSNM----NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENH  344 (589)
Q Consensus       271 ~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  344 (589)
                      .++++..-  .++...+..++..+.+.|+++++.+++++.    ..+++...|..+...+.+.|+.++|.+.++..++. 
T Consensus        97 ~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~-  175 (280)
T PF13429_consen   97 LKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL-  175 (280)
T ss_dssp             ---------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-
T ss_pred             ccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-
Confidence            99988764  456677888999999999999999999997    33557778888889999999999999999998764 


Q ss_pred             CCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHH
Q 043490          345 GVVP-QLDHYACMVDLLGRVGRILEAEKLIREM--PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQ  421 (589)
Q Consensus       345 ~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  421 (589)
                        .| |......++..+...|+.+++.++++..  ....|...|..+..++...|+.++|...+++..+.+|+|+.....
T Consensus       176 --~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~~~~  253 (280)
T PF13429_consen  176 --DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLWLLA  253 (280)
T ss_dssp             ---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHHHHH
T ss_pred             --CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccccccccccc
Confidence              56 4678889999999999999988888776  223456788999999999999999999999999999999999999


Q ss_pred             HHHHhhhcCChHHHHHHHHHHh
Q 043490          422 MSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       422 l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      ++.++...|+.++|.+++.+..
T Consensus       254 ~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  254 YADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHHHHT----------------
T ss_pred             cccccccccccccccccccccc
Confidence            9999999999999999988764

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

Probab=99.54  E-value=2e-10  Score=110.13  Aligned_cols=398  Identities=14%  Similarity=0.127  Sum_probs=289.2

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--CCc-chHHHHHHHH
Q 043490            7 IYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--RNV-VSWTALISGY   83 (589)
Q Consensus         7 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~~~-~~~~~li~~~   83 (589)
                      .|....+.--.++++..|+.+|+.++....   .+...|-..+.+=.++..+..|+.+|++...  |-+ ..|--.+-.=
T Consensus        75 ~WikYaqwEesq~e~~RARSv~ERALdvd~---r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ymE  151 (677)
T KOG1915|consen   75 VWIKYAQWEESQKEIQRARSVFERALDVDY---RNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYME  151 (677)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHhccc---ccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHHH
Confidence            344444455566778888888888887533   5777788888888888888888888887542  222 2344444444


Q ss_pred             HhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhh
Q 043490           84 AQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFEN  162 (589)
Q Consensus        84 ~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~  162 (589)
                      -..|+...|.++|++-..                                ..|+...|++.|++=.+ ..++.|+.++++
T Consensus       152 E~LgNi~gaRqiferW~~--------------------------------w~P~eqaW~sfI~fElRykeieraR~IYer  199 (677)
T KOG1915|consen  152 EMLGNIAGARQIFERWME--------------------------------WEPDEQAWLSFIKFELRYKEIERARSIYER  199 (677)
T ss_pred             HHhcccHHHHHHHHHHHc--------------------------------CCCcHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            456778888888877654                                48999999999999999 999999999998


Q ss_pred             CC--CCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHc-CC-CCCHHHHHHHHHHHhCcCcHHHHHHH
Q 043490          163 ME--FRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQRE-GM-APDWCTFSIVLKACAGLVTERHASAV  238 (589)
Q Consensus       163 m~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~-g~-~p~~~t~~~ll~a~~~~~~~~~a~~i  238 (589)
                      ..  .|++.+|--...--             .+.|....|..+|...... |- ..+...|.+...-=.+....+.|.-+
T Consensus       200 fV~~HP~v~~wikyarFE-------------~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~i  266 (677)
T KOG1915|consen  200 FVLVHPKVSNWIKYARFE-------------EKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFI  266 (677)
T ss_pred             HheecccHHHHHHHHHHH-------------HhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            64  69999998777776             5666666666666655442 10 01122333333333466778899999


Q ss_pred             HHHHHHhCCCCc--HHHHHHHHHHHHhcCCHHHHHHHH--------hhcCC---CChhHHHHHHHHHHHcCCHHHHHHHH
Q 043490          239 HSLIAKYGFEDD--TVIANALIHAYARCGSISLSKQVF--------DKMTY---HDLVSWNSILKAYALHGQAKEALQLF  305 (589)
Q Consensus       239 ~~~~~~~g~~~~--~~~~~~li~~~~~~g~~~~A~~~~--------~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~  305 (589)
                      |..+++. ++.+  ...|..+...=-+-|+......+.        +.+..   -|-.+|--.+..-...|+.+...++|
T Consensus       267 ykyAld~-~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~y  345 (677)
T KOG1915|consen  267 YKYALDH-IPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETY  345 (677)
T ss_pred             HHHHHHh-cCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHH
Confidence            9998876 3444  456666665555566654444332        22222   35568888888888889999999999


Q ss_pred             HhC--CCCCCH-------HHHHHHHHHH---hccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHh----hcCCHHHH
Q 043490          306 SNM--NVQPDS-------ATFVSLLSAC---SHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLG----RVGRILEA  369 (589)
Q Consensus       306 ~~m--~~~p~~-------~t~~~ll~a~---~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~----~~g~~~~A  369 (589)
                      ++.  +++|-.       ..|.-+=-+|   ....+++.+.++|+..++  -++-...|+.-+--+|+    |+.++..|
T Consensus       346 ErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~--lIPHkkFtFaKiWlmyA~feIRq~~l~~A  423 (677)
T KOG1915|consen  346 ERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLD--LIPHKKFTFAKIWLMYAQFEIRQLNLTGA  423 (677)
T ss_pred             HHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--hcCcccchHHHHHHHHHHHHHHHcccHHH
Confidence            999  888833       2233222233   246899999999998864  33336677777766665    67899999


Q ss_pred             HHHHHhC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCCc
Q 043490          370 EKLIREM-PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVR  448 (589)
Q Consensus       370 ~~~~~~m-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  448 (589)
                      .+++... |.-|-..++...|..=.+.++++....++++.++..|.+-.+|.-.+..-...|+++.|..+|+........
T Consensus       424 RkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~l  503 (677)
T KOG1915|consen  424 RKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPENCYAWSKYAELETSLGDTDRARAIFELAISQPAL  503 (677)
T ss_pred             HHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCccc
Confidence            9999887 888999999999999999999999999999999999999999999999999999999999999988876654


Q ss_pred             cCCceee
Q 043490          449 KYPGLSW  455 (589)
Q Consensus       449 ~~~~~s~  455 (589)
                      -.|..-|
T Consensus       504 dmpellw  510 (677)
T KOG1915|consen  504 DMPELLW  510 (677)
T ss_pred             ccHHHHH
Confidence            4555555

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.52  E-value=3.4e-11  Score=122.22  Aligned_cols=273  Identities=13%  Similarity=0.091  Sum_probs=211.6

Q ss_pred             hcCCHHHHHHHHhhCCCC--Ch-hHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHH--HHH
Q 043490          149 SKSCADEAWKVFENMEFR--NV-ISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFS--IVL  223 (589)
Q Consensus       149 ~~g~~~~A~~lf~~m~~~--~~-~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~--~ll  223 (589)
                      ..|+++.|++.+...++.  ++ ..|-......             .+.|++++|.+.|.++.+.  .|+.....  ...
T Consensus        96 ~eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA-------------~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a  160 (398)
T PRK10747         96 AEGDYQQVEKLMTRNADHAEQPVVNYLLAAEAA-------------QQRGDEARANQHLERAAEL--ADNDQLPVEITRV  160 (398)
T ss_pred             hCCCHHHHHHHHHHHHhcccchHHHHHHHHHHH-------------HHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHH
Confidence            349999999999887653  22 2222223333             7889999999999999874  56654333  335


Q ss_pred             HHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCh-----------hHHHHHHHHH
Q 043490          224 KACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDL-----------VSWNSILKAY  292 (589)
Q Consensus       224 ~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-----------~~~~~li~~~  292 (589)
                      ..+...|+.+.|.+.++.+.+.. |.+..+...+...|.+.|++++|.+++..+.+...           .+|..++...
T Consensus       161 ~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~  239 (398)
T PRK10747        161 RIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQA  239 (398)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHH
Confidence            56788999999999999998887 77888999999999999999999999998874321           1344445545


Q ss_pred             HHcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHH
Q 043490          293 ALHGQAKEALQLFSNM--NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAE  370 (589)
Q Consensus       293 ~~~g~~~~A~~~~~~m--~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  370 (589)
                      ....+.+...++++..  ..+.+......+..++...|+.++|.++++...+.   .|+..  -.++.+....++.++++
T Consensus       240 ~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~---~~~~~--l~~l~~~l~~~~~~~al  314 (398)
T PRK10747        240 MADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR---QYDER--LVLLIPRLKTNNPEQLE  314 (398)
T ss_pred             HHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHH--HHHHHhhccCCChHHHH
Confidence            5556677788888888  44457778888999999999999999999888653   44432  12333444569999999


Q ss_pred             HHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          371 KLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       371 ~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      +..++. ...|+ .....++...|.+.+++++|...|+++.+..| +...+..|..++.+.|+.++|.+++++-.
T Consensus       315 ~~~e~~lk~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P-~~~~~~~La~~~~~~g~~~~A~~~~~~~l  388 (398)
T PRK10747        315 KVLRQQIKQHGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRP-DAYDYAWLADALDRLHKPEEAAAMRRDGL  388 (398)
T ss_pred             HHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999888 44565 66788899999999999999999999999999 55778899999999999999999998654

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.49  E-value=1e-10  Score=110.77  Aligned_cols=344  Identities=15%  Similarity=0.112  Sum_probs=216.0

Q ss_pred             cchHHHHHHHHHhCCChhHHHHHHHHHHhc-cCCCceeHHHHHHHhc------hhhH-HHHHHHHHHhcCCCchhHHHHH
Q 043490           73 VVSWTALISGYAQHGNAEECFRLFCSLLQY-FFPNEFSLASVLISCD------YLHG-KLVHALALKFSLDAHVYVANAL  144 (589)
Q Consensus        73 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~p~~~t~~~~l~a~~------~~~~-~~~~~~~~~~g~~~~~~~~~~l  144 (589)
                      +++=|.|+. ....|...++.-+|+.|... +......-..++.-..      ...+ ...+-.+.+.|-. +..+    
T Consensus       116 V~~E~nL~k-mIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~-S~~s----  189 (625)
T KOG4422|consen  116 VETENNLLK-MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGED-STSS----  189 (625)
T ss_pred             hcchhHHHH-HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccc-cccc----
Confidence            445566665 45578899999999999987 3322222222222111      0000 0000011111100 0111    


Q ss_pred             HHHHhc-CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 043490          145 INMYSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVL  223 (589)
Q Consensus       145 i~~y~~-g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  223 (589)
                          .| |.+.+   ++-+...++..++.+||.|.             ++--..++|.+++++-.....+.+..+||.+|
T Consensus       190 ----WK~G~vAd---L~~E~~PKT~et~s~mI~Gl-------------~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI  249 (625)
T KOG4422|consen  190 ----WKSGAVAD---LLFETLPKTDETVSIMIAGL-------------CKFSSLERARELYKEHRAAKGKVYREAFNGLI  249 (625)
T ss_pred             ----cccccHHH---HHHhhcCCCchhHHHHHHHH-------------HHHHhHHHHHHHHHHHHHhhheeeHHhhhhhh
Confidence                12 33333   44444455667888899998             77777888888888887777788888888888


Q ss_pred             HHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHH----hhcC----CCChhHHHHHHHHHHHc
Q 043490          224 KACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVF----DKMT----YHDLVSWNSILKAYALH  295 (589)
Q Consensus       224 ~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~----~~~~----~~~~~~~~~li~~~~~~  295 (589)
                      .+-+-    ..++.+..+|+...+.||..|+|+++...++.|+++.|.+.+    .+|+    +|...+|..+|.-+++.
T Consensus       250 ~~~S~----~~~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re  325 (625)
T KOG4422|consen  250 GASSY----SVGKKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRE  325 (625)
T ss_pred             hHHHh----hccHHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhccc
Confidence            77543    334778888888888888888888888888888877665444    4443    67888888888888887


Q ss_pred             CCHHH-HHHHHHhC-----C--C---CC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcC---CccC---cchHHHHH
Q 043490          296 GQAKE-ALQLFSNM-----N--V---QP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHG---VVPQ---LDHYACMV  357 (589)
Q Consensus       296 g~~~~-A~~~~~~m-----~--~---~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~---~~p~---~~~~~~li  357 (589)
                      ++..+ |..+..++     |  .   .| |..-|...+..|.+..+.+.|.++...+....+   +.|+   ..-|..+.
T Consensus       326 ~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~  405 (625)
T KOG4422|consen  326 SDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFF  405 (625)
T ss_pred             CCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHH
Confidence            77644 33333333     2  2   23 445677888888888888888888766532211   1222   12356677


Q ss_pred             HHHhhcCCHHHHHHHHHhC---CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhh---------------------cCC
Q 043490          358 DLLGRVGRILEAEKLIREM---PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQ---------------------LEP  413 (589)
Q Consensus       358 ~~~~~~g~~~~A~~~~~~m---~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~---------------------~~p  413 (589)
                      .+.+....++.-+..++.|   -.-|+..+...+++|....+.++..-+++..+..                     ..|
T Consensus       406 ~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp  485 (625)
T KOG4422|consen  406 DLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHP  485 (625)
T ss_pred             HHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCC
Confidence            7778888888888888888   2346667777777776666665554444433321                     122


Q ss_pred             C----------------------------------ChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          414 G----------------------------------DSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       414 ~----------------------------------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      .                                  .+......+-.+.+.|+.++|.+++.....++
T Consensus       486 ~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~  552 (625)
T KOG4422|consen  486 LTPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKH  552 (625)
T ss_pred             CChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcC
Confidence            1                                  12334556667889999999999999886444

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

Probab=99.49  E-value=7.7e-12  Score=125.09  Aligned_cols=275  Identities=14%  Similarity=0.081  Sum_probs=217.6

Q ss_pred             CHHHHHHHHhhCCC--CChh-HHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHH
Q 043490          152 CADEAWKVFENMEF--RNVI-SWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREG--MAPDWCTFSIVLKAC  226 (589)
Q Consensus       152 ~~~~A~~lf~~m~~--~~~~-~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g--~~p~~~t~~~ll~a~  226 (589)
                      +..+|...|..+++  +|.. .-..+..+|             ...+++++|.++|+...+..  ..-+...|+++|-.+
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~Gray-------------FEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHL  400 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAY-------------FELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHL  400 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHH
Confidence            35789999998764  4443 234456777             88999999999999988743  112567888887655


Q ss_pred             hCcCcHHHHHHHH-HHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCC---ChhHHHHHHHHHHHcCCHHHHH
Q 043490          227 AGLVTERHASAVH-SLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYH---DLVSWNSILKAYALHGQAKEAL  302 (589)
Q Consensus       227 ~~~~~~~~a~~i~-~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~  302 (589)
                      -+.    .+...+ +.+++.. +..+.+|.++.+.|.-.++.+.|++.|++..+-   ...+|+.+..-+.....+++|.
T Consensus       401 q~~----v~Ls~Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~  475 (638)
T KOG1126|consen  401 QDE----VALSYLAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAM  475 (638)
T ss_pred             Hhh----HHHHHHHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHH
Confidence            332    222222 2233332 667899999999999999999999999998854   4568888888889999999999


Q ss_pred             HHHHhC-CCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CC
Q 043490          303 QLFSNM-NVQPDS-ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PM  378 (589)
Q Consensus       303 ~~~~~m-~~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~  378 (589)
                      ..|+.. ++.|.. ..|..+.-.|.+.++++.|.-.|+..+   .+.| +......+...+-+.|+.|+|+++++++ .+
T Consensus       476 ~~fr~Al~~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~---~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~l  552 (638)
T KOG1126|consen  476 KSFRKALGVDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAV---EINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHL  552 (638)
T ss_pred             HHHHhhhcCCchhhHHHHhhhhheeccchhhHHHHHHHhhh---cCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhc
Confidence            999999 888865 488889999999999999999999876   6677 5556777788899999999999999998 44


Q ss_pred             CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCC
Q 043490          379 EP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRV  447 (589)
Q Consensus       379 ~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  447 (589)
                      .| |+..----...+...+++++|.+.++++.++-|++..+|..+...|-+.|+.+.|..-|.-+.+.+.
T Consensus       553 d~kn~l~~~~~~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldp  622 (638)
T KOG1126|consen  553 DPKNPLCKYHRASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDP  622 (638)
T ss_pred             CCCCchhHHHHHHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCC
Confidence            44 3444334556677789999999999999999999999999999999999999999998887766543

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

Probab=99.49  E-value=2.3e-09  Score=106.95  Aligned_cols=259  Identities=12%  Similarity=0.058  Sum_probs=151.1

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSK  271 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~  271 (589)
                      ..+.++++|..+|.+....  .|+...|.--+..---++..++|.+++++.++. ++.-.-.|-.+...+-+.++++.|.
T Consensus       629 ~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR  705 (913)
T KOG0495|consen  629 FENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAR  705 (913)
T ss_pred             hccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHH
Confidence            3444555555555554442  233333333233333344555555555555543 2333444555555555555555555


Q ss_pred             HHHhhcCC--C-ChhHHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCC
Q 043490          272 QVFDKMTY--H-DLVSWNSILKAYALHGQAKEALQLFSNM--NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGV  346 (589)
Q Consensus       272 ~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  346 (589)
                      ..|..-.+  | .+..|-.+...--+.|..-+|..+|++.  .-+-|..-|...|..=.+.|..++|..+..+.+++  .
T Consensus       706 ~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe--c  783 (913)
T KOG0495|consen  706 EAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQE--C  783 (913)
T ss_pred             HHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh--C
Confidence            55554431  2 2334554544445555555555555555  22224445555555555555555555555554442  2


Q ss_pred             ccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHh
Q 043490          347 VPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIY  426 (589)
Q Consensus       347 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  426 (589)
                      +.+...|..-|.+..+.++-....+.+++-  +-|....-++...+....+++.|...|.+..+.+|++..+|..+...+
T Consensus       784 p~sg~LWaEaI~le~~~~rkTks~DALkkc--e~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfe  861 (913)
T KOG0495|consen  784 PSSGLLWAEAIWLEPRPQRKTKSIDALKKC--EHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFE  861 (913)
T ss_pred             CccchhHHHHHHhccCcccchHHHHHHHhc--cCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHH
Confidence            233445555555555555544444444443  345566666777788888999999999999999999999999999999


Q ss_pred             hhcCChHHHHHHHHHHhcCCCccCCceeeEEEC
Q 043490          427 CLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIE  459 (589)
Q Consensus       427 ~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~  459 (589)
                      ...|.-++-.++++.....  .|.-|..|..+.
T Consensus       862 l~hG~eed~kev~~~c~~~--EP~hG~~W~avS  892 (913)
T KOG0495|consen  862 LRHGTEEDQKEVLKKCETA--EPTHGELWQAVS  892 (913)
T ss_pred             HHhCCHHHHHHHHHHHhcc--CCCCCcHHHHHh
Confidence            9999999999999887653  345566787553

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

Probab=99.47  E-value=3.8e-09  Score=109.43  Aligned_cols=423  Identities=13%  Similarity=0.119  Sum_probs=212.0

Q ss_pred             ccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcC---CCCCcchHHHHHHHHHhCCChhHHH
Q 043490           17 LHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEM---PKRNVVSWTALISGYAQHGNAEECF   93 (589)
Q Consensus        17 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m---~~~~~~~~~~li~~~~~~g~~~~A~   93 (589)
                      ..|++++|..++.++++..|   .+...|..|...|-..|+.+++...+-..   ...|..-|-.+-.-..+.|++++|.
T Consensus       151 arg~~eeA~~i~~EvIkqdp---~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~  227 (895)
T KOG2076|consen  151 ARGDLEEAEEILMEVIKQDP---RNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQAR  227 (895)
T ss_pred             HhCCHHHHHHHHHHHHHhCc---cchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHH
Confidence            34888888888888888766   77788888888888888888877655432   2335566766666666666677766


Q ss_pred             HHHHHHHhccCCCceeH----HHHHHHhc-hhhHHHHHHHHHHhcCCCchhHHHH----HHHHHhc-CCHHHHHHHHhhC
Q 043490           94 RLFCSLLQYFFPNEFSL----ASVLISCD-YLHGKLVHALALKFSLDAHVYVANA----LINMYSK-SCADEAWKVFENM  163 (589)
Q Consensus        94 ~~~~~m~~~~~p~~~t~----~~~l~a~~-~~~~~~~~~~~~~~g~~~~~~~~~~----li~~y~~-g~~~~A~~lf~~m  163 (589)
                      -.|.+..+. .|+..-+    ..+..-.. ...+..-+..+.....+.|..-...    .+..|.. ++-+.|.+.++.-
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 YCYSRAIQA-NPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGA  306 (895)
T ss_pred             HHHHHHHhc-CCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            666666554 2222111    11111111 1122222222222211111111111    1222223 3334444444433


Q ss_pred             CC-----CChhHHHHHHHHHHcCCcHHHHHHHH-----------------------------------------------
Q 043490          164 EF-----RNVISWNSMIAAFRACKLEAQAIELF-----------------------------------------------  191 (589)
Q Consensus       164 ~~-----~~~~~~~~li~~~~~~g~~~~a~~~~-----------------------------------------------  191 (589)
                      ..     -+...+|.++..|.+...++.|....                                               
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            21     12223334444443333333333221                                               


Q ss_pred             -HHcCCHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHH
Q 043490          192 -AKMKNEEEALFLFRQLQREGM--APDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSIS  268 (589)
Q Consensus       192 -~~~g~~~~A~~~~~~m~~~g~--~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  268 (589)
                       ......+....+..-+....+  .-+...|.-+..++.+.|.+..|..++..+.....--+..+|-.+..+|...|.++
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             111111112222222223332  22334555566666666666666666666665544444556666666666666666


Q ss_pred             HHHHHHhhcCC--C-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-----------CCCCCHHHHHHHHHHHhccCcHHHHH
Q 043490          269 LSKQVFDKMTY--H-DLVSWNSILKAYALHGQAKEALQLFSNM-----------NVQPDSATFVSLLSACSHAGLVQEGN  334 (589)
Q Consensus       269 ~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m-----------~~~p~~~t~~~ll~a~~~~g~~~~a~  334 (589)
                      .|...|+.+..  | +...--+|...+-+.|+.++|++.++.+           +..|+..........+.+.|+.++=.
T Consensus       467 ~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi  546 (895)
T KOG2076|consen  467 EAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFI  546 (895)
T ss_pred             HHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHH
Confidence            66666666552  2 2233344445566666666666666665           12222222222333333444433322


Q ss_pred             HHHHHhHH--------------------------------------------------------------hcCCccC--c
Q 043490          335 KVFHSMLE--------------------------------------------------------------NHGVVPQ--L  350 (589)
Q Consensus       335 ~~~~~~~~--------------------------------------------------------------~~~~~p~--~  350 (589)
                      .+-..|+.                                                              ..++.-+  -
T Consensus       547 ~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsiddwf  626 (895)
T KOG2076|consen  547 NTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSIDDWF  626 (895)
T ss_pred             HHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcHHHHH
Confidence            21111100                                                              0011110  0


Q ss_pred             chHHHHHHHHhhcCCHHHHHHHHHhC----C-CCCCH---HHHHHHHHHHHHcCCHHHHHHHHHHHhhc-----CCCChh
Q 043490          351 DHYACMVDLLGRVGRILEAEKLIREM----P-MEPDS---VIWSVLLGSCRKHGETRLAELAATKLKQL-----EPGDSL  417 (589)
Q Consensus       351 ~~~~~li~~~~~~g~~~~A~~~~~~m----~-~~p~~---~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-----~p~~~~  417 (589)
                      ..+.-++..+++.+++++|+.+...+    . ..++.   ..-...+.++...+++..|....+.++..     +|--..
T Consensus       627 el~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~~~~q~~  706 (895)
T KOG2076|consen  627 ELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYLDVYQLN  706 (895)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhhhHHHH
Confidence            13445667788888999999888776    1 12221   12244566777888899998888888765     554455


Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          418 GFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       418 ~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      .|+...+...+.|+-..-.+.+....
T Consensus       707 l~n~~~s~~~~~~q~v~~~R~~~~~~  732 (895)
T KOG2076|consen  707 LWNLDFSYFSKYGQRVCYLRLIMRLL  732 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            56656666666666544444444433

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.46  E-value=4.4e-11  Score=121.34  Aligned_cols=280  Identities=11%  Similarity=0.046  Sum_probs=171.1

Q ss_pred             cCChHHHHHHHhcCCCC--Ccc-hHHHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHH
Q 043490           55 FGYLDDARHLFDEMPKR--NVV-SWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALK  131 (589)
Q Consensus        55 ~g~~~~A~~~f~~m~~~--~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~  131 (589)
                      .|+++.|++.+...++.  ++. .|-....+..+.|+++.|...|.++.+.                             
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~-----------------------------  147 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL-----------------------------  147 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-----------------------------
Confidence            58999999988876653  222 2333334447889999999999998764                             


Q ss_pred             hcCCCchhHHH--HHHHHHhc-CCHHHHHHHHhhCCC--C-ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHH
Q 043490          132 FSLDAHVYVAN--ALINMYSK-SCADEAWKVFENMEF--R-NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFR  205 (589)
Q Consensus       132 ~g~~~~~~~~~--~li~~y~~-g~~~~A~~lf~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~  205 (589)
                         .|+.....  .....+.. |+++.|...+++..+  | +......+...|             .+.|++++|.+++.
T Consensus       148 ---~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~~~~al~ll~~~~-------------~~~gdw~~a~~~l~  211 (398)
T PRK10747        148 ---ADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAPRHPEVLRLAEQAY-------------IRTGAWSSLLDILP  211 (398)
T ss_pred             ---CCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHH-------------HHHHhHHHHHHHHH
Confidence               34433222  23556777 999999999998864  3 566677788888             88899999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCCh
Q 043490          206 QLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDL  282 (589)
Q Consensus       206 ~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~  282 (589)
                      ++.+.+..++. .+..+-.                           .+|..++....+..+.+...++++.++   ..++
T Consensus       212 ~l~k~~~~~~~-~~~~l~~---------------------------~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~  263 (398)
T PRK10747        212 SMAKAHVGDEE-HRAMLEQ---------------------------QAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQV  263 (398)
T ss_pred             HHHHcCCCCHH-HHHHHHH---------------------------HHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCH
Confidence            99887644322 1110000                           011111111122223344444444443   2345


Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHh
Q 043490          283 VSWNSILKAYALHGQAKEALQLFSNM-NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLG  361 (589)
Q Consensus       283 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~  361 (589)
                      .....+..++...|+.++|.+.+++. ...||....  ++.+....++.+++.+..+...+++  +-|...+.++...+.
T Consensus       264 ~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~--P~~~~l~l~lgrl~~  339 (398)
T PRK10747        264 ALQVAMAEHLIECDDHDTAQQIILDGLKRQYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQH--GDTPLLWSTLGQLLM  339 (398)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHH--HHHhhccCCChHHHHHHHHHHHhhC--CCCHHHHHHHHHHHH
Confidence            55555666666666666666666666 544444211  2223334466677777666665432  223445666667777


Q ss_pred             hcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Q 043490          362 RVGRILEAEKLIREM-PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQL  411 (589)
Q Consensus       362 ~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  411 (589)
                      +.|++++|.+.|+.. ...|+...+..+...+.+.|+.++|.+.+++...+
T Consensus       340 ~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~  390 (398)
T PRK10747        340 KHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAAMRRDGLML  390 (398)
T ss_pred             HCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            777777777777766 55677777777777777777777777777776553

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

Probab=99.46  E-value=6.1e-10  Score=107.42  Aligned_cols=400  Identities=14%  Similarity=0.060  Sum_probs=254.2

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCc---chHHHHHHHHH
Q 043490            8 YATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNV---VSWTALISGYA   84 (589)
Q Consensus         8 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~---~~~~~li~~~~   84 (589)
                      +-..-+-|-+.|.+++|.+.+.+.++..|   ..+..|......|...|++++..+---+..+-|+   -.+..-.+++-
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~l~p---~epiFYsNraAcY~~lgd~~~Vied~TkALEl~P~Y~KAl~RRA~A~E  194 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIELCP---DEPIFYSNRAACYESLGDWEKVIEDCTKALELNPDYVKALLRRASAHE  194 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhcCC---CCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcCcHHHHHHHHHHHHHH
Confidence            34455667788999999999999997633   3388899999999999999988776555544332   35555567777


Q ss_pred             hCCChhHHHHHHHHHHhccCCCceeHHHHHHHhc------------hhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc--
Q 043490           85 QHGNAEECFRLFCSLLQYFFPNEFSLASVLISCD------------YLHGKLVHALALKFSLDAHVYVANALINMYSK--  150 (589)
Q Consensus        85 ~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~------------~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~--  150 (589)
                      +.|++++|+.=.            |..+++..+.            -..|+.....-.+..-+|...+- ..|..|..  
T Consensus       195 ~lg~~~eal~D~------------tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~-~fi~syf~sF  261 (606)
T KOG0547|consen  195 QLGKFDEALFDV------------TVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSA-TFIASYFGSF  261 (606)
T ss_pred             hhccHHHHHHhh------------hHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcH-HHHHHHHhhc
Confidence            788888775422            2222222221            11222222222221112222211 12222211  


Q ss_pred             -CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHH-HH-cCCHHHHHHHHHHHHHcC-CCC-----CHH----
Q 043490          151 -SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELF-AK-MKNEEEALFLFRQLQREG-MAP-----DWC----  217 (589)
Q Consensus       151 -g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~-~~-~g~~~~A~~~~~~m~~~g-~~p-----~~~----  217 (589)
                       .++..      .+..+...+...+..++          +.+ .. ...+.+|.+.+.+-.... ..+     |..    
T Consensus       262 ~~~~~~------~~~~~~~ksDa~l~~~l----------~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~  325 (606)
T KOG0547|consen  262 HADPKP------LFDNKSDKSDAALAEAL----------EALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYM  325 (606)
T ss_pred             cccccc------cccCCCccchhhHHHHH----------HHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHH
Confidence             00000      00001111222222221          110 00 112333333332211100 011     111    


Q ss_pred             HHHHHHH--HHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHH
Q 043490          218 TFSIVLK--ACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAY  292 (589)
Q Consensus       218 t~~~ll~--a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~  292 (589)
                      .-..++.  -+.-.|+.-.+.+-++..++.. +.+...|--+..+|....+.++..+.|+...   ..|..+|..-...+
T Consensus       326 A~al~~~gtF~fL~g~~~~a~~d~~~~I~l~-~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~  404 (606)
T KOG0547|consen  326 AEALLLRGTFHFLKGDSLGAQEDFDAAIKLD-PAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMR  404 (606)
T ss_pred             HHHHHHhhhhhhhcCCchhhhhhHHHHHhcC-cccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHH
Confidence            1111111  1234578888888888888875 3344447777788999999999999999876   34667787777788


Q ss_pred             HHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHH
Q 043490          293 ALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAE  370 (589)
Q Consensus       293 ~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  370 (589)
                      .-.+++++|..=|++. .+.|+ ...|..+-.+.-+.+.++++...|++..+++  +.-+++|+.....+...+++++|.
T Consensus       405 flL~q~e~A~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkF--P~~~Evy~~fAeiLtDqqqFd~A~  482 (606)
T KOG0547|consen  405 FLLQQYEEAIADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKKF--PNCPEVYNLFAEILTDQQQFDKAV  482 (606)
T ss_pred             HHHHHHHHHHHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--CCCchHHHHHHHHHhhHHhHHHHH
Confidence            8888999999999999 88885 4688888888888999999999999997754  556789999999999999999999


Q ss_pred             HHHHhC-CCCCC---------HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHH
Q 043490          371 KLIREM-PMEPD---------SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRK  440 (589)
Q Consensus       371 ~~~~~m-~~~p~---------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  440 (589)
                      +.|+.. .++|+         +.+-.+++-.- -.+++..|..+++++.+++|....+|..|...-.+.|+.++|+++|+
T Consensus       483 k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFE  561 (606)
T KOG0547|consen  483 KQYDKAIELEPREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFE  561 (606)
T ss_pred             HHHHHHHhhccccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            999887 44443         22222222222 23899999999999999999999999999999999999999999998


Q ss_pred             HHh
Q 043490          441 EMK  443 (589)
Q Consensus       441 ~m~  443 (589)
                      +-.
T Consensus       562 ksa  564 (606)
T KOG0547|consen  562 KSA  564 (606)
T ss_pred             HHH
Confidence            754

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

Probab=99.44  E-value=1e-11  Score=124.15  Aligned_cols=243  Identities=19%  Similarity=0.180  Sum_probs=198.4

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhC--CCCcHHHHHHHHHHHHhcCCHH-HHHH
Q 043490          196 NEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYG--FEDDTVIANALIHAYARCGSIS-LSKQ  272 (589)
Q Consensus       196 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g--~~~~~~~~~~li~~~~~~g~~~-~A~~  272 (589)
                      +.++|+..|.+.... +.-+......+..+|...++.++++.+|+.+.+..  ...+..+|++.+--+-+.-.+. .|..
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~  412 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQD  412 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHH
Confidence            567899999985543 44455778888999999999999999999998764  2335667777654333322221 1222


Q ss_pred             HHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCc
Q 043490          273 VFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQL  350 (589)
Q Consensus       273 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~  350 (589)
                      +.+. .+..+.+|.++..+|.-+++.+.|++.|++. .+.| ...+|+.+..-+.....+|.|...|+..+     ..|.
T Consensus       413 Li~~-~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al-----~~~~  486 (638)
T KOG1126|consen  413 LIDT-DPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL-----GVDP  486 (638)
T ss_pred             HHhh-CCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhh-----cCCc
Confidence            2222 2456789999999999999999999999999 9999 67899988888888999999999998764     4566


Q ss_pred             chHHHH---HHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHH
Q 043490          351 DHYACM---VDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNI  425 (589)
Q Consensus       351 ~~~~~l---i~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  425 (589)
                      .+|+++   .-.|.+.++++.|+-.|+++ .+.|. .+....+...+.+.|+.++|+++++++..++|.|+..-...+..
T Consensus       487 rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~i  566 (638)
T KOG1126|consen  487 RHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASI  566 (638)
T ss_pred             hhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHH
Confidence            677764   56799999999999999999 77885 77778888899999999999999999999999999999999999


Q ss_pred             hhhcCChHHHHHHHHHHhcC
Q 043490          426 YCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       426 ~~~~g~~~~a~~~~~~m~~~  445 (589)
                      +...+++++|...++++++-
T Consensus       567 l~~~~~~~eal~~LEeLk~~  586 (638)
T KOG1126|consen  567 LFSLGRYVEALQELEELKEL  586 (638)
T ss_pred             HHhhcchHHHHHHHHHHHHh
Confidence            99999999999999999863

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

Probab=99.44  E-value=2.4e-10  Score=118.13  Aligned_cols=357  Identities=17%  Similarity=0.167  Sum_probs=240.0

Q ss_pred             HHHHhcCChHHHHHHHhcCCC---CCcchHHHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHH
Q 043490           50 NMYAKFGYLDDARHLFDEMPK---RNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVH  126 (589)
Q Consensus        50 ~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~  126 (589)
                      +.+.-.|++++|.+++.++.+   .+...|-+|...|-+.|+.++++..+--.-. .                       
T Consensus       147 N~lfarg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAH-L-----------------------  202 (895)
T KOG2076|consen  147 NNLFARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAH-L-----------------------  202 (895)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHh-c-----------------------
Confidence            334445999999999998875   3667899999999999999988876532221 1                       


Q ss_pred             HHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHH
Q 043490          127 ALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFR  205 (589)
Q Consensus       127 ~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~  205 (589)
                             .+.|...|-.+-....+ |.++.|.-.|.+..+.++.-|-.+..-          ..+|.+.|+...|++-|.
T Consensus       203 -------~p~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~p~n~~~~~er----------s~L~~~~G~~~~Am~~f~  265 (895)
T KOG2076|consen  203 -------NPKDYELWKRLADLSEQLGNINQARYCYSRAIQANPSNWELIYER----------SSLYQKTGDLKRAMETFL  265 (895)
T ss_pred             -------CCCChHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcchHHHHHH----------HHHHHHhChHHHHHHHHH
Confidence                   23455677777777788 999999999998876444444433211          123388999999999999


Q ss_pred             HHHHcCCCCCHH----HHHHHHHHHhCcCcHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC--
Q 043490          206 QLQREGMAPDWC----TFSIVLKACAGLVTERHASAVHSLIAKY-GFEDDTVIANALIHAYARCGSISLSKQVFDKMT--  278 (589)
Q Consensus       206 ~m~~~g~~p~~~----t~~~ll~a~~~~~~~~~a~~i~~~~~~~-g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--  278 (589)
                      ++.+...+.|..    +.-.++..+...++-+.|.+.+...... +-..+...++.++.+|.+...++.|......+.  
T Consensus       266 ~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r  345 (895)
T KOG2076|consen  266 QLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNR  345 (895)
T ss_pred             HHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhcc
Confidence            998864322222    2333455566666667777777766653 224455667788888888888888877766554  


Q ss_pred             --CCChhHHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc--Ccch
Q 043490          279 --YHDLVSWNSILKAYALHGQAKEALQLFSNM--NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP--QLDH  352 (589)
Q Consensus       279 --~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p--~~~~  352 (589)
                        ++|..-|.+-     ..++  .-...+...  ++.++...+. +.-++.+....+...-+.....+ ..+.|  +...
T Consensus       346 ~~e~d~~e~~~~-----~~~~--~~~~~~~~~~~~~s~~l~v~r-l~icL~~L~~~e~~e~ll~~l~~-~n~~~~d~~dL  416 (895)
T KOG2076|consen  346 ESEKDDSEWDTD-----ERRR--EEPNALCEVGKELSYDLRVIR-LMICLVHLKERELLEALLHFLVE-DNVWVSDDVDL  416 (895)
T ss_pred             ccCCChhhhhhh-----hhcc--ccccccccCCCCCCccchhHh-HhhhhhcccccchHHHHHHHHHH-hcCChhhhHHH
Confidence              2333222110     0000  000011111  3334433311 22233344444433333333333 24333  5678


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC---CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhc
Q 043490          353 YACMVDLLGRVGRILEAEKLIREM---PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLS  429 (589)
Q Consensus       353 ~~~li~~~~~~g~~~~A~~~~~~m---~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  429 (589)
                      |.-+.++|...|++.+|+.+|..+   +...+...|--+..+|...|.++.|.+.+++++.+.|++..+-..|...|.+.
T Consensus       417 ~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~  496 (895)
T KOG2076|consen  417 YLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPDNLDARITLASLYQQL  496 (895)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCCchhhhhhHHHHHHhc
Confidence            999999999999999999999998   22235789999999999999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHhcCCCccCCceeeE
Q 043490          430 GSFNKARLIRKEMKGSRVRKYPGLSWI  456 (589)
Q Consensus       430 g~~~~a~~~~~~m~~~~~~~~~~~s~~  456 (589)
                      |+.++|.+++..|..-+-...+++.|-
T Consensus       497 g~~EkalEtL~~~~~~D~~~~e~~a~~  523 (895)
T KOG2076|consen  497 GNHEKALETLEQIINPDGRNAEACAWE  523 (895)
T ss_pred             CCHHHHHHHHhcccCCCccchhhcccc
Confidence            999999999998874333333455553

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

Probab=99.43  E-value=6.4e-10  Score=106.64  Aligned_cols=245  Identities=13%  Similarity=0.120  Sum_probs=163.0

Q ss_pred             HHcCCHHHHHHHHHHHHHcCC-C-CCHHHHHHHHHHHhCcCcHH-HHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHH
Q 043490          192 AKMKNEEEALFLFRQLQREGM-A-PDWCTFSIVLKACAGLVTER-HASAVHSLIAKYGFEDDTVIANALIHAYARCGSIS  268 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~-~-p~~~t~~~ll~a~~~~~~~~-~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  268 (589)
                      -...++++|+.+|+++.+... + -|..||+.+|-.-.....+. .|..++. +  .  +-.+.|+..+.+-|+-.++.+
T Consensus       273 y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~-i--d--KyR~ETCCiIaNYYSlr~eHE  347 (559)
T KOG1155|consen  273 YNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSN-I--D--KYRPETCCIIANYYSLRSEHE  347 (559)
T ss_pred             hhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHH-h--c--cCCccceeeehhHHHHHHhHH
Confidence            455677777777777776531 1 25567777765543222211 1111111 1  1  223456667777777788888


Q ss_pred             HHHHHHhhcCC---CChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHh
Q 043490          269 LSKQVFDKMTY---HDLVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLEN  343 (589)
Q Consensus       269 ~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  343 (589)
                      +|...|++..+   .....|+.|..-|....+...|++.|++. .+.| |...|-.|.++|.-.+.+.-|.-+|++..  
T Consensus       348 KAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~--  425 (559)
T KOG1155|consen  348 KAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPRDYRAWYGLGQAYEIMKMHFYALYYFQKAL--  425 (559)
T ss_pred             HHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCchhHHHHhhhhHHHHHhcchHHHHHHHHHHH--
Confidence            88888887763   34467888888888888888888888888 6666 56688888888888888888888887764  


Q ss_pred             cCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhh-------cCC
Q 043490          344 HGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM--PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQ-------LEP  413 (589)
Q Consensus       344 ~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-------~~p  413 (589)
                       .++| |...|.+|.+.|.+.+++++|++-|.+.  .-..+...+..|...|-+.++.++|.+.+++-++       .+|
T Consensus       426 -~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~  504 (559)
T KOG1155|consen  426 -ELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDD  504 (559)
T ss_pred             -hcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccch
Confidence             4455 6678888888888888888888888777  1123457777788888888888888888877665       222


Q ss_pred             CChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          414 GDSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       414 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      ....+-.-|..-+.+.+++++|.........
T Consensus       505 ~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~  535 (559)
T KOG1155|consen  505 ETIKARLFLAEYFKKMKDFDEASYYATLVLK  535 (559)
T ss_pred             HHHHHHHHHHHHHHhhcchHHHHHHHHHHhc
Confidence            2233344566777777888777765554443

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

Probab=99.43  E-value=9.2e-11  Score=120.45  Aligned_cols=422  Identities=14%  Similarity=0.105  Sum_probs=258.3

Q ss_pred             CCChhHHHHHHHHHHccCCHHHHHHHHHHHHHh-CCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHHHH
Q 043490            2 LHSTQIYATLFHACALHGNIKQAMQLHEHMINN-FPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALI   80 (589)
Q Consensus         2 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li   80 (589)
                      .|+..||..++..|+..|+.+.|- +|..|.-. .|   .+..+++.++......++.+.+.       +|...+|+.|+
T Consensus        22 ~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLp---v~e~vf~~lv~sh~~And~Enpk-------ep~aDtyt~Ll   90 (1088)
T KOG4318|consen   22 LPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLP---VREGVFRGLVASHKEANDAENPK-------EPLADTYTNLL   90 (1088)
T ss_pred             CCchhhHHHHHHHHcccCCCcccc-chhhhhccccc---ccchhHHHHHhcccccccccCCC-------CCchhHHHHHH
Confidence            589999999999999999999988 99999887 66   88889999999999999887765       78889999999


Q ss_pred             HHHHhCCChhH---HHHHHHHHHhccCCCc-----eeHHHHHHHhc-----------hhhHHHHHHHHHHhcCCCchhHH
Q 043490           81 SGYAQHGNAEE---CFRLFCSLLQYFFPNE-----FSLASVLISCD-----------YLHGKLVHALALKFSLDAHVYVA  141 (589)
Q Consensus        81 ~~~~~~g~~~~---A~~~~~~m~~~~~p~~-----~t~~~~l~a~~-----------~~~~~~~~~~~~~~g~~~~~~~~  141 (589)
                      .+|.+.|+...   ..+.+.....+..|..     .-|...+..|.           ...-+.+++..++.+....+..+
T Consensus        91 ~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvsa~  170 (1088)
T KOG4318|consen   91 KAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVSAW  170 (1088)
T ss_pred             HHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcccc
Confidence            99999999654   3332333332211111     11111112121           22223334444444311111111


Q ss_pred             HH----HHHHHhc--CCHHHHHHHHhhCCC-CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC
Q 043490          142 NA----LINMYSK--SCADEAWKVFENMEF-RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAP  214 (589)
Q Consensus       142 ~~----li~~y~~--g~~~~A~~lf~~m~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p  214 (589)
                      +.    ++.-...  ..+++-........+ ++..++.+.+..-             ..+|+.+.|..++.+|.+.|++.
T Consensus       171 ~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~a-------------laag~~d~Ak~ll~emke~gfpi  237 (1088)
T KOG4318|consen  171 NAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRA-------------LAAGDVDGAKNLLYEMKEKGFPI  237 (1088)
T ss_pred             cchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHH-------------HhcCchhhHHHHHHHHHHcCCCc
Confidence            10    1111111  223333333333333 7777888887777             88899999999999999999998


Q ss_pred             CHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHH-----------------------
Q 043490          215 DWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSK-----------------------  271 (589)
Q Consensus       215 ~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~-----------------------  271 (589)
                      +.+-|..+|-+   .++...+..+.+-|...|+.|+..|+.--+-...++|....+.                       
T Consensus       238 r~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a  314 (1088)
T KOG4318|consen  238 RAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLA  314 (1088)
T ss_pred             ccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHHHHhcccHh
Confidence            88887777755   7888888999999999999999888876665555544322111                       


Q ss_pred             -HHHhhc---------C-------CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-----CCCCC-HHHHHHHHHHH----
Q 043490          272 -QVFDKM---------T-------YHDLVSWNSILKAYALHGQAKEALQLFSNM-----NVQPD-SATFVSLLSAC----  324 (589)
Q Consensus       272 -~~~~~~---------~-------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-----~~~p~-~~t~~~ll~a~----  324 (589)
                       +.+++-         +       .....+|...+. ....|..++...+-..|     ...|+ ...|..++.-|    
T Consensus       315 ~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~-l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrqyFrr~  393 (1088)
T KOG4318|consen  315 NKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCEK-LRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQYFRRI  393 (1088)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHHH-HHHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHHHHHHH
Confidence             111110         0       011123332222 22245555555554444     12221 11222222111    


Q ss_pred             ----------------------------------------------------------------------------hccC
Q 043490          325 ----------------------------------------------------------------------------SHAG  328 (589)
Q Consensus       325 ----------------------------------------------------------------------------~~~g  328 (589)
                                                                                                  +..-
T Consensus       394 e~~~~~~i~~~~qgls~~l~se~tp~vsell~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~se~  473 (1088)
T KOG4318|consen  394 ERHICSRIYYAGQGLSLNLNSEDTPRVSELLENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNSEY  473 (1088)
T ss_pred             HhhHHHHHHHHHHHHHhhhchhhhHHHHHHHHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHHHH
Confidence                                                                                        1111


Q ss_pred             cHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCC-----CCCCHHHHHHHHHHHHHcCCHHHHHH
Q 043490          329 LVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMP-----MEPDSVIWSVLLGSCRKHGETRLAEL  403 (589)
Q Consensus       329 ~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-----~~p~~~~~~~ll~~~~~~g~~~~a~~  403 (589)
                      +..++...-+.. +.   ..=...|..||+.+......++|..+.++..     +.-|..-+..+.....+.+....+..
T Consensus       474 n~lK~l~~~eky-e~---~lf~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~t  549 (1088)
T KOG4318|consen  474 NKLKILCDEEKY-ED---LLFAGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLST  549 (1088)
T ss_pred             HHHHHHHHHHHH-HH---HHhhhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHH
Confidence            111111111110 10   0112457888888888888999998888872     23355567788888889998999988


Q ss_pred             HHHHHhhcC---CCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCCccCCceeeE
Q 043490          404 AATKLKQLE---PGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWI  456 (589)
Q Consensus       404 ~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~  456 (589)
                      +++.+.+.-   |.-..+...+.+.-+..|+.+...++++-+...|+.- .+--|.
T Consensus       550 iL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~e-tgPl~~  604 (1088)
T KOG4318|consen  550 ILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSE-TGPLWM  604 (1088)
T ss_pred             HHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhh-cccceE
Confidence            888887632   3334556678888889999999999999999888865 344453

>TIGR00540 hemY_coli hemY protein

Probab=99.43  E-value=5.1e-10  Score=114.24  Aligned_cols=249  Identities=12%  Similarity=0.012  Sum_probs=123.7

Q ss_pred             HHHhc-CCHHHHHHHHhhCCC--CCh--hHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 043490          146 NMYSK-SCADEAWKVFENMEF--RNV--ISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFS  220 (589)
Q Consensus       146 ~~y~~-g~~~~A~~lf~~m~~--~~~--~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  220 (589)
                      ..+.+ |+.+.|...|.+..+  |+.  ...-.....+             .+.|++++|.+.++++.+.. +-+...+.
T Consensus       126 ~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~-------------l~~~~~~~Al~~l~~l~~~~-P~~~~~l~  191 (409)
T TIGR00540       126 EAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRIL-------------LAQNELHAARHGVDKLLEMA-PRHKEVLK  191 (409)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHH-------------HHCCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence            44555 777777777776532  222  1222223334             66777777777777777754 22445666


Q ss_pred             HHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHH---H----hcCCHHHHHHHHhhcCC---CChhHHHHHHH
Q 043490          221 IVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAY---A----RCGSISLSKQVFDKMTY---HDLVSWNSILK  290 (589)
Q Consensus       221 ~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~---~----~~g~~~~A~~~~~~~~~---~~~~~~~~li~  290 (589)
                      .+...+...|+++.+.+.+..+.+.+..+.......-...+   .    .....+...+.++..+.   .+...+..+..
T Consensus       192 ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~  271 (409)
T TIGR00540       192 LAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAE  271 (409)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHH
Confidence            77777777777777777777777776433222211111111   1    11222333444444442   35566666666


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCCCHHHH---HHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCH
Q 043490          291 AYALHGQAKEALQLFSNM-NVQPDSATF---VSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRI  366 (589)
Q Consensus       291 ~~~~~g~~~~A~~~~~~m-~~~p~~~t~---~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  366 (589)
                      .+...|+.++|.+.+++. ...||....   ..........++.+.+.+.++...+...-.|+.....++...+.+.|++
T Consensus       272 ~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~  351 (409)
T TIGR00540       272 HLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEF  351 (409)
T ss_pred             HHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccH
Confidence            666666666666666666 545544321   1111111223444555555544433221111112333444444445555


Q ss_pred             HHHHHHHHh--C-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 043490          367 LEAEKLIRE--M-PMEPDSVIWSVLLGSCRKHGETRLAELAATKL  408 (589)
Q Consensus       367 ~~A~~~~~~--m-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  408 (589)
                      ++|.+.|+.  . ...|+...+..+...+.+.|+.++|.+++++.
T Consensus       352 ~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       352 IEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             HHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            555554442  1 33444444444444444444444444444443

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

>TIGR00540 hemY_coli hemY protein

Probab=99.42  E-value=4.3e-10  Score=114.79  Aligned_cols=273  Identities=14%  Similarity=0.030  Sum_probs=198.1

Q ss_pred             CCHHHHHHHHhhCCC--CCh-hHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH--HHHHHHHHH
Q 043490          151 SCADEAWKVFENMEF--RNV-ISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDW--CTFSIVLKA  225 (589)
Q Consensus       151 g~~~~A~~lf~~m~~--~~~-~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a  225 (589)
                      |+++.|++.+.+..+  |+. ..+-....++             .+.|++++|.+.+.+..+..  |+.  ..-......
T Consensus        98 g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa-------------~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l  162 (409)
T TIGR00540        98 GDYAKAEKLIAKNADHAAEPVLNLIKAAEAA-------------QQRGDEARANQHLEEAAELA--GNDNILVEIARTRI  162 (409)
T ss_pred             CCHHHHHHHHHHHhhcCCCCHHHHHHHHHHH-------------HHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHH
Confidence            999999999988764  332 2233333445             78899999999999987643  443  233334667


Q ss_pred             HhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCC---ChhHHH----HHHHHHHHcCCH
Q 043490          226 CAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYH---DLVSWN----SILKAYALHGQA  298 (589)
Q Consensus       226 ~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~----~li~~~~~~g~~  298 (589)
                      +...|+.+.|.+.++.+.+.. |.+..+...+...|...|++++|.+.+....+.   +...+.    ....++...+..
T Consensus       163 ~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~  241 (409)
T TIGR00540       163 LLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMA  241 (409)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            788999999999999999987 677888999999999999999999999988743   332231    111222333333


Q ss_pred             HHHHHHHHhC-CCCC-----CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchH-HHHHHHH--hhcCCHHHH
Q 043490          299 KEALQLFSNM-NVQP-----DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHY-ACMVDLL--GRVGRILEA  369 (589)
Q Consensus       299 ~~A~~~~~~m-~~~p-----~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~-~~li~~~--~~~g~~~~A  369 (589)
                      +++.+.+.++ ...|     +...+..+...+...|+.++|.+.++...++   .||.... ..++..+  ...++.+.+
T Consensus       242 ~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~---~pd~~~~~~~~l~~~~~l~~~~~~~~  318 (409)
T TIGR00540       242 DEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK---LGDDRAISLPLCLPIPRLKPEDNEKL  318 (409)
T ss_pred             hcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh---CCCcccchhHHHHHhhhcCCCChHHH
Confidence            3334444444 2233     6778888889999999999999999998764   4544321 0123322  345788888


Q ss_pred             HHHHHhC-CCCCC-H--HHHHHHHHHHHHcCCHHHHHHHHH--HHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          370 EKLIREM-PMEPD-S--VIWSVLLGSCRKHGETRLAELAAT--KLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       370 ~~~~~~m-~~~p~-~--~~~~~ll~~~~~~g~~~~a~~~~~--~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      .+.+++. ...|+ .  ....++...|.+.|++++|.+.|+  ...+..| ++..+..++..+.+.|+.++|.+++++-.
T Consensus       319 ~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p-~~~~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       319 EKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQL-DANDLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             HHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            8888777 33454 4  667789999999999999999999  4666777 55668899999999999999999998753

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.

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

Probab=99.40  E-value=1.2e-09  Score=104.90  Aligned_cols=308  Identities=13%  Similarity=0.118  Sum_probs=214.0

Q ss_pred             cCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHH-------------------HHHH
Q 043490          133 SLDAHVYVANALINMYSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAI-------------------ELFA  192 (589)
Q Consensus       133 g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~-------------------~~~~  192 (589)
                      +...|.+..-..--.+-+ |....|.+.|......-+.-|.+.+.-.--..+.+.+.                   .++.
T Consensus       159 ~~~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~~~l~~~l~~~~h~M~~~F~~~a~~  238 (559)
T KOG1155|consen  159 GGEKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEILSILVVGLPSDMHWMKKFFLKKAYQ  238 (559)
T ss_pred             cccchhHHHHHHHHHHHhhchHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHHHHHHhcCcccchHHHHHHHHHHHH
Confidence            344554444433344555 77788888887765433333333222111111111110                   1123


Q ss_pred             HcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCC--CCcHHHHHHHHHHHHhcCCHH-H
Q 043490          193 KMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGF--EDDTVIANALIHAYARCGSIS-L  269 (589)
Q Consensus       193 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~--~~~~~~~~~li~~~~~~g~~~-~  269 (589)
                      .....+++++-.......|++-+...-+....+.-...|+++|+.+|+++.+...  -.|..+|+.++-.--.+.++. .
T Consensus       239 el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~L  318 (559)
T KOG1155|consen  239 ELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYL  318 (559)
T ss_pred             HHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHH
Confidence            3345666666666667766654444444444444667788888888888887631  124566665543322222222 2


Q ss_pred             HHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCc
Q 043490          270 SKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDS-ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVV  347 (589)
Q Consensus       270 A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~  347 (589)
                      |..+++ +.+--+.|...+..-|+-.++.++|...|++. .+.|.. ..|+.+..-|...++...|.+-++..+   .+.
T Consensus       319 A~~v~~-idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAv---di~  394 (559)
T KOG1155|consen  319 AQNVSN-IDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAV---DIN  394 (559)
T ss_pred             HHHHHH-hccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHH---hcC
Confidence            222222 22334456666777788899999999999999 888875 467777889999999999999999887   455


Q ss_pred             c-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHH
Q 043490          348 P-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSN  424 (589)
Q Consensus       348 p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  424 (589)
                      | |-..|-.|.++|.-.+...-|+-.|++. ..+| |...|.+|...|.+.++.++|++-|.++...+-.+...+..|++
T Consensus       395 p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~Lak  474 (559)
T KOG1155|consen  395 PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAK  474 (559)
T ss_pred             chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHH
Confidence            5 7778999999999999999999999999 6777 59999999999999999999999999999988767899999999


Q ss_pred             HhhhcCChHHHHHHHHHHhc
Q 043490          425 IYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       425 ~~~~~g~~~~a~~~~~~m~~  444 (589)
                      +|-+.++.++|.+.+++-.+
T Consensus       475 Lye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  475 LYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHhHHHHHHHHHHHHH
Confidence            99999999999999987765

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

Probab=99.40  E-value=1.3e-08  Score=98.04  Aligned_cols=414  Identities=11%  Similarity=0.114  Sum_probs=286.8

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCC--CCCcchHHHHHHHHH
Q 043490            7 IYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMP--KRNVVSWTALISGYA   84 (589)
Q Consensus         7 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~--~~~~~~~~~li~~~~   84 (589)
                      .|...+..-.+...+..|+.+++..+..+|   .--..|-..+.+=-..|++..|+++|++-.  +|+..+|++.|..=.
T Consensus       109 LWlkYae~Emknk~vNhARNv~dRAvt~lP---RVdqlWyKY~ymEE~LgNi~gaRqiferW~~w~P~eqaW~sfI~fEl  185 (677)
T KOG1915|consen  109 LWLKYAEFEMKNKQVNHARNVWDRAVTILP---RVDQLWYKYIYMEEMLGNIAGARQIFERWMEWEPDEQAWLSFIKFEL  185 (677)
T ss_pred             HHHHHHHHHHhhhhHhHHHHHHHHHHHhcc---hHHHHHHHHHHHHHHhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHH
Confidence            445556677788899999999999998866   556677778888888999999999999854  699999999999999


Q ss_pred             hCCChhHHHHHHHHHHhccCCCceeHHHHHHHh---c-hhhHHHHHHHHHHh-cC-CCchhHHHHHHHHHhc-CCHHHHH
Q 043490           85 QHGNAEECFRLFCSLLQYFFPNEFSLASVLISC---D-YLHGKLVHALALKF-SL-DAHVYVANALINMYSK-SCADEAW  157 (589)
Q Consensus        85 ~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~---~-~~~~~~~~~~~~~~-g~-~~~~~~~~~li~~y~~-g~~~~A~  157 (589)
                      +...++.|..+|++.+- +.|+..+|.--.+--   + ...++.++..++.. |- ..+...++++...=.+ ..++.|+
T Consensus       186 RykeieraR~IYerfV~-~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar  264 (677)
T KOG1915|consen  186 RYKEIERARSIYERFVL-VHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERAR  264 (677)
T ss_pred             HhhHHHHHHHHHHHHhe-ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999998765 357776665443321   1 55566666665533 11 1112233333333333 4556666


Q ss_pred             HHHhh----CCC-CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHH--------HHHHHHHcCCCCCHHHHHHHHH
Q 043490          158 KVFEN----MEF-RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALF--------LFRQLQREGMAPDWCTFSIVLK  224 (589)
Q Consensus       158 ~lf~~----m~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~--------~~~~m~~~g~~p~~~t~~~ll~  224 (589)
                      -+|.-    ++. +....|.....--             -+.|+-....+        -|+++.+.+ +-|-.+|--.+.
T Consensus       265 ~iykyAld~~pk~raeeL~k~~~~fE-------------KqfGd~~gIEd~Iv~KRk~qYE~~v~~n-p~nYDsWfdylr  330 (677)
T KOG1915|consen  265 FIYKYALDHIPKGRAEELYKKYTAFE-------------KQFGDKEGIEDAIVGKRKFQYEKEVSKN-PYNYDSWFDYLR  330 (677)
T ss_pred             HHHHHHHHhcCcccHHHHHHHHHHHH-------------HHhcchhhhHHHHhhhhhhHHHHHHHhC-CCCchHHHHHHH
Confidence            66543    332 1223333333333             23343322221        133444432 456677777788


Q ss_pred             HHhCcCcHHHHHHHHHHHHHhCCCCcH-------HHHHHHH---HHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHH
Q 043490          225 ACAGLVTERHASAVHSLIAKYGFEDDT-------VIANALI---HAYARCGSISLSKQVFDKMT---YHDLVSWNSILKA  291 (589)
Q Consensus       225 a~~~~~~~~~a~~i~~~~~~~g~~~~~-------~~~~~li---~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~  291 (589)
                      .-...|+.+...++++.++.. ++|-.       .+|.-+=   -.=....+.+.+.++|+...   .....|+.-+--.
T Consensus       331 L~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~lIPHkkFtFaKiWlm  409 (677)
T KOG1915|consen  331 LEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDLIPHKKFTFAKIWLM  409 (677)
T ss_pred             HHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcCcccchHHHHHHH
Confidence            888889999999999999876 35521       1222111   11134578888999987765   3344455444333


Q ss_pred             ----HHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCC
Q 043490          292 ----YALHGQAKEALQLFSNM-NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGR  365 (589)
Q Consensus       292 ----~~~~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~  365 (589)
                          -.++.+...|.+++-.. |.-|-..+|-..|..=.+.+.+|.+.++++..++   ..| +..+|......=...|+
T Consensus       410 yA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle---~~Pe~c~~W~kyaElE~~Lgd  486 (677)
T KOG1915|consen  410 YAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLE---FSPENCYAWSKYAELETSLGD  486 (677)
T ss_pred             HHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHh---cChHhhHHHHHHHHHHHHhhh
Confidence                44678899999999999 9999999999999999999999999999998864   345 66677777777788999


Q ss_pred             HHHHHHHHHhCCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhh-----hcC------
Q 043490          366 ILEAEKLIREMPMEPD----SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYC-----LSG------  430 (589)
Q Consensus       366 ~~~A~~~~~~m~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~-----~~g------  430 (589)
                      .+.|..+|.-.--+|.    ...|.+.|.-=...|.++.|..+++++++..+ ...+|.+.+.--.     +.|      
T Consensus       487 tdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~-h~kvWisFA~fe~s~~~~~~~~~~~~~  565 (677)
T KOG1915|consen  487 TDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQ-HVKVWISFAKFEASASEGQEDEDLAEL  565 (677)
T ss_pred             HHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcc-cchHHHhHHHHhccccccccccchhhh
Confidence            9999999998732442    56788888888889999999999999999887 3347777666544     344      


Q ss_pred             -----ChHHHHHHHHHHh
Q 043490          431 -----SFNKARLIRKEMK  443 (589)
Q Consensus       431 -----~~~~a~~~~~~m~  443 (589)
                           +...|.++|++..
T Consensus       566 e~~~~~~~~AR~iferAn  583 (677)
T KOG1915|consen  566 EITDENIKRARKIFERAN  583 (677)
T ss_pred             hcchhHHHHHHHHHHHHH
Confidence                 5667888887764

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

Probab=99.39  E-value=1.8e-12  Score=125.56  Aligned_cols=249  Identities=18%  Similarity=0.192  Sum_probs=105.0

Q ss_pred             HHHHHHHhcCChHHHHHHHhcC-CC----CCcchHHHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhh
Q 043490           47 HLINMYAKFGYLDDARHLFDEM-PK----RNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLH  121 (589)
Q Consensus        47 ~li~~~~~~g~~~~A~~~f~~m-~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~  121 (589)
                      .+..++.+.|++++|.+++++. ..    .|...|..+.......+++++|+..|+++...                   
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~-------------------   73 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLAS-------------------   73 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-------------------
Confidence            5577788888888888888532 22    24555666666666778888888888888654                   


Q ss_pred             HHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCC--CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHH
Q 043490          122 GKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEF--RNVISWNSMIAAFRACKLEAQAIELFAKMKNEE  198 (589)
Q Consensus       122 ~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~  198 (589)
                                  -+.+...+..++.. .. +++++|.++++..-+  ++...+..++..+             .+.++++
T Consensus        74 ------------~~~~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~-------------~~~~~~~  127 (280)
T PF13429_consen   74 ------------DKANPQDYERLIQL-LQDGDPEEALKLAEKAYERDGDPRYLLSALQLY-------------YRLGDYD  127 (280)
T ss_dssp             ---------------------------------------------------------H-H-------------HHTT-HH
T ss_pred             ------------cccccccccccccc-cccccccccccccccccccccccchhhHHHHHH-------------HHHhHHH
Confidence                        01133345556666 45 888888888776533  4566677777777             8888888


Q ss_pred             HHHHHHHHHHHcC-CCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhc
Q 043490          199 EALFLFRQLQREG-MAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKM  277 (589)
Q Consensus       199 ~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  277 (589)
                      ++.+++++..... .+++...|..+...+.+.|+.+.|...++..++.. |.|..+.+.++..+...|+.+++.+++...
T Consensus       128 ~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~  206 (280)
T PF13429_consen  128 EAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRL  206 (280)
T ss_dssp             HHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHH
Confidence            8888888876533 34566777788888889999999999999998886 557888888999999999999877777665


Q ss_pred             C---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhH
Q 043490          278 T---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSML  341 (589)
Q Consensus       278 ~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  341 (589)
                      .   ..|...|..+..+|...|+.++|+..|++. ...| |......+..++...|+.++|.++.....
T Consensus       207 ~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  207 LKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHT----------------
T ss_pred             HHHCcCHHHHHHHHHHHhccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            4   457778889999999999999999999999 6556 66778888889999999999999887664

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

Probab=99.37  E-value=6.3e-09  Score=102.46  Aligned_cols=425  Identities=15%  Similarity=0.101  Sum_probs=280.1

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHh--cCCCCCcchHHHHHHHHH
Q 043490            7 IYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFD--EMPKRNVVSWTALISGYA   84 (589)
Q Consensus         7 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~--~m~~~~~~~~~~li~~~~   84 (589)
                      -+..+++-+..+.++..|+-+-+.+...    ..|+..---+..+|.-.|+.+.|..+..  .+.+.|..+.......+.
T Consensus        18 ~~~~~~r~~l~q~~y~~a~f~adkV~~l----~~dp~d~~~~aq~l~~~~~y~ra~~lit~~~le~~d~~cryL~~~~l~   93 (611)
T KOG1173|consen   18 KYRRLVRDALMQHRYKTALFWADKVAGL----TNDPADIYWLAQVLYLGRQYERAAHLITTYKLEKRDIACRYLAAKCLV   93 (611)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHhc----cCChHHHHHHHHHHHhhhHHHHHHHHHHHhhhhhhhHHHHHHHHHHHH
Confidence            3445556666666677776666666543    2444444557778888888888877765  455678888888888899


Q ss_pred             hCCChhHHHHHHHH----HHhc----------cCCCcee----HHHHHHHhc-----------hhhHHHHHHHHHHhcCC
Q 043490           85 QHGNAEECFRLFCS----LLQY----------FFPNEFS----LASVLISCD-----------YLHGKLVHALALKFSLD  135 (589)
Q Consensus        85 ~~g~~~~A~~~~~~----m~~~----------~~p~~~t----~~~~l~a~~-----------~~~~~~~~~~~~~~g~~  135 (589)
                      +..++++|+.++..    +..-          +.+|..-    ...-...|-           ...++..+..+    +.
T Consensus        94 ~lk~~~~al~vl~~~~~~~~~f~yy~~~~~~~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~A----l~  169 (611)
T KOG1173|consen   94 KLKEWDQALLVLGRGHVETNPFSYYEKDAANTLELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEA----LL  169 (611)
T ss_pred             HHHHHHHHHHHhcccchhhcchhhcchhhhceeccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHH----Hh
Confidence            99999999988872    2111          1111111    000000011           22233333222    23


Q ss_pred             CchhHHHHHHHHHhc--CCHHHHHHHHhhCCC-----CChhHH----------------------HHHHHHHHcCCcHHH
Q 043490          136 AHVYVANALINMYSK--SCADEAWKVFENMEF-----RNVISW----------------------NSMIAAFRACKLEAQ  186 (589)
Q Consensus       136 ~~~~~~~~li~~y~~--g~~~~A~~lf~~m~~-----~~~~~~----------------------~~li~~~~~~g~~~~  186 (589)
                      .|...+.++..+-..  --..+-+.+|+..+-     -++..-                      ..++..--...-..+
T Consensus       170 ~D~~c~Ea~~~lvs~~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dll~~  249 (611)
T KOG1173|consen  170 ADAKCFEAFEKLVSAHMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLDLLAE  249 (611)
T ss_pred             cchhhHHHHHHHHHHHhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHHHHHH
Confidence            333333333322222  111222223322110     000000                      001000000000001


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCC
Q 043490          187 AIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGS  266 (589)
Q Consensus       187 a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~  266 (589)
                      --+.+...+++.+.++++....+.. ++....+..=|.++...|+...-..+=..+.+. .|....+|-++.--|.-.|+
T Consensus       250 ~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YYl~i~k  327 (611)
T KOG1173|consen  250 KADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYYLMIGK  327 (611)
T ss_pred             HHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHHHHhcC
Confidence            1122367789999999999988753 455555656666777888777766666666665 37778899999999999999


Q ss_pred             HHHHHHHHhhcCCCC---hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhH
Q 043490          267 ISLSKQVFDKMTYHD---LVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSML  341 (589)
Q Consensus       267 ~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  341 (589)
                      .++|++.|.+...-|   ...|-.....|+-.|..++|+..+... .+-| ....+.-+.--|.+.++.+.|.++|.+..
T Consensus       328 ~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~  407 (611)
T KOG1173|consen  328 YSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKFFKQAL  407 (611)
T ss_pred             cHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            999999999877443   368999999999999999999999888 3333 22334445556788899999999998775


Q ss_pred             HhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC--------CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Q 043490          342 ENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM--------PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQL  411 (589)
Q Consensus       342 ~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m--------~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  411 (589)
                         ++-| |+.+.+-+.-..-..+.+.+|..+|+..        +-.+ -..+++.|..+|++.+.+++|+..+++.+.+
T Consensus       408 ---ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l  484 (611)
T KOG1173|consen  408 ---AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLL  484 (611)
T ss_pred             ---hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHc
Confidence               6677 6667777777777889999999999876        1112 2456888999999999999999999999999


Q ss_pred             CCCChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          412 EPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       412 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      .|.+..+|.+++-+|...|+++.|...|.+...
T Consensus       485 ~~k~~~~~asig~iy~llgnld~Aid~fhKaL~  517 (611)
T KOG1173|consen  485 SPKDASTHASIGYIYHLLGNLDKAIDHFHKALA  517 (611)
T ss_pred             CCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh
Confidence            999999999999999999999999999987653

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

Probab=99.37  E-value=1e-08  Score=102.37  Aligned_cols=361  Identities=11%  Similarity=0.112  Sum_probs=264.0

Q ss_pred             hHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-CcchHHHHHHH
Q 043490            6 QIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--R-NVVSWTALISG   82 (589)
Q Consensus         6 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~   82 (589)
                      .||..-.+.|.+.+.++-|+.+|...++-+|   .+...|...+..--..|..++-..+|++...  | ....|-.....
T Consensus       517 ~tw~~da~~~~k~~~~~carAVya~alqvfp---~k~slWlra~~~ek~hgt~Esl~Allqkav~~~pkae~lwlM~ake  593 (913)
T KOG0495|consen  517 STWLDDAQSCEKRPAIECARAVYAHALQVFP---CKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCPKAEILWLMYAKE  593 (913)
T ss_pred             hHHhhhHHHHHhcchHHHHHHHHHHHHhhcc---chhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCcchhHHHHHHHH
Confidence            3555566666667777777777777776666   6666776666666666777777766666543  2 33445555555


Q ss_pred             HHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHh
Q 043490           83 YAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFE  161 (589)
Q Consensus        83 ~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~  161 (589)
                      +-..|+...|..++....+.                              . +.+...|-+.+..-.. ..++.|+.+|.
T Consensus       594 ~w~agdv~~ar~il~~af~~------------------------------~-pnseeiwlaavKle~en~e~eraR~lla  642 (913)
T KOG0495|consen  594 KWKAGDVPAARVILDQAFEA------------------------------N-PNSEEIWLAAVKLEFENDELERARDLLA  642 (913)
T ss_pred             HHhcCCcHHHHHHHHHHHHh------------------------------C-CCcHHHHHHHHHHhhccccHHHHHHHHH
Confidence            66667777776666655443                              1 2355667777777788 88999999998


Q ss_pred             hCCC--CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhCcCcHHHHHHH
Q 043490          162 NMEF--RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDW-CTFSIVLKACAGLVTERHASAV  238 (589)
Q Consensus       162 ~m~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~~~~~~a~~i  238 (589)
                      +...  ++...|.--+..-             --.+..++|++++++..+.  -|+- ..|..+...+-+.++++.|+..
T Consensus       643 kar~~sgTeRv~mKs~~~e-------------r~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~a  707 (913)
T KOG0495|consen  643 KARSISGTERVWMKSANLE-------------RYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREA  707 (913)
T ss_pred             HHhccCCcchhhHHHhHHH-------------HHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHH
Confidence            7653  5556665544444             5567888999998887763  4554 4566667777888899999988


Q ss_pred             HHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC--CCCCC
Q 043490          239 HSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM--NVQPD  313 (589)
Q Consensus       239 ~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~  313 (589)
                      |..-.+. .|..+..|-.|...=-+.|.+-.|+.+|++..   ..|...|-..|..-.+.|..+.|..+..+.  ..+.+
T Consensus       708 Y~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~s  786 (913)
T KOG0495|consen  708 YLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQECPSS  786 (913)
T ss_pred             HHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcc
Confidence            8766554 36667788889888899999999999999876   346789999999999999999999988887  44445


Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHH
Q 043490          314 SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGS  391 (589)
Q Consensus       314 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~  391 (589)
                      ...|..-|....+.++-......+    +  ...-|..+.-.+..+|-...++++|.+.|.+. ...|| ..+|.-+...
T Consensus       787 g~LWaEaI~le~~~~rkTks~DAL----k--kce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykf  860 (913)
T KOG0495|consen  787 GLLWAEAIWLEPRPQRKTKSIDAL----K--KCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKF  860 (913)
T ss_pred             chhHHHHHHhccCcccchHHHHHH----H--hccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHH
Confidence            567777776666666544443333    2  22457777788888899999999999999988 66776 7899999999


Q ss_pred             HHHcCCHHHHHHHHHHHhhcCCCChhHHHHH
Q 043490          392 CRKHGETRLAELAATKLKQLEPGDSLGFVQM  422 (589)
Q Consensus       392 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  422 (589)
                      +.++|.-+.-.+++.+....+|.....|...
T Consensus       861 el~hG~eed~kev~~~c~~~EP~hG~~W~av  891 (913)
T KOG0495|consen  861 ELRHGTEEDQKEVLKKCETAEPTHGELWQAV  891 (913)
T ss_pred             HHHhCCHHHHHHHHHHHhccCCCCCcHHHHH
Confidence            9999999999999999999999765555544

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.36  E-value=1.9e-10  Score=108.10  Aligned_cols=197  Identities=14%  Similarity=0.135  Sum_probs=164.5

Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHH
Q 043490          248 EDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLS  322 (589)
Q Consensus       248 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~  322 (589)
                      ......+..+...|...|++++|...|++..   ..+...+..+...|...|++++|.+.|++. ...| +...+..+..
T Consensus        28 ~~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  107 (234)
T TIGR02521        28 NKAAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGT  107 (234)
T ss_pred             CcHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHH
Confidence            3446677888999999999999999999876   335678888899999999999999999998 5555 4567778888


Q ss_pred             HHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHH
Q 043490          323 ACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRL  400 (589)
Q Consensus       323 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~  400 (589)
                      .+...|++++|.+.++..............+..+...+.+.|++++|.+.+++. ...|+ ...+..+...+...|++++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHH
Confidence            899999999999999998653222224456777888999999999999999988 44454 6788889999999999999


Q ss_pred             HHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          401 AELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       401 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      |...+++..+..|.++..+..++..+...|+.++|..+.+.+..
T Consensus       188 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       188 ARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            99999999998888888888999999999999999999887754

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.

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

Probab=99.34  E-value=7.3e-10  Score=105.64  Aligned_cols=389  Identities=16%  Similarity=0.131  Sum_probs=258.4

Q ss_pred             HHHccCCHHHHHHHHHHHHHhCCCCCCCh--hHHHHHHHHHHhcCChHHHHHHHhcCCC--CCcchHHHHHHHHHhCCCh
Q 043490           14 ACALHGNIKQAMQLHEHMINNFPNEPQDL--FVTNHLINMYAKFGYLDDARHLFDEMPK--RNVVSWTALISGYAQHGNA   89 (589)
Q Consensus        14 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~A~~~f~~m~~--~~~~~~~~li~~~~~~g~~   89 (589)
                      .+.+.+.+.+|...++-.+...|.+..+.  ...+.+.-.+.+.|++++|+.-|+...+  ||..+--.|+-.+.--|+.
T Consensus       246 i~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvtfiq~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~  325 (840)
T KOG2003|consen  246 IHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVTFIQAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDA  325 (840)
T ss_pred             eeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCeeEEecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcH
Confidence            34566788899999988777654333332  3455566667889999999999997653  7766544444455556888


Q ss_pred             hHHHHHHHHHHhc-cCCCceeH--------HHHHHH-hchhhHHHH-------HHHHH--HhcCCCchhH--------H-
Q 043490           90 EECFRLFCSLLQY-FFPNEFSL--------ASVLIS-CDYLHGKLV-------HALAL--KFSLDAHVYV--------A-  141 (589)
Q Consensus        90 ~~A~~~~~~m~~~-~~p~~~t~--------~~~l~a-~~~~~~~~~-------~~~~~--~~g~~~~~~~--------~-  141 (589)
                      ++..+.|..|..- ..||...|        ..++.. ...+.-+..       .+..+  ...+-..+..        | 
T Consensus       326 ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwc  405 (840)
T KOG2003|consen  326 EKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWC  405 (840)
T ss_pred             HHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHH
Confidence            8999999998875 44444322        112211 111111100       00000  0111111110        0 


Q ss_pred             ---------HHH--------HHHHhc-CCHHHHHHHHhhCCCCChhHHHH----HH-HHHHc-CCcHHHHHHHH------
Q 043490          142 ---------NAL--------INMYSK-SCADEAWKVFENMEFRNVISWNS----MI-AAFRA-CKLEAQAIELF------  191 (589)
Q Consensus       142 ---------~~l--------i~~y~~-g~~~~A~~lf~~m~~~~~~~~~~----li-~~~~~-~g~~~~a~~~~------  191 (589)
                               .-|        ..-|.+ |+++.|.+++.-...+|..+-.+    |- --|.+ ..++..|.+.-      
T Consensus       406 le~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~  485 (840)
T KOG2003|consen  406 LESLKASQHAELAIDLEINKAGELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNI  485 (840)
T ss_pred             HHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcc
Confidence                     000        012467 88888888877776554333221    11 11222 23344444331      


Q ss_pred             ---------------HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHH
Q 043490          192 ---------------AKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANA  256 (589)
Q Consensus       192 ---------------~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~  256 (589)
                                     ..+|++++|.+.|++.....-.-....|++-+ .+-..|++++|...|-.+... +..+..+...
T Consensus       486 dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~ealfnigl-t~e~~~~ldeald~f~klh~i-l~nn~evl~q  563 (840)
T KOG2003|consen  486 DRYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASCTEALFNIGL-TAEALGNLDEALDCFLKLHAI-LLNNAEVLVQ  563 (840)
T ss_pred             cccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHHHHHHHHhcc-cHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHH
Confidence                           45699999999999998754333344454443 346789999999887665433 2446777788


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHH
Q 043490          257 LIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQ  331 (589)
Q Consensus       257 li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~  331 (589)
                      +.+.|-...+...|.+++-+..   ..|+...+-|...|-+.|+-.+|.+.+-+- ..-| |..|...|..-|....-++
T Consensus       564 ianiye~led~aqaie~~~q~~slip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~e  643 (840)
T KOG2003|consen  564 IANIYELLEDPAQAIELLMQANSLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSE  643 (840)
T ss_pred             HHHHHHHhhCHHHHHHHHHHhcccCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHH
Confidence            8899999999999999998765   568889999999999999999999988777 4444 6778888888888888999


Q ss_pred             HHHHHHHHhHHhcCCccCcchHHHHHHHH-hhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 043490          332 EGNKVFHSMLENHGVVPQLDHYACMVDLL-GRVGRILEAEKLIREM--PMEPDSVIWSVLLGSCRKHGETRLAELAATKL  408 (589)
Q Consensus       332 ~a~~~~~~~~~~~~~~p~~~~~~~li~~~-~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  408 (589)
                      ++..+|+...   -+.|+..-|..||..+ .|.|++.+|+++++..  .+..|......|++.|...|- .++.+..+++
T Consensus       644 kai~y~ekaa---liqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl-~d~key~~kl  719 (840)
T KOG2003|consen  644 KAINYFEKAA---LIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL-KDAKEYADKL  719 (840)
T ss_pred             HHHHHHHHHH---hcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc-hhHHHHHHHH
Confidence            9999998764   6789999999888655 5689999999999998  555578888889988887763 3444444444

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

Probab=99.33  E-value=3.6e-11  Score=123.39  Aligned_cols=263  Identities=14%  Similarity=0.147  Sum_probs=192.5

Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCC
Q 043490          202 FLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHD  281 (589)
Q Consensus       202 ~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  281 (589)
                      .++..+...|+.|+.+||.+++.-||..|+.+.|- +|..|.-...+.+..+++.++.+....++.+.+.       +|.
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~   82 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPL   82 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCc
Confidence            46678889999999999999999999999999999 9999999999999999999999999999987765       788


Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHh
Q 043490          282 LVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLG  361 (589)
Q Consensus       282 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~  361 (589)
                      ..+|..+..+|.++|+..- ++..++        -...+...++..|.-..-..++..+.-..+.-||.   ...+....
T Consensus        83 aDtyt~Ll~ayr~hGDli~-fe~veq--------dLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda---~n~illlv  150 (1088)
T KOG4318|consen   83 ADTYTNLLKAYRIHGDLIL-FEVVEQ--------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDA---ENAILLLV  150 (1088)
T ss_pred             hhHHHHHHHHHHhccchHH-HHHHHH--------HHHHHHhhhhhhccCcHHHHHHhhcccCcccchhH---HHHHHHHH
Confidence            8999999999999999765 322222        22333444555555555555554432222334443   34566677


Q ss_pred             hcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC-HHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHH
Q 043490          362 RVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGE-TRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRK  440 (589)
Q Consensus       362 ~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~-~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  440 (589)
                      -.|.++.+++++..+|...-......+++-+..... +++-..+.+...+ .| ++.+|..+...-..+|+.+.|..++.
T Consensus       151 ~eglwaqllkll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e-~~-~s~~l~a~l~~alaag~~d~Ak~ll~  228 (1088)
T KOG4318|consen  151 LEGLWAQLLKLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVE-AP-TSETLHAVLKRALAAGDVDGAKNLLY  228 (1088)
T ss_pred             HHHHHHHHHHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhc-CC-ChHHHHHHHHHHHhcCchhhHHHHHH
Confidence            788899999999888643322222223555544443 3333344444444 44 78999999999999999999999999


Q ss_pred             HHhcCCCccCCceeeEEECCEEEEEeeCCCCCccHHHHHHHHHHHHHHHHhCCcccCCCcc
Q 043490          441 EMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLKGMGYVPETSLA  501 (589)
Q Consensus       441 ~m~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~m~~~g~~pd~~~~  501 (589)
                      +|+++|++..+.+.|..+        .|....       ..++.+.+.|++.|+.|+.++.
T Consensus       229 emke~gfpir~HyFwpLl--------~g~~~~-------q~~e~vlrgmqe~gv~p~seT~  274 (1088)
T KOG4318|consen  229 EMKEKGFPIRAHYFWPLL--------LGINAA-------QVFEFVLRGMQEKGVQPGSETQ  274 (1088)
T ss_pred             HHHHcCCCcccccchhhh--------hcCccc-------hHHHHHHHHHHHhcCCCCcchh
Confidence            999999999999999764        332221       2345788999999999996554

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

Probab=99.30  E-value=1.4e-08  Score=96.22  Aligned_cols=280  Identities=15%  Similarity=0.104  Sum_probs=216.3

Q ss_pred             HHHHHHhc---CCHHHHHHHHhhCCCC---ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH
Q 043490          143 ALINMYSK---SCADEAWKVFENMEFR---NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDW  216 (589)
Q Consensus       143 ~li~~y~~---g~~~~A~~lf~~m~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~  216 (589)
                      .+..+..+   |++..|+++..+-.+.   .+..|..-..+-             .+.|+.+.+-.++.+.-+.--.++.
T Consensus        87 ~~~egl~~l~eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA-------------~qrgd~~~an~yL~eaae~~~~~~l  153 (400)
T COG3071          87 ALNEGLLKLFEGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAA-------------QQRGDEDRANRYLAEAAELAGDDTL  153 (400)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhhhcCcchHHHHHHHHHHH-------------HhcccHHHHHHHHHHHhccCCCchH
Confidence            34444444   9999999999875432   233344444455             7889999999999998875335556


Q ss_pred             HHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCh-----------hHH
Q 043490          217 CTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDL-----------VSW  285 (589)
Q Consensus       217 ~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-----------~~~  285 (589)
                      ..+.+........|+.+.|..-...+.+.+ +....+.......|.+.|++.....++..+.+...           .+|
T Consensus       154 ~v~ltrarlll~~~d~~aA~~~v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~  232 (400)
T COG3071         154 AVELTRARLLLNRRDYPAARENVDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAW  232 (400)
T ss_pred             HHHHHHHHHHHhCCCchhHHHHHHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHH
Confidence            666677777889999999999999998887 77788899999999999999999999999985322           478


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhc
Q 043490          286 NSILKAYALHGQAKEALQLFSNM--NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRV  363 (589)
Q Consensus       286 ~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~  363 (589)
                      +.++.-....+..+.-...+++.  ..+-++..-.+++.-+...|+.++|.++..+..++ +..|+   . +..-...+-
T Consensus       233 ~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~-~~D~~---L-~~~~~~l~~  307 (400)
T COG3071         233 EGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKR-QWDPR---L-CRLIPRLRP  307 (400)
T ss_pred             HHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHh-ccChh---H-HHHHhhcCC
Confidence            88888777777777777788887  66666777777888888999999999999888765 55555   1 111223345


Q ss_pred             CCHHHHHHHHHhC----CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHH
Q 043490          364 GRILEAEKLIREM----PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIR  439 (589)
Q Consensus       364 g~~~~A~~~~~~m----~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  439 (589)
                      ++.+.-++..++.    |..  +..+.+|...|.+++.+.+|...|+..++..| +...|..+..+|.+.|+..+|.+++
T Consensus       308 ~d~~~l~k~~e~~l~~h~~~--p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~-s~~~~~~la~~~~~~g~~~~A~~~r  384 (400)
T COG3071         308 GDPEPLIKAAEKWLKQHPED--PLLLSTLGRLALKNKLWGKASEALEAALKLRP-SASDYAELADALDQLGEPEEAEQVR  384 (400)
T ss_pred             CCchHHHHHHHHHHHhCCCC--hhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCC-ChhhHHHHHHHHHHcCChHHHHHHH
Confidence            5555544444443    444  47888999999999999999999999999998 7789999999999999999999999


Q ss_pred             HHHhc
Q 043490          440 KEMKG  444 (589)
Q Consensus       440 ~~m~~  444 (589)
                      ++-..
T Consensus       385 ~e~L~  389 (400)
T COG3071         385 REALL  389 (400)
T ss_pred             HHHHH
Confidence            87663

>PF13041 PPR_2: PPR repeat family

Probab=99.28  E-value=1.3e-11  Score=84.31  Aligned_cols=50  Identities=30%  Similarity=0.651  Sum_probs=46.6

Q ss_pred             CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhC
Q 043490          166 RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAG  228 (589)
Q Consensus       166 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  228 (589)
                      ||+++||++|.+|             .+.|++++|.++|++|.+.|++||..||+++|++|++
T Consensus         1 P~~~~yn~li~~~-------------~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGY-------------CKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHH-------------HHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            7899999999999             9999999999999999999999999999999999875

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.24  E-value=1.6e-09  Score=109.65  Aligned_cols=228  Identities=15%  Similarity=0.168  Sum_probs=177.6

Q ss_pred             HHHHHHHHHHHhCcCcHHHHHHHHHHHHHh-----C-CCCcH-HHHHHHHHHHHhcCCHHHHHHHHhhcC--------C-
Q 043490          216 WCTFSIVLKACAGLVTERHASAVHSLIAKY-----G-FEDDT-VIANALIHAYARCGSISLSKQVFDKMT--------Y-  279 (589)
Q Consensus       216 ~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~-----g-~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~--------~-  279 (589)
                      ..|...+...|...|+++.|..+++..++.     | ..|.+ ...+.+...|...+++++|..+|+++.        + 
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~  278 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence            357777889999999999999999988776     2 12333 334458889999999999999998875        1 


Q ss_pred             -C-ChhHHHHHHHHHHHcCCHHHHHHHHHhC--------CCC-CCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhcC--
Q 043490          280 -H-DLVSWNSILKAYALHGQAKEALQLFSNM--------NVQ-PDSA-TFVSLLSACSHAGLVQEGNKVFHSMLENHG--  345 (589)
Q Consensus       280 -~-~~~~~~~li~~~~~~g~~~~A~~~~~~m--------~~~-p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~--  345 (589)
                       | -..+++.|...|.+.|++++|...+++.        +.. |... -++.+...|...+.+++|..+++...+.+.  
T Consensus       279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~  358 (508)
T KOG1840|consen  279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDA  358 (508)
T ss_pred             CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhh
Confidence             1 2357888889999999999988888777        222 2332 466777788999999999999987765443  


Q ss_pred             CccC----cchHHHHHHHHhhcCCHHHHHHHHHhC---------CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhh-
Q 043490          346 VVPQ----LDHYACMVDLLGRVGRILEAEKLIREM---------PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQ-  410 (589)
Q Consensus       346 ~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m---------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-  410 (589)
                      ..++    ..+++.|...|...|++++|+++++++         +..+. ...++-|..+|.+.++++.|.++|.+... 
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i  438 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDI  438 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHH
Confidence            2222    347999999999999999999999887         11222 55677889999999999999999988654 


Q ss_pred             ---cCC---CChhHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          411 ---LEP---GDSLGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       411 ---~~p---~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                         .+|   +...+|..|+..|.+.|++++|.++.+...
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence               344   445678899999999999999999998775

>PRK12370 invasion protein regulator; Provisional

Probab=99.23  E-value=3.3e-09  Score=112.58  Aligned_cols=245  Identities=13%  Similarity=0.054  Sum_probs=181.0

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHh---------CcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhc
Q 043490          195 KNEEEALFLFRQLQREGMAPDW-CTFSIVLKACA---------GLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARC  264 (589)
Q Consensus       195 g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~---------~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~  264 (589)
                      +..++|+.+|++..+.  .|+. ..|..+..++.         ..++.++|...++.+++.. +.+...+..+...+...
T Consensus       275 ~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~  351 (553)
T PRK12370        275 YSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIH  351 (553)
T ss_pred             HHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHc
Confidence            3467899999998874  4544 34444433332         3355899999999999886 66788899999999999


Q ss_pred             CCHHHHHHHHhhcC--CC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHH-HHHHHHHHHhccCcHHHHHHHHHH
Q 043490          265 GSISLSKQVFDKMT--YH-DLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDSA-TFVSLLSACSHAGLVQEGNKVFHS  339 (589)
Q Consensus       265 g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~  339 (589)
                      |++++|...|++..  .| +...|..+...+...|++++|+..+++. .+.|+.. .+..++..+...|++++|...+++
T Consensus       352 g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~  431 (553)
T PRK12370        352 SEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRAAAGITKLWITYYHTGIDDAIRLGDE  431 (553)
T ss_pred             cCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHhccCHHHHHHHHHH
Confidence            99999999999976  33 4568888999999999999999999999 8888753 333445556678999999999988


Q ss_pred             hHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCh
Q 043490          340 MLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDS  416 (589)
Q Consensus       340 ~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  416 (589)
                      ..+..  .| +...+..+...|...|++++|...++++ +..|+ ...++.+...+...|  +.|...++.+.+..-..+
T Consensus       432 ~l~~~--~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~  507 (553)
T PRK12370        432 LRSQH--LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRID  507 (553)
T ss_pred             HHHhc--cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhh
Confidence            76431  34 3445677888899999999999999988 44555 444555666667777  477777777766332122


Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHHHHhcCCC
Q 043490          417 LGFVQMSNIYCLSGSFNKARLIRKEMKGSRV  447 (589)
Q Consensus       417 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  447 (589)
                      ..+..+...|+-.|+-+.+..+ +++.+.|-
T Consensus       508 ~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~  537 (553)
T PRK12370        508 NNPGLLPLVLVAHGEAIAEKMW-NKFKNEDN  537 (553)
T ss_pred             cCchHHHHHHHHHhhhHHHHHH-HHhhccch
Confidence            2223367778888888888777 77776553

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

Probab=99.22  E-value=2.1e-08  Score=92.25  Aligned_cols=213  Identities=14%  Similarity=0.174  Sum_probs=127.0

Q ss_pred             cCChHHHHHHHhcCCCCCcchHH---HHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHH
Q 043490           55 FGYLDDARHLFDEMPKRNVVSWT---ALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALK  131 (589)
Q Consensus        55 ~g~~~~A~~~f~~m~~~~~~~~~---~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~  131 (589)
                      ..+.++|.++|-+|.+-|..++.   +|-+.|-+.|..+.|+++-..+.++  || .|+.--                  
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s--pd-lT~~qr------------------  106 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES--PD-LTFEQR------------------  106 (389)
T ss_pred             hcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC--CC-CchHHH------------------
Confidence            46889999999999876666554   5777888899999999988877764  22 222111                  


Q ss_pred             hcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCCCChh---HHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHH
Q 043490          132 FSLDAHVYVANALINMYSK-SCADEAWKVFENMEFRNVI---SWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQL  207 (589)
Q Consensus       132 ~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~~~~~---~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m  207 (589)
                            ....-.|..-|.. |-+|.|+.+|..+.+....   .-..|+..|             .+..+|++|++.-+++
T Consensus       107 ------~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~efa~~AlqqLl~IY-------------Q~treW~KAId~A~~L  167 (389)
T COG2956         107 ------LLALQQLGRDYMAAGLLDRAEDIFNQLVDEGEFAEGALQQLLNIY-------------QATREWEKAIDVAERL  167 (389)
T ss_pred             ------HHHHHHHHHHHHHhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHH-------------HHhhHHHHHHHHHHHH
Confidence                  1122334455666 7778888887776653322   334455556             7777777777777777


Q ss_pred             HHcCCCCCHH----HHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChh
Q 043490          208 QREGMAPDWC----TFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLV  283 (589)
Q Consensus       208 ~~~g~~p~~~----t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  283 (589)
                      ...+-++..+    .|.-+........+++.|..++....+.+ +..+.+--.+.+.+...|+++.|.+.++.+.+.|..
T Consensus       168 ~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~  246 (389)
T COG2956         168 VKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPE  246 (389)
T ss_pred             HHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChH
Confidence            6655444332    34444444445556666666666665554 333444444555566666666666666665544432


Q ss_pred             ----HHHHHHHHHHHcCCHHHHHHHHHhC
Q 043490          284 ----SWNSILKAYALHGQAKEALQLFSNM  308 (589)
Q Consensus       284 ----~~~~li~~~~~~g~~~~A~~~~~~m  308 (589)
                          ....|..+|.+.|+.++.+..+.++
T Consensus       247 yl~evl~~L~~~Y~~lg~~~~~~~fL~~~  275 (389)
T COG2956         247 YLSEVLEMLYECYAQLGKPAEGLNFLRRA  275 (389)
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence                3344445555555555555555554

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

Probab=99.18  E-value=7.2e-07  Score=84.87  Aligned_cols=408  Identities=12%  Similarity=0.036  Sum_probs=227.5

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHh-C---C-------------CCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcc
Q 043490           12 FHACALHGNIKQAMQLHEHMINN-F---P-------------NEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVV   74 (589)
Q Consensus        12 l~~~~~~g~~~~a~~~~~~~~~~-~---~-------------~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~   74 (589)
                      ++..-..+.+..+++-|..+.+. .   .             ..+.+...-...+..|...++-+.|.....+.+..-..
T Consensus        50 ~~~~~h~r~yr~a~~~~~~~~~~~~s~~r~s~~~~~s~~~S~~~~~~~e~~r~~aecy~~~~n~~~Ai~~l~~~p~t~r~  129 (564)
T KOG1174|consen   50 LNANYKERNYRAALRHFDEIIHKRRLMMRHKNAVLVAIESSYPEFGDAEQRRRAAECYRQIGNTDMAIETLLQVPPTLRS  129 (564)
T ss_pred             HhhhHHHHHHHHHHHHHHHHHHhhHhhccccccccccccccCCCcccHHHHHHHHHHHHHHccchHHHHHHhcCCccccc
Confidence            34444445566677666655543 0   0             00123344456778888889999999999888864433


Q ss_pred             hHHHHHHHHH-hCC-ChhHHHHHHHHHHhccCCCceeHHHHHHHhc--hhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc
Q 043490           75 SWTALISGYA-QHG-NAEECFRLFCSLLQYFFPNEFSLASVLISCD--YLHGKLVHALALKFSLDAHVYVANALINMYSK  150 (589)
Q Consensus        75 ~~~~li~~~~-~~g-~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~--~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~  150 (589)
                      --+.|+.+.. +.| +-.++.--+...... .|  .....+.....  .....+---.+-+...++.......-+.+|+.
T Consensus       130 p~inlMla~l~~~g~r~~~~vl~ykevvre-cp--~aL~~i~~ll~l~v~g~e~~S~~m~~~~~~~~~dwls~wika~Aq  206 (564)
T KOG1174|consen  130 PRINLMLARLQHHGSRHKEAVLAYKEVIRE-CP--MALQVIEALLELGVNGNEINSLVMHAATVPDHFDWLSKWIKALAQ  206 (564)
T ss_pred             hhHHHHHHHHHhccccccHHHHhhhHHHHh-cc--hHHHHHHHHHHHhhcchhhhhhhhhheecCCCccHHHHHHHHHHH
Confidence            3444444333 332 222222222222221 00  00000000000  00011111111122223333333333344433


Q ss_pred             ---CCHHHHHHHHhhCC-----CCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHH----
Q 043490          151 ---SCADEAWKVFENME-----FRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCT----  218 (589)
Q Consensus       151 ---g~~~~A~~lf~~m~-----~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t----  218 (589)
                         ++...|...|-...     .-|+.....+...+             ...|+.++|...|++.+..  .|+..+    
T Consensus       207 ~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~-------------~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~  271 (564)
T KOG1174|consen  207 MFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCL-------------YYNGDYFQAEDIFSSTLCA--NPDNVEAMDL  271 (564)
T ss_pred             HHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhh-------------hhhcCchHHHHHHHHHhhC--ChhhhhhHHH
Confidence               44444433332222     23566666777777             7778888888888777653  343322    


Q ss_pred             HHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHc
Q 043490          219 FSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY---HDLVSWNSILKAYALH  295 (589)
Q Consensus       219 ~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~  295 (589)
                      |..+   +.+.|+.+....+...+.... .-...-|-.-........+++.|+.+-++..+   +++..+-.-...+.+.
T Consensus       272 Ya~L---L~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~  347 (564)
T KOG1174|consen  272 YAVL---LGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIAL  347 (564)
T ss_pred             HHHH---HHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhc
Confidence            2222   245667776666666554432 11111122222233445677777777776663   3444444444667778


Q ss_pred             CCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHH-HHHh-hcCCHHHHHH
Q 043490          296 GQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMV-DLLG-RVGRILEAEK  371 (589)
Q Consensus       296 g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li-~~~~-~~g~~~~A~~  371 (589)
                      |+.++|.-.|+.. .+.| +-.+|..|+.+|...|...+|.-.-+...+..  .-+..+.+.+. ..+. ....-++|.+
T Consensus       348 ~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~--~~sA~~LtL~g~~V~~~dp~~rEKAKk  425 (564)
T KOG1174|consen  348 ERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRLF--QNSARSLTLFGTLVLFPDPRMREKAKK  425 (564)
T ss_pred             cchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHh--hcchhhhhhhcceeeccCchhHHHHHH
Confidence            8888888888888 7776 45688888888888888888876665554322  22333333321 1221 1223467888


Q ss_pred             HHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          372 LIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       372 ~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      ++++. .++|+ ....+.+...|...|..+.++.++++.+...| |....+.|.+.+.....+++|...|.....
T Consensus       426 f~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~-D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr  499 (564)
T KOG1174|consen  426 FAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFP-DVNLHNHLGDIMRAQNEPQKAMEYYYKALR  499 (564)
T ss_pred             HHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhcc-ccHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            88776 77787 66777778888888888888888888888877 557788888888888888888888876654

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

Probab=99.18  E-value=4.7e-08  Score=89.97  Aligned_cols=294  Identities=13%  Similarity=0.125  Sum_probs=203.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCCCCChhHHH---HHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH-
Q 043490          141 ANALINMYSKSCADEAWKVFENMEFRNVISWN---SMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDW-  216 (589)
Q Consensus       141 ~~~li~~y~~g~~~~A~~lf~~m~~~~~~~~~---~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~-  216 (589)
                      |-.=++.+...+.++|.++|-+|.+-|..|+.   +|.+-|             .+.|..++|+++-+.+...   ||. 
T Consensus        39 Yv~GlNfLLs~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLf-------------RsRGEvDRAIRiHQ~L~~s---pdlT  102 (389)
T COG2956          39 YVKGLNFLLSNQPDKAVDLFLEMLQEDPETFEAHLTLGNLF-------------RSRGEVDRAIRIHQTLLES---PDLT  102 (389)
T ss_pred             HHhHHHHHhhcCcchHHHHHHHHHhcCchhhHHHHHHHHHH-------------HhcchHHHHHHHHHHHhcC---CCCc
Confidence            33344555557788999999998876665554   455666             7788888888888777653   332 


Q ss_pred             -----HHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChh--------
Q 043490          217 -----CTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLV--------  283 (589)
Q Consensus       217 -----~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--------  283 (589)
                           ...-.+..-|...|-+|.|+.+|..+.+.+ ..-.....-|+..|-...++++|.++-+++.+-+..        
T Consensus       103 ~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAq  181 (389)
T COG2956         103 FEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQ  181 (389)
T ss_pred             hHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHH
Confidence                 233445556677888888999988887755 333455667888888888998888887766533222        


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHH-HHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHh
Q 043490          284 SWNSILKAYALHGQAKEALQLFSNM-NVQPDSAT-FVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLG  361 (589)
Q Consensus       284 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t-~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~  361 (589)
                      -|.-+...+....+.+.|..++.+. ...|+.+- -..+.+.....|+++.|.+.++.+.+. +..--..+...|..+|.
T Consensus       182 fyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQ-n~~yl~evl~~L~~~Y~  260 (389)
T COG2956         182 FYCELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQ-NPEYLSEVLEMLYECYA  260 (389)
T ss_pred             HHHHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHh-ChHHHHHHHHHHHHHHH
Confidence            3444555566678888899998888 66676553 334556777889999999999887543 32333457778888999


Q ss_pred             hcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhh---hcCChHHHHH
Q 043490          362 RVGRILEAEKLIREM-PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYC---LSGSFNKARL  437 (589)
Q Consensus       362 ~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~---~~g~~~~a~~  437 (589)
                      ..|+.++...++.++ ...+....-..+-..-....-.+.|...+.+-+...| +...+..|+..-.   ..|++.+...
T Consensus       261 ~lg~~~~~~~fL~~~~~~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~P-t~~gf~rl~~~~l~daeeg~~k~sL~  339 (389)
T COG2956         261 QLGKPAEGLNFLRRAMETNTGADAELMLADLIELQEGIDAAQAYLTRQLRRKP-TMRGFHRLMDYHLADAEEGRAKESLD  339 (389)
T ss_pred             HhCCHHHHHHHHHHHHHccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCC-cHHHHHHHHHhhhccccccchhhhHH
Confidence            999999999888877 4445555555555555555556777777777777777 5666677776653   4467888888


Q ss_pred             HHHHHhcCCCccCCce
Q 043490          438 IRKEMKGSRVRKYPGL  453 (589)
Q Consensus       438 ~~~~m~~~~~~~~~~~  453 (589)
                      .+..|....++..|.+
T Consensus       340 ~lr~mvge~l~~~~~Y  355 (389)
T COG2956         340 LLRDMVGEQLRRKPRY  355 (389)
T ss_pred             HHHHHHHHHHhhcCCc
Confidence            9999987767666643

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

Probab=99.17  E-value=1.3e-07  Score=91.77  Aligned_cols=382  Identities=12%  Similarity=0.030  Sum_probs=249.8

Q ss_pred             CCC-hhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHHHH
Q 043490            2 LHS-TQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALI   80 (589)
Q Consensus         2 ~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li   80 (589)
                      .|| +.-|....-+|...|++++..+--...++..|   .-+-++..-..++-..|++++|+.=         +|-.+++
T Consensus       145 ~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~P---~Y~KAl~RRA~A~E~lg~~~eal~D---------~tv~ci~  212 (606)
T KOG0547|consen  145 CPDEPIFYSNRAACYESLGDWEKVIEDCTKALELNP---DYVKALLRRASAHEQLGKFDEALFD---------VTVLCIL  212 (606)
T ss_pred             CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcCc---HHHHHHHHHHHHHHhhccHHHHHHh---------hhHHHHh
Confidence            577 77788888899999999988887777776544   4456677777788888888887631         2333344


Q ss_pred             HHHHhCCChhHHHHHHH--------H-HHhc---cCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHH
Q 043490           81 SGYAQHGNAEECFRLFC--------S-LLQY---FFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMY  148 (589)
Q Consensus        81 ~~~~~~g~~~~A~~~~~--------~-m~~~---~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y  148 (589)
                      .++-.+.-.--+.++++        + |..+   +.|......+.+..+.   +...... ...+-..|...-+.+-..|
T Consensus       213 ~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~---~~~~~~~-~~~~~ksDa~l~~~l~~l~  288 (606)
T KOG0547|consen  213 EGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFH---ADPKPLF-DNKSDKSDAALAEALEALE  288 (606)
T ss_pred             hhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhcc---ccccccc-cCCCccchhhHHHHHHHHH
Confidence            43333322222223322        2 2211   4455444444444332   0000000 0001122233333333333


Q ss_pred             hc--CCHHHHHHHHhhCC-------CC---ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH
Q 043490          149 SK--SCADEAWKVFENME-------FR---NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDW  216 (589)
Q Consensus       149 ~~--g~~~~A~~lf~~m~-------~~---~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~  216 (589)
                      ..  ..+..|...+.+-.       ..   |... ..|..++.-.|-+      +.-.|+...|...|+..+.....++.
T Consensus       289 ~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~l-e~~A~al~~~gtF------~fL~g~~~~a~~d~~~~I~l~~~~~~  361 (606)
T KOG0547|consen  289 KGLEEGYLKAYDKATEECLGSESSLSVNEIDAEL-EYMAEALLLRGTF------HFLKGDSLGAQEDFDAAIKLDPAFNS  361 (606)
T ss_pred             hhCchhHHHHHHHHHHHhhhhhhhccccccchhH-HHHHHHHHHhhhh------hhhcCCchhhhhhHHHHHhcCcccch
Confidence            33  34444444443221       11   1111 2222222222222      15668889999999998886543333


Q ss_pred             HHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCC---ChhHHHHHHHHHH
Q 043490          217 CTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYH---DLVSWNSILKAYA  293 (589)
Q Consensus       217 ~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~  293 (589)
                       .|.-+..+|....+.++....|....+.+ +.++.+|.--..++.-.+++++|..=|++...-   ++.+|-.+..+.-
T Consensus       362 -lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe~~~~~iQl~~a~Y  439 (606)
T KOG0547|consen  362 -LYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPENAYAYIQLCCALY  439 (606)
T ss_pred             -HHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChhhhHHHHHHHHHHH
Confidence             27777788899999999999999999887 677888888899999999999999999998743   5567777777777


Q ss_pred             HcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCc---------chHHHHHHHHhh
Q 043490          294 LHGQAKEALQLFSNM--NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQL---------DHYACMVDLLGR  362 (589)
Q Consensus       294 ~~g~~~~A~~~~~~m--~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~---------~~~~~li~~~~~  362 (589)
                      +.+++++++..|++.  ..+--+..|+.....+...++++.|.+.|+..++   +.|+.         .+.-+++-.- -
T Consensus       440 r~~k~~~~m~~Fee~kkkFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~---LE~~~~~~~v~~~plV~Ka~l~~q-w  515 (606)
T KOG0547|consen  440 RQHKIAESMKTFEEAKKKFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE---LEPREHLIIVNAAPLVHKALLVLQ-W  515 (606)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh---hccccccccccchhhhhhhHhhhc-h
Confidence            889999999999999  4444566888889999999999999999998753   34441         1112222222 3


Q ss_pred             cCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Q 043490          363 VGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLE  412 (589)
Q Consensus       363 ~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  412 (589)
                      .+++..|..++++. .+.|- ...|.+|...-.+.|+.++|+++|++...+-
T Consensus       516 k~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~lA  567 (606)
T KOG0547|consen  516 KEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQLA  567 (606)
T ss_pred             hhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            48999999999998 66675 7789999999999999999999999987654

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.16  E-value=2e-08  Score=101.92  Aligned_cols=237  Identities=16%  Similarity=0.154  Sum_probs=143.9

Q ss_pred             cCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCC----------CChhH-HHHHHHHHHcCCcHHHHHHHHHHcCCHHHH
Q 043490          133 SLDAHVYVANALINMYSK-SCADEAWKVFENMEF----------RNVIS-WNSMIAAFRACKLEAQAIELFAKMKNEEEA  200 (589)
Q Consensus       133 g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~----------~~~~~-~~~li~~~~~~g~~~~a~~~~~~~g~~~~A  200 (589)
                      +.+.-..+...|..+|.. |+++.|..+|+...+          +.+.+ -+.+...|             ...+++++|
T Consensus       194 ~~P~~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y-------------~~~~k~~eA  260 (508)
T KOG1840|consen  194 EDPERLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVY-------------RSLGKYDEA  260 (508)
T ss_pred             CCchHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHH-------------HHhccHHHH
Confidence            334444566668888999 999999988876542          11111 12233344             566666666


Q ss_pred             HHHHHHHHHc-----C-CCC-CHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHH
Q 043490          201 LFLFRQLQRE-----G-MAP-DWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQV  273 (589)
Q Consensus       201 ~~~~~~m~~~-----g-~~p-~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~  273 (589)
                      ..+|+++...     | ..| -..+++.|-.+|.+.|++++|...++.+.+.                            
T Consensus       261 v~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I----------------------------  312 (508)
T KOG1840|consen  261 VNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEI----------------------------  312 (508)
T ss_pred             HHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHH----------------------------
Confidence            6666655431     1 011 1123333444444444444444444433221                            


Q ss_pred             HhhcC---CCCh-hHHHHHHHHHHHcCCHHHHHHHHHhC------CCCCC----HHHHHHHHHHHhccCcHHHHHHHHHH
Q 043490          274 FDKMT---YHDL-VSWNSILKAYALHGQAKEALQLFSNM------NVQPD----SATFVSLLSACSHAGLVQEGNKVFHS  339 (589)
Q Consensus       274 ~~~~~---~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m------~~~p~----~~t~~~ll~a~~~~g~~~~a~~~~~~  339 (589)
                      ++...   .+.+ ..++.++..+...+++++|..++++.      -..++    ..+++.|...+.+.|++++|.++|+.
T Consensus       313 ~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~  392 (508)
T KOG1840|consen  313 YEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKK  392 (508)
T ss_pred             HHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            11100   1122 13444555666667777777766665      12222    24778888888888888888888887


Q ss_pred             hHHhc----C-Ccc-CcchHHHHHHHHhhcCCHHHHHHHHHhC--------CCCCC-HHHHHHHHHHHHHcCCHHHHHHH
Q 043490          340 MLENH----G-VVP-QLDHYACMVDLLGRVGRILEAEKLIREM--------PMEPD-SVIWSVLLGSCRKHGETRLAELA  404 (589)
Q Consensus       340 ~~~~~----~-~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m--------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~  404 (589)
                      +++..    + ..+ ...+++.|...|.+.++..+|.++|.+.        +-.|+ ..+|..|...|...|+++.|+++
T Consensus       393 ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~  472 (508)
T KOG1840|consen  393 AIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEEL  472 (508)
T ss_pred             HHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHH
Confidence            76543    1 112 2346777888888888888888888765        34456 67899999999999999999999


Q ss_pred             HHHHhh
Q 043490          405 ATKLKQ  410 (589)
Q Consensus       405 ~~~~~~  410 (589)
                      .+.+..
T Consensus       473 ~~~~~~  478 (508)
T KOG1840|consen  473 EEKVLN  478 (508)
T ss_pred             HHHHHH
Confidence            998864

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.15  E-value=1.4e-08  Score=95.24  Aligned_cols=196  Identities=14%  Similarity=0.079  Sum_probs=152.2

Q ss_pred             CHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHH
Q 043490          215 DWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKA  291 (589)
Q Consensus       215 ~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~  291 (589)
                      ....+..+...+...|+++.|.+.+..+++.. +.+...+..+...|...|++++|.+.|++..   ..+...+..+...
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  108 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHH
Confidence            34566677778888899999999998887764 5567778888888999999999999988776   3455678888888


Q ss_pred             HHHcCCHHHHHHHHHhC-CC--CC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHH
Q 043490          292 YALHGQAKEALQLFSNM-NV--QP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRIL  367 (589)
Q Consensus       292 ~~~~g~~~~A~~~~~~m-~~--~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  367 (589)
                      +...|++++|.+.|++. ..  .| ....+..+...+...|++++|.+.+....+..  +.+...+..+...+...|+++
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~  186 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID--PQRPESLLELAELYYLRGQYK  186 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCChHHHHHHHHHHHHcCCHH
Confidence            89999999999999998 32  22 34466667778888999999999998876532  224557788888999999999


Q ss_pred             HHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCC
Q 043490          368 EAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEP  413 (589)
Q Consensus       368 ~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  413 (589)
                      +|...+++. ...| +...+..+...+...|+.+.|....+.+.+..|
T Consensus       187 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  234 (234)
T TIGR02521       187 DARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKLFP  234 (234)
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhCc
Confidence            999999887 3233 466777778888889999999998888766543

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.

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

Probab=99.14  E-value=4.6e-07  Score=86.11  Aligned_cols=284  Identities=14%  Similarity=0.054  Sum_probs=210.2

Q ss_pred             HHHHHHHHh--CCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCH
Q 043490           77 TALISGYAQ--HGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCA  153 (589)
Q Consensus        77 ~~li~~~~~--~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~  153 (589)
                      ..+..+..+  .|+|.+|+++..+-.+.                              + +.....|..-..+-.. |+.
T Consensus        86 ~~~~egl~~l~eG~~~qAEkl~~rnae~------------------------------~-e~p~l~~l~aA~AA~qrgd~  134 (400)
T COG3071          86 KALNEGLLKLFEGDFQQAEKLLRRNAEH------------------------------G-EQPVLAYLLAAEAAQQRGDE  134 (400)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhhhc------------------------------C-cchHHHHHHHHHHHHhcccH
Confidence            445556554  68999999888775443                              1 1112223333345555 888


Q ss_pred             HHHHHHHhhCCCC----ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCc
Q 043490          154 DEAWKVFENMEFR----NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGL  229 (589)
Q Consensus       154 ~~A~~lf~~m~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  229 (589)
                      +.|-+.+.+..++    +....-+.....             ...|++..|..-..++.+.+ +-+.........+|.+.
T Consensus       135 ~~an~yL~eaae~~~~~~l~v~ltrarll-------------l~~~d~~aA~~~v~~ll~~~-pr~~~vlrLa~r~y~~~  200 (400)
T COG3071         135 DRANRYLAEAAELAGDDTLAVELTRARLL-------------LNRRDYPAARENVDQLLEMT-PRHPEVLRLALRAYIRL  200 (400)
T ss_pred             HHHHHHHHHHhccCCCchHHHHHHHHHHH-------------HhCCCchhHHHHHHHHHHhC-cCChHHHHHHHHHHHHh
Confidence            8888888877653    333344444455             77788888888888887764 33556778888899999


Q ss_pred             CcHHHHHHHHHHHHHhCCCCcH-------HHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHH
Q 043490          230 VTERHASAVHSLIAKYGFEDDT-------VIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAK  299 (589)
Q Consensus       230 ~~~~~a~~i~~~~~~~g~~~~~-------~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~  299 (589)
                      |++.....+...+.+.|.-.|.       .+|+.+++-....+..+.-...++..+   +.++..-.+++.-+.+.|+.+
T Consensus       201 g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~  280 (400)
T COG3071         201 GAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHD  280 (400)
T ss_pred             ccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChH
Confidence            9999999999999988865553       456777776666666666667788777   446777778888899999999


Q ss_pred             HHHHHHHhC---CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 043490          300 EALQLFSNM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM  376 (589)
Q Consensus       300 ~A~~~~~~m---~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  376 (589)
                      +|.++.++.   +..|+    ...+-.+.+.++.+.-.+..+.-.+.++..|  ..+.+|...|.+.+.+.+|.+.|+..
T Consensus       281 ~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaA  354 (400)
T COG3071         281 EAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAA  354 (400)
T ss_pred             HHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            999999888   55555    2233356677787777777777666665555  68889999999999999999999987


Q ss_pred             -CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Q 043490          377 -PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQL  411 (589)
Q Consensus       377 -~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  411 (589)
                       +..|+..+|+.+..++.+.|+.++|.+..++.+.+
T Consensus       355 l~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~  390 (400)
T COG3071         355 LKLRPSASDYAELADALDQLGEPEEAEQVRREALLL  390 (400)
T ss_pred             HhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence             88899999999999999999999999999987743

>PRK12370 invasion protein regulator; Provisional

Probab=99.12  E-value=7.5e-09  Score=109.83  Aligned_cols=224  Identities=14%  Similarity=0.062  Sum_probs=171.6

Q ss_pred             CHHHHHHHHHHHh-----CcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHh---------cCCHHHHHHHHhhcC--
Q 043490          215 DWCTFSIVLKACA-----GLVTERHASAVHSLIAKYGFEDDTVIANALIHAYAR---------CGSISLSKQVFDKMT--  278 (589)
Q Consensus       215 ~~~t~~~ll~a~~-----~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~---------~g~~~~A~~~~~~~~--  278 (589)
                      +...|...+.+-.     ..++++.|.+.+++.++.. |.+...+..+...|..         .+++++|...+++..  
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~l  333 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATEL  333 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhc
Confidence            4455555555531     2345789999999998875 4456667666665542         345889999999887  


Q ss_pred             -CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCc-chHH
Q 043490          279 -YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDS-ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQL-DHYA  354 (589)
Q Consensus       279 -~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~  354 (589)
                       ..+..+|..+...+...|++++|+..|++. ...|+. ..+..+..++...|++++|...++...+   +.|+. ..+.
T Consensus       334 dP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~---l~P~~~~~~~  410 (553)
T PRK12370        334 DHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLK---LDPTRAAAGI  410 (553)
T ss_pred             CCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCChhhHH
Confidence             346678888888999999999999999999 777864 5777888899999999999999999864   35543 2334


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC--CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCC
Q 043490          355 CMVDLLGRVGRILEAEKLIREM--PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGS  431 (589)
Q Consensus       355 ~li~~~~~~g~~~~A~~~~~~m--~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  431 (589)
                      .+...+...|++++|...+++.  ...|+ ...+..+..++...|+.++|...++++....|.+......+...|...| 
T Consensus       411 ~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-  489 (553)
T PRK12370        411 TKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS-  489 (553)
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH-
Confidence            4455677789999999999887  22354 5567778888889999999999999998888877777788888888888 


Q ss_pred             hHHHHHHHHHHhc
Q 043490          432 FNKARLIRKEMKG  444 (589)
Q Consensus       432 ~~~a~~~~~~m~~  444 (589)
                       +.|...++.+.+
T Consensus       490 -~~a~~~l~~ll~  501 (553)
T PRK12370        490 -ERALPTIREFLE  501 (553)
T ss_pred             -HHHHHHHHHHHH
Confidence             488887777664

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

Probab=99.10  E-value=6.3e-07  Score=91.84  Aligned_cols=396  Identities=16%  Similarity=0.123  Sum_probs=245.8

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHhcCCC---CCcchHHHHHHHHHhCCChhHHHHHHHHHHhc-cCCCceeHHHHH-
Q 043490           40 QDLFVTNHLINMYAKFGYLDDARHLFDEMPK---RNVVSWTALISGYAQHGNAEECFRLFCSLLQY-FFPNEFSLASVL-  114 (589)
Q Consensus        40 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~p~~~t~~~~l-  114 (589)
                      .|+.+|..|.-++..+|+++.+-+.|++...   .....|+.+-..|...|.-..|+.+++.-... -.|+..+...+. 
T Consensus       321 nd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lmas  400 (799)
T KOG4162|consen  321 NDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLMAS  400 (799)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHHHH
Confidence            7999999999999999999999999998653   34567999999999999999999999877665 335544443333 


Q ss_pred             HHhc-----hhhHHHHHHHHHH--hcC--CCchhHHHHHHHHHhc------------CCHHHHHHHHhhCCC-----CCh
Q 043490          115 ISCD-----YLHGKLVHALALK--FSL--DAHVYVANALINMYSK------------SCADEAWKVFENMEF-----RNV  168 (589)
Q Consensus       115 ~a~~-----~~~~~~~~~~~~~--~g~--~~~~~~~~~li~~y~~------------g~~~~A~~lf~~m~~-----~~~  168 (589)
                      +.|.     .++|......++.  .|.  ......+-.+--+|..            ....++...+++..+     |++
T Consensus       401 klc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~dp~~  480 (799)
T KOG4162|consen  401 KLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTDPLV  480 (799)
T ss_pred             HHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCCchH
Confidence            3343     3333333333332  111  1112222222222322            112345555555532     333


Q ss_pred             hHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCC
Q 043490          169 ISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFE  248 (589)
Q Consensus       169 ~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~  248 (589)
                      .-|-++-  |             +..++.+.|++..++...-+-.-+...|..+.-.+...+++..|..+.+.....- +
T Consensus       481 if~lalq--~-------------A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~-~  544 (799)
T KOG4162|consen  481 IFYLALQ--Y-------------AEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEF-G  544 (799)
T ss_pred             HHHHHHH--H-------------HHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHh-h
Confidence            3333332  2             5667788888888888877656677778777777788888888888887765431 1


Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHh--------------------------hcC-----CCChhHHHHHHHHHHHcCC
Q 043490          249 DDTVIANALIHAYARCGSISLSKQVFD--------------------------KMT-----YHDLVSWNSILKAYALHGQ  297 (589)
Q Consensus       249 ~~~~~~~~li~~~~~~g~~~~A~~~~~--------------------------~~~-----~~~~~~~~~li~~~~~~g~  297 (589)
                      .|-.....-+..-...++.++|.....                          .+.     ..+...-..-+.+.+. -+
T Consensus       545 ~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a-~~  623 (799)
T KOG4162|consen  545 DNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVA-SQ  623 (799)
T ss_pred             hhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHH-hh
Confidence            111111111111122334333332221                          111     0111111111222221 11


Q ss_pred             HHHHHH--HHHhCCCCC--CH------HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCH
Q 043490          298 AKEALQ--LFSNMNVQP--DS------ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRI  366 (589)
Q Consensus       298 ~~~A~~--~~~~m~~~p--~~------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~  366 (589)
                      .+.+..  .+....+.|  +.      ..|......+...+..++|...+.+..   ++.| ....|......+...|.+
T Consensus       624 ~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~---~~~~l~~~~~~~~G~~~~~~~~~  700 (799)
T KOG4162|consen  624 LKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEAS---KIDPLSASVYYLRGLLLEVKGQL  700 (799)
T ss_pred             hhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHH---hcchhhHHHHHHhhHHHHHHHhh
Confidence            111110  011112222  22      123445566777888888887776664   3344 455677777888899999


Q ss_pred             HHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHH--HHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHH
Q 043490          367 LEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAEL--AATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEM  442 (589)
Q Consensus       367 ~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~--~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  442 (589)
                      ++|.+.|... .+.|+ +.+..++...+.+.|+...|..  ++..+.+.+|.++..|..|..++-+.|+.+.|...|...
T Consensus       701 ~EA~~af~~Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa  780 (799)
T KOG4162|consen  701 EEAKEAFLVALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAA  780 (799)
T ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHH
Confidence            9999998877 77887 7889999999999999999988  999999999999999999999999999999999999987


Q ss_pred             hcCCCccCCceeeE
Q 043490          443 KGSRVRKYPGLSWI  456 (589)
Q Consensus       443 ~~~~~~~~~~~s~~  456 (589)
                      .+..- .+|-..|.
T Consensus       781 ~qLe~-S~PV~pFs  793 (799)
T KOG4162|consen  781 LQLEE-SNPVLPFS  793 (799)
T ss_pred             Hhhcc-CCCccccc
Confidence            65432 23334443

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.10  E-value=4e-06  Score=84.27  Aligned_cols=431  Identities=13%  Similarity=0.130  Sum_probs=271.8

Q ss_pred             hhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHHHHHHHH
Q 043490            5 TQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYA   84 (589)
Q Consensus         5 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~   84 (589)
                      +..|..-++....+|++..-+..|+..++.+| +......|...+......|-++-+.+++++-.+-++..-+--|..++
T Consensus       102 pRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLp-vtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~  180 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGLITRTRRTFDRALRALP-VTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLA  180 (835)
T ss_pred             CHHHHHHHHHHHhcchHHHHHHHHHHHHHhCc-hHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            34566777888899999999999999998754 11345678888888888999999999999887777777888999999


Q ss_pred             hCCChhHHHHHHHHHHhc-------cCCCceeHHHHHHHhc----hhhHHHHHHHHHHhcCC--Cc--hhHHHHHHHHHh
Q 043490           85 QHGNAEECFRLFCSLLQY-------FFPNEFSLASVLISCD----YLHGKLVHALALKFSLD--AH--VYVANALINMYS  149 (589)
Q Consensus        85 ~~g~~~~A~~~~~~m~~~-------~~p~~~t~~~~l~a~~----~~~~~~~~~~~~~~g~~--~~--~~~~~~li~~y~  149 (589)
                      +.+++++|.+.+...+..       .+.+...|..+-.-.+    ......+. .+++.|+.  +|  -..|++|.+-|.
T Consensus       181 ~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvd-aiiR~gi~rftDq~g~Lw~SLAdYYI  259 (835)
T KOG2047|consen  181 KSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVD-AIIRGGIRRFTDQLGFLWCSLADYYI  259 (835)
T ss_pred             hccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHH-HHHHhhcccCcHHHHHHHHHHHHHHH
Confidence            999999999999888754       1222223333222222    11111111 22333432  33  368999999999


Q ss_pred             c-CCHHHHHHHHhhCCCC--ChhHHHHHHHHHHcCCcHH--HHHHHH-HHcC------CHHHHHHHHHHHHHcCC-----
Q 043490          150 K-SCADEAWKVFENMEFR--NVISWNSMIAAFRACKLEA--QAIELF-AKMK------NEEEALFLFRQLQREGM-----  212 (589)
Q Consensus       150 ~-g~~~~A~~lf~~m~~~--~~~~~~~li~~~~~~g~~~--~a~~~~-~~~g------~~~~A~~~~~~m~~~g~-----  212 (589)
                      + |.++.|+.+|++....  .+.-++.+-++|++-..--  .-+++- .+.|      +.+-.+.-|+.+...+.     
T Consensus       260 r~g~~ekarDvyeeai~~v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNs  339 (835)
T KOG2047|consen  260 RSGLFEKARDVYEEAIQTVMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNS  339 (835)
T ss_pred             HhhhhHHHHHHHHHHHHhheehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHH
Confidence            9 9999999999886542  3333555555552211000  001100 0111      22334444555444321     


Q ss_pred             ------CCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCc------HHHHHHHHHHHHhcCCHHHHHHHHhhcCCC
Q 043490          213 ------APDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDD------TVIANALIHAYARCGSISLSKQVFDKMTYH  280 (589)
Q Consensus       213 ------~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  280 (589)
                            +-+..+|..-..  ...|+..+-...+.++++. +.|.      ...|..+...|-..|+++.|+.+|++..+-
T Consensus       340 VlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V  416 (835)
T KOG2047|consen  340 VLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKV  416 (835)
T ss_pred             HHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcC
Confidence                  112223332222  2346677777788888765 2222      346788999999999999999999998743


Q ss_pred             Ch-------hHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-------------------HHHHHHHHHHHhccCcHHHH
Q 043490          281 DL-------VSWNSILKAYALHGQAKEALQLFSNM-NVQPD-------------------SATFVSLLSACSHAGLVQEG  333 (589)
Q Consensus       281 ~~-------~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-------------------~~t~~~ll~a~~~~g~~~~a  333 (589)
                      +-       ..|..-...-.++.+++.|+++.++. .++.+                   ...|...+..--..|-++..
T Consensus       417 ~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfest  496 (835)
T KOG2047|consen  417 PYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFEST  496 (835)
T ss_pred             CccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHH
Confidence            22       35666666677889999999999988 22111                   12233344444455677777


Q ss_pred             HHHHHHhHHhcCCccCcc-hHHHHHHHHhhcCCHHHHHHHHHhC-CC--CCC-HHHHHHHHHHHHHc---CCHHHHHHHH
Q 043490          334 NKVFHSMLENHGVVPQLD-HYACMVDLLGRVGRILEAEKLIREM-PM--EPD-SVIWSVLLGSCRKH---GETRLAELAA  405 (589)
Q Consensus       334 ~~~~~~~~~~~~~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m-~~--~p~-~~~~~~ll~~~~~~---g~~~~a~~~~  405 (589)
                      ..+++.+..-.=..|.+. .|.   -.+-...-++++.+++++- ++  -|+ ..+|++.+.-+.+.   .+++.|..+|
T Consensus       497 k~vYdriidLriaTPqii~NyA---mfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLF  573 (835)
T KOG2047|consen  497 KAVYDRIIDLRIATPQIIINYA---MFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLF  573 (835)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHH---HHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHH
Confidence            888888764322233221 122   2233456789999999987 22  245 56898888776543   4789999999


Q ss_pred             HHHhhcCCCChh--HHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          406 TKLKQLEPGDSL--GFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       406 ~~~~~~~p~~~~--~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      +++++.-|+...  .|...+..--+-|....|++++++..
T Consensus       574 EqaL~~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat  613 (835)
T KOG2047|consen  574 EQALDGCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERAT  613 (835)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            999997664322  23333333345588888899988753

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

Probab=99.09  E-value=1.7e-06  Score=89.10  Aligned_cols=405  Identities=14%  Similarity=0.137  Sum_probs=256.1

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--CCcch-HHHHHHHHHhC-
Q 043490           11 LFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--RNVVS-WTALISGYAQH-   86 (589)
Q Consensus        11 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~~~~~-~~~li~~~~~~-   86 (589)
                      ..+.+...|++++|++.+..-.+...   ............|.+.|+.++|..++..+.+  |+-.. |..+..+..-. 
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~~I~---Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPdn~~Yy~~L~~~~g~~~   86 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEKQIL---DKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPDNYDYYRGLEEALGLQL   86 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhhhCC---CHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHhhhc
Confidence            34566788999999999987666544   5677888899999999999999999999886  44344 44444544222 


Q ss_pred             ----CChhHHHHHHHHHHhccCCCceeHHHHHHHhc-----hhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHH
Q 043490           87 ----GNAEECFRLFCSLLQYFFPNEFSLASVLISCD-----YLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEA  156 (589)
Q Consensus        87 ----g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~-----~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A  156 (589)
                          .+.+...++|+++... .|.....-.+.-...     ...........++.|++   .+++.|-..|.. ...+-.
T Consensus        87 ~~~~~~~~~~~~~y~~l~~~-yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i  162 (517)
T PF12569_consen   87 QLSDEDVEKLLELYDELAEK-YPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAII  162 (517)
T ss_pred             ccccccHHHHHHHHHHHHHh-CccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHH
Confidence                2567778888888665 343333322221111     22333444444555643   456677777877 666555


Q ss_pred             HHHHhhCC------------------CCChhHH--HHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-
Q 043490          157 WKVFENME------------------FRNVISW--NSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPD-  215 (589)
Q Consensus       157 ~~lf~~m~------------------~~~~~~~--~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~-  215 (589)
                      .+++....                  .|....|  .-+...|             ...|++++|++..++.+..  .|+ 
T Consensus       163 ~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhy-------------d~~g~~~~Al~~Id~aI~h--tPt~  227 (517)
T PF12569_consen  163 ESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHY-------------DYLGDYEKALEYIDKAIEH--TPTL  227 (517)
T ss_pred             HHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHH-------------HHhCCHHHHHHHHHHHHhc--CCCc
Confidence            55555431                  1333345  4445556             8999999999999999885  565 


Q ss_pred             HHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCh----------hHH
Q 043490          216 WCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDL----------VSW  285 (589)
Q Consensus       216 ~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~----------~~~  285 (589)
                      +..|..-...+-+.|++++|.+.++...... .-|..+-+..+..+.++|++++|.+++.....++.          ..|
T Consensus       228 ~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~W  306 (517)
T PF12569_consen  228 VELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMW  306 (517)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHH
Confidence            5678888888999999999999999999887 66899999999999999999999999988875542          134


Q ss_pred             --HHHHHHHHHcCCHHHHHHHHHhC-----CCC-------------CCHHHHHHHHHHHhccC-------cHHHHHHHHH
Q 043490          286 --NSILKAYALHGQAKEALQLFSNM-----NVQ-------------PDSATFVSLLSACSHAG-------LVQEGNKVFH  338 (589)
Q Consensus       286 --~~li~~~~~~g~~~~A~~~~~~m-----~~~-------------p~~~t~~~ll~a~~~~g-------~~~~a~~~~~  338 (589)
                        .....+|.+.|++..|++.|..+     .+.             .+..+|..+|+..-+..       -...|.+++-
T Consensus       307 f~~e~a~a~~r~~~~~~ALk~~~~v~k~f~~~~~DQfDFH~Yc~RK~t~r~Y~~~L~~ed~l~~~~~y~raa~~ai~iYl  386 (517)
T PF12569_consen  307 FETECAEAYLRQGDYGLALKRFHAVLKHFDDFEEDQFDFHSYCLRKMTLRAYVDMLRWEDKLRSHPFYRRAAKGAIRIYL  386 (517)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcccccHHHHHHhhccHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHH
Confidence              33467899999999999887776     222             23334444444332211       1233445544


Q ss_pred             HhHHhcCCccCcch-----------HHHHHHHH---hhcCCHHHHHHHHH-----------hC----CCCCCHHHHHHHH
Q 043490          339 SMLENHGVVPQLDH-----------YACMVDLL---GRVGRILEAEKLIR-----------EM----PMEPDSVIWSVLL  389 (589)
Q Consensus       339 ~~~~~~~~~p~~~~-----------~~~li~~~---~~~g~~~~A~~~~~-----------~m----~~~p~~~~~~~ll  389 (589)
                      .+............           -..+-.--   .+...-+++...-.           ..    +...|.....   
T Consensus       387 ~l~d~~~~~~~~~~~~~~~~~~~~e~Kk~~kK~kK~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~Dp~G---  463 (517)
T PF12569_consen  387 ELHDKPEAKQGEEQEADNENMSAAERKKAKKKAKKAAKKAKKEEAEKAAKKEPKKQQNKSKKKEKVEPKKKDDDPLG---  463 (517)
T ss_pred             HHhcCcccccccccccccccCChHHHHHHHHHHHHHHHHHhHHHHHHHHhhhhhhhhccccccccccCCcCCCCccH---
Confidence            44222111000000           00000000   01111111111110           00    1111221111   


Q ss_pred             HHHHHcC-CHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHH
Q 043490          390 GSCRKHG-ETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKE  441 (589)
Q Consensus       390 ~~~~~~g-~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  441 (589)
                      .-+.+.. =.++|.++++-+.+..|++..+|..-..+|.+.|++--|.+.+.+
T Consensus       464 ekL~~t~dPLe~A~kfl~pL~~~a~~~~et~~laFeVy~Rk~K~LLaLqaL~k  516 (517)
T PF12569_consen  464 EKLLKTEDPLEEAMKFLKPLLELAPDNIETHLLAFEVYLRKGKYLLALQALKK  516 (517)
T ss_pred             HHHhcCCcHHHHHHHHHHHHHHhCccchhhHHHHhHHHHhcCcHHHHHHHHHh
Confidence            1122333 468899999999999999999999999999999999888877653

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

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.07  E-value=2.4e-08  Score=97.05  Aligned_cols=212  Identities=13%  Similarity=0.100  Sum_probs=152.0

Q ss_pred             cCcHHHHHHHHHHHHHhC-CCCc--HHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHH
Q 043490          229 LVTERHASAVHSLIAKYG-FEDD--TVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEAL  302 (589)
Q Consensus       229 ~~~~~~a~~i~~~~~~~g-~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~  302 (589)
                      .+..+.+..-+.+++... ..|+  ...+..+...|.+.|+.++|...|++..   ..+...|+.+...|...|++++|+
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            345566777777777542 2222  4567788888999999999999998876   346689999999999999999999


Q ss_pred             HHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC--CC
Q 043490          303 QLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM--PM  378 (589)
Q Consensus       303 ~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~  378 (589)
                      +.|++. .+.|+ ..++..+..++...|++++|.+.|+...+.   .|+..........+...++.++|.+.|++.  ..
T Consensus       119 ~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~---~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~  195 (296)
T PRK11189        119 EAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD---DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKL  195 (296)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC
Confidence            999999 88886 467788888888999999999999988653   454332222223345677899999999665  22


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHh-------hcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCC
Q 043490          379 EPDSVIWSVLLGSCRKHGETRLAELAATKLK-------QLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRV  447 (589)
Q Consensus       379 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~-------~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  447 (589)
                      .|+...| .  ......|+...+ ..++.+.       ++.|....+|..++.+|.+.|++++|...|++..+.++
T Consensus       196 ~~~~~~~-~--~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        196 DKEQWGW-N--IVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             CccccHH-H--HHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            3332222 2  222334554443 2444443       34455677899999999999999999999999887654

>PF13041 PPR_2: PPR repeat family

Probab=99.07  E-value=3.5e-10  Score=77.15  Aligned_cols=50  Identities=20%  Similarity=0.288  Sum_probs=48.1

Q ss_pred             CCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHh
Q 043490          214 PDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYAR  263 (589)
Q Consensus       214 p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~  263 (589)
                      ||..+|+++|.+|++.|++++|.++|++|.+.|++||..+|+.++++|+|
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            89999999999999999999999999999999999999999999999875

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.05  E-value=9.7e-08  Score=92.81  Aligned_cols=221  Identities=11%  Similarity=-0.050  Sum_probs=160.5

Q ss_pred             HHcCCHHHHHHHHHHHHHcC-CCCC--HHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHH
Q 043490          192 AKMKNEEEALFLFRQLQREG-MAPD--WCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSIS  268 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g-~~p~--~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  268 (589)
                      ...+..+.++.-+.++.... ..|+  ...|......+...|+.+.|...+...++.. +.+...|+.+...|...|+++
T Consensus        37 ~~~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~  115 (296)
T PRK11189         37 QPTLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFD  115 (296)
T ss_pred             CCchHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHH
Confidence            33456677888888887542 2232  3457777778889999999999999999876 667899999999999999999


Q ss_pred             HHHHHHhhcCC--C-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhc
Q 043490          269 LSKQVFDKMTY--H-DLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENH  344 (589)
Q Consensus       269 ~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  344 (589)
                      +|...|++..+  | +..+|..+...+...|++++|++.|++. ...|+..........+...++.++|...|.....  
T Consensus       116 ~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~--  193 (296)
T PRK11189        116 AAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPNDPYRALWLYLAESKLDPKQAKENLKQRYE--  193 (296)
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh--
Confidence            99999999863  3 4678888999999999999999999999 7777654322222234456789999999976543  


Q ss_pred             CCccCcchHHHHHHHHhhcCCHH--HHHHHHHhC-CC----CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCh
Q 043490          345 GVVPQLDHYACMVDLLGRVGRIL--EAEKLIREM-PM----EP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDS  416 (589)
Q Consensus       345 ~~~p~~~~~~~li~~~~~~g~~~--~A~~~~~~m-~~----~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  416 (589)
                      ...|+... ..++..+  .|++.  ++++.+.+. ..    .| ....|..+...+...|++++|...|+++.+.+|++.
T Consensus       194 ~~~~~~~~-~~~~~~~--lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~  270 (296)
T PRK11189        194 KLDKEQWG-WNIVEFY--LGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNF  270 (296)
T ss_pred             hCCccccH-HHHHHHH--ccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchH
Confidence            22343322 2333333  44443  333333322 11    12 246899999999999999999999999999998554


Q ss_pred             hH
Q 043490          417 LG  418 (589)
Q Consensus       417 ~~  418 (589)
                      .-
T Consensus       271 ~e  272 (296)
T PRK11189        271 VE  272 (296)
T ss_pred             HH
Confidence            33

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

Probab=99.03  E-value=1.6e-07  Score=92.90  Aligned_cols=273  Identities=12%  Similarity=0.010  Sum_probs=206.4

Q ss_pred             CchhHHHHHHHHHhc-CCHHHHHHHHhhCCCC---ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Q 043490          136 AHVYVANALINMYSK-SCADEAWKVFENMEFR---NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREG  211 (589)
Q Consensus       136 ~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g  211 (589)
                      .++.+...-.+-+.. +++.+..++++.+.+.   +...+..-|..+             ...|+..+-..+=.+|.+. 
T Consensus       242 ~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l-------------~el~~~n~Lf~lsh~LV~~-  307 (611)
T KOG1173|consen  242 ENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACL-------------YELGKSNKLFLLSHKLVDL-  307 (611)
T ss_pred             hcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHH-------------HHhcccchHHHHHHHHHHh-
Confidence            334444444455556 8888888888887754   344555566677             7888887777777777765 


Q ss_pred             CCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHH
Q 043490          212 MAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSI  288 (589)
Q Consensus       212 ~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l  288 (589)
                      .+-.+.+|-++.--|...|...+|++.+....... +.-...|-.+...|+-.|.-|+|...+....   ...-..+--+
T Consensus       308 yP~~a~sW~aVg~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYl  386 (611)
T KOG1173|consen  308 YPSKALSWFAVGCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYL  386 (611)
T ss_pred             CCCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHH
Confidence            34467889999888888899999999999876654 3345678889999999999999988876654   2222223335


Q ss_pred             HHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhc-CCcc----CcchHHHHHHHHh
Q 043490          289 LKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENH-GVVP----QLDHYACMVDLLG  361 (589)
Q Consensus       289 i~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~-~~~p----~~~~~~~li~~~~  361 (589)
                      .--|.+.+..+-|.+.|.+. ++.|+ +..++-+.-...+.+.+.+|..+|+..+..- .+.+    ...+++.|..+|.
T Consensus       387 gmey~~t~n~kLAe~Ff~~A~ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~R  466 (611)
T KOG1173|consen  387 GMEYMRTNNLKLAEKFFKQALAIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYR  466 (611)
T ss_pred             HHHHHHhccHHHHHHHHHHHHhcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHH
Confidence            55688899999999999999 88884 5667777666667899999999998875321 1111    2335888899999


Q ss_pred             hcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHH
Q 043490          362 RVGRILEAEKLIREM-PME-PDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMS  423 (589)
Q Consensus       362 ~~g~~~~A~~~~~~m-~~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  423 (589)
                      +.+++++|+..+++. ... .|..++.++.-.|...|+++.|...|.+.+.+.|++..+-..|.
T Consensus       467 kl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~  530 (611)
T KOG1173|consen  467 KLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLK  530 (611)
T ss_pred             HHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHH
Confidence            999999999999988 333 47899999999999999999999999999999998865544443

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.02  E-value=2.7e-05  Score=78.55  Aligned_cols=426  Identities=12%  Similarity=0.110  Sum_probs=222.2

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC----------------
Q 043490            7 IYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK----------------   70 (589)
Q Consensus         7 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~----------------   70 (589)
                      +|...+......+-++-+..++++.++.      ++..-+--|..+++.+++++|.+.+.....                
T Consensus       140 IW~lyl~Fv~~~~lPets~rvyrRYLk~------~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw  213 (835)
T KOG2047|consen  140 IWDLYLKFVESHGLPETSIRVYRRYLKV------APEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLW  213 (835)
T ss_pred             chHHHHHHHHhCCChHHHHHHHHHHHhc------CHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHH
Confidence            4555566666666667777777777664      223355666777777777777766655431                


Q ss_pred             ------------------------------CC--cchHHHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhc
Q 043490           71 ------------------------------RN--VVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCD  118 (589)
Q Consensus        71 ------------------------------~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~  118 (589)
                                                    +|  ...|++|..-|.+.|.++.|..+|++..+. .....-|+.+..+++
T Consensus       214 ~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~-v~tvrDFt~ifd~Ya  292 (835)
T KOG2047|consen  214 LELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQT-VMTVRDFTQIFDAYA  292 (835)
T ss_pred             HHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh-heehhhHHHHHHHHH
Confidence                                          11  136999999999999999999999998876 223344666666666


Q ss_pred             hhhHHHHHHHHH----HhcCCCchhHHHHHHHHHhc---CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHH----
Q 043490          119 YLHGKLVHALAL----KFSLDAHVYVANALINMYSK---SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQA----  187 (589)
Q Consensus       119 ~~~~~~~~~~~~----~~g~~~~~~~~~~li~~y~~---g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a----  187 (589)
                      .-+-..+...|.    +.|-+.+.......+.-+..   ++..-.-.++-+-...++..|..-...+  .|+..+-    
T Consensus       293 ~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l~--e~~~~~~i~ty  370 (835)
T KOG2047|consen  293 QFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKLY--EGNAAEQINTY  370 (835)
T ss_pred             HHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhhhh--cCChHHHHHHH
Confidence            111111111111    11111111111111100000   0000000000000011233333322211  0000000    


Q ss_pred             -----------------------HHHHHHcCCHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHhCcCcHHHHHHHHHH
Q 043490          188 -----------------------IELFAKMKNEEEALFLFRQLQREGMAPD---WCTFSIVLKACAGLVTERHASAVHSL  241 (589)
Q Consensus       188 -----------------------~~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~t~~~ll~a~~~~~~~~~a~~i~~~  241 (589)
                                             -++|-.+|+.+.|..+|++..+-..+--   ..+|......=.+..+++.|..+.+.
T Consensus       371 teAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~  450 (835)
T KOG2047|consen  371 TEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRR  450 (835)
T ss_pred             HHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHh
Confidence                                   0112566666666666666554322111   11222222222344455555555554


Q ss_pred             HHHhC-----------CCC------cHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHH---HHHHHcCCHHHH
Q 043490          242 IAKYG-----------FED------DTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSIL---KAYALHGQAKEA  301 (589)
Q Consensus       242 ~~~~g-----------~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li---~~~~~~g~~~~A  301 (589)
                      +....           .++      +..+|...++.--..|-++....+|+++.+--+.|=..++   .-+-.+..++++
T Consensus       451 A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLriaTPqii~NyAmfLEeh~yfees  530 (835)
T KOG2047|consen  451 ATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATPQIIINYAMFLEEHKYFEES  530 (835)
T ss_pred             hhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhHHHHHH
Confidence            43211           111      1223333444444455566666666665532222211111   122345667788


Q ss_pred             HHHHHhC-CC--CCCHH-HHHHHHHHHh---ccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHh----hcCCHHHHH
Q 043490          302 LQLFSNM-NV--QPDSA-TFVSLLSACS---HAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLG----RVGRILEAE  370 (589)
Q Consensus       302 ~~~~~~m-~~--~p~~~-t~~~ll~a~~---~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~----~~g~~~~A~  370 (589)
                      .++|++- .+  -|+.. .|+..|.-+.   ....++.|+.+|++.++  |.+|.  ....+--+|+    +-|....|+
T Consensus       531 Fk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~--~Cpp~--~aKtiyLlYA~lEEe~GLar~am  606 (835)
T KOG2047|consen  531 FKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD--GCPPE--HAKTIYLLYAKLEEEHGLARHAM  606 (835)
T ss_pred             HHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh--cCCHH--HHHHHHHHHHHHHHHhhHHHHHH
Confidence            8888876 22  24442 4555444333   23478999999999876  65553  2223333343    458888999


Q ss_pred             HHHHhC--CCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChh--HHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          371 KLIREM--PMEPD--SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSL--GFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       371 ~~~~~m--~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~--~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      +++++.  .+++.  ...||..|.-....=-+..-..+++++++.-|++..  ...-.+++-.+.|..+.|+.++..-.+
T Consensus       607 siyerat~~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq  686 (835)
T KOG2047|consen  607 SIYERATSAVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIESLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQ  686 (835)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhh
Confidence            999998  44443  567888887655554456677889999988774422  233566777899999999999987654


Q ss_pred             C
Q 043490          445 S  445 (589)
Q Consensus       445 ~  445 (589)
                      -
T Consensus       687 ~  687 (835)
T KOG2047|consen  687 I  687 (835)
T ss_pred             c
Confidence            3

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.01  E-value=6.9e-06  Score=81.95  Aligned_cols=406  Identities=12%  Similarity=0.096  Sum_probs=234.7

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCC---------------------
Q 043490           11 LFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMP---------------------   69 (589)
Q Consensus        11 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~---------------------   69 (589)
                      =++.+...|++++|.+.-..++...|   .+......=+-++.+.+++++|+++.+.-.                     
T Consensus        18 ~ln~~~~~~e~e~a~k~~~Kil~~~p---dd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~~~~~~~fEKAYc~Yrlnk   94 (652)
T KOG2376|consen   18 DLNRHGKNGEYEEAVKTANKILSIVP---DDEDAIRCKVVALIQLDKYEDALKLIKKNGALLVINSFFFEKAYCEYRLNK   94 (652)
T ss_pred             HHHHhccchHHHHHHHHHHHHHhcCC---CcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhhhcchhhHHHHHHHHHccc
Confidence            34566677888888888888887644   566666655666666666666665544322                     


Q ss_pred             ------------CCCcchHHHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHH-hcCCC
Q 043490           70 ------------KRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALK-FSLDA  136 (589)
Q Consensus        70 ------------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~-~g~~~  136 (589)
                                  +-+..+...-...+-+.|++++|+.+|+.+.++..+|   +-.-+++-....+...-....+ ....|
T Consensus        95 ~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd---~d~~~r~nl~a~~a~l~~~~~q~v~~v~  171 (652)
T KOG2376|consen   95 LDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDD---QDEERRANLLAVAAALQVQLLQSVPEVP  171 (652)
T ss_pred             HHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCch---HHHHHHHHHHHHHHhhhHHHHHhccCCC
Confidence                        1122233333456678899999999999997762222   2222222221111111111111 12222


Q ss_pred             c---hhHHHHHHHHHhc-CCHHHHHHHHhhCC--------CC--C---hhHHHHHHH---HHHcCCcHHHHHHHHHHcCC
Q 043490          137 H---VYVANALINMYSK-SCADEAWKVFENME--------FR--N---VISWNSMIA---AFRACKLEAQAIELFAKMKN  196 (589)
Q Consensus       137 ~---~~~~~~li~~y~~-g~~~~A~~lf~~m~--------~~--~---~~~~~~li~---~~~~~g~~~~a~~~~~~~g~  196 (589)
                      +   ...||..- .+.. |++.+|.++++...        +.  +   ...--..|.   +|           ++...|+
T Consensus       172 e~syel~yN~Ac-~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlay-----------VlQ~~Gq  239 (652)
T KOG2376|consen  172 EDSYELLYNTAC-ILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAY-----------VLQLQGQ  239 (652)
T ss_pred             cchHHHHHHHHH-HHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHH-----------HHHHhcc
Confidence            1   22444433 3444 99999999998761        11  1   111111111   12           1278899


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHH---HHHhCcCcHHH--------------HHHHHHHHHHhCCCCcHHHHHHHHH
Q 043490          197 EEEALFLFRQLQREGMAPDWCTFSIVL---KACAGLVTERH--------------ASAVHSLIAKYGFEDDTVIANALIH  259 (589)
Q Consensus       197 ~~~A~~~~~~m~~~g~~p~~~t~~~ll---~a~~~~~~~~~--------------a~~i~~~~~~~g~~~~~~~~~~li~  259 (589)
                      .++|.+++...++.. .+|........   .+.....++-.              +......+.+ ........-+.++.
T Consensus       240 t~ea~~iy~~~i~~~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~-~qk~~i~~N~~lL~  317 (652)
T KOG2376|consen  240 TAEASSIYVDIIKRN-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSK-KQKQAIYRNNALLA  317 (652)
T ss_pred             hHHHHHHHHHHHHhc-CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHH-HHHHHHHHHHHHHH
Confidence            999999999998875 44543222222   12221111111              1111111111 11122333345666


Q ss_pred             HHHhcCCHHHHHHHHhhcCCCC-hhHHHHHHH-HHH-HcCCHHHHHHHHHhC-CCCCCH--HHHHHHHHHHhccCcHHHH
Q 043490          260 AYARCGSISLSKQVFDKMTYHD-LVSWNSILK-AYA-LHGQAKEALQLFSNM-NVQPDS--ATFVSLLSACSHAGLVQEG  333 (589)
Q Consensus       260 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~li~-~~~-~~g~~~~A~~~~~~m-~~~p~~--~t~~~ll~a~~~~g~~~~a  333 (589)
                      +|.  +..+.+.+.-...+... ...+.+++. ++. +.....+|.+++... .-.|+.  ......+......|+++.|
T Consensus       318 l~t--nk~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A  395 (652)
T KOG2376|consen  318 LFT--NKMDQVRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVA  395 (652)
T ss_pred             HHh--hhHHHHHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHH
Confidence            655  45567777777776332 233344443 332 233577888888888 555654  3444555666789999999


Q ss_pred             HHHHH--------HhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC--------CCCCC-HHHHHHHHHHHHHcC
Q 043490          334 NKVFH--------SMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM--------PMEPD-SVIWSVLLGSCRKHG  396 (589)
Q Consensus       334 ~~~~~--------~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--------~~~p~-~~~~~~ll~~~~~~g  396 (589)
                      .+++.        .+.   .+.-.+.+...++.+|.+.++-+.|..++.+.        .-.+. ..+|.-+...-.++|
T Consensus       396 ~~il~~~~~~~~ss~~---~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G  472 (652)
T KOG2376|consen  396 LEILSLFLESWKSSIL---EAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHG  472 (652)
T ss_pred             HHHHHHHhhhhhhhhh---hhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcC
Confidence            99998        432   22234456778888999988877777766655        22222 334444445556789


Q ss_pred             CHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHH
Q 043490          397 ETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEM  442 (589)
Q Consensus       397 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  442 (589)
                      +-++|...++++.+.+|+|..+...++.+|++. +.+.|..+-+.+
T Consensus       473 ~~~ea~s~leel~k~n~~d~~~l~~lV~a~~~~-d~eka~~l~k~L  517 (652)
T KOG2376|consen  473 NEEEASSLLEELVKFNPNDTDLLVQLVTAYARL-DPEKAESLSKKL  517 (652)
T ss_pred             chHHHHHHHHHHHHhCCchHHHHHHHHHHHHhc-CHHHHHHHhhcC
Confidence            999999999999999999999999999999977 666776665443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.99  E-value=9.7e-07  Score=82.31  Aligned_cols=405  Identities=13%  Similarity=0.069  Sum_probs=203.4

Q ss_pred             HHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC---CCcchHHHHHHHHHhCCCh
Q 043490           13 HACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK---RNVVSWTALISGYAQHGNA   89 (589)
Q Consensus        13 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~   89 (589)
                      .-+...+|+..|..+++.-.....  +....+---+...|...|++++|..++.-+.+   ++...|-.|.-.+.-.|.+
T Consensus        30 edfls~rDytGAislLefk~~~~~--EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y  107 (557)
T KOG3785|consen   30 EDFLSNRDYTGAISLLEFKLNLDR--EEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQY  107 (557)
T ss_pred             HHHHhcccchhHHHHHHHhhccch--hhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHH
Confidence            344455667777777765553311  12223333455566677777777777765442   4555565565555556666


Q ss_pred             hHHHHHHHHHHhccCCCceeHHHHHHHhc--hhhH---HHHHHHHHHhcCCCchhHHHHHHHH-HhcCCHHHHHHHHhhC
Q 043490           90 EECFRLFCSLLQYFFPNEFSLASVLISCD--YLHG---KLVHALALKFSLDAHVYVANALINM-YSKSCADEAWKVFENM  163 (589)
Q Consensus        90 ~~A~~~~~~m~~~~~p~~~t~~~~l~a~~--~~~~---~~~~~~~~~~g~~~~~~~~~~li~~-y~~g~~~~A~~lf~~m  163 (589)
                      .+|..+-....     +...-..++-..+  +..-   ...|..+     ......--+|.++ |.+-.+.+|..++.++
T Consensus       108 ~eA~~~~~ka~-----k~pL~~RLlfhlahklndEk~~~~fh~~L-----qD~~EdqLSLAsvhYmR~HYQeAIdvYkrv  177 (557)
T KOG3785|consen  108 IEAKSIAEKAP-----KTPLCIRLLFHLAHKLNDEKRILTFHSSL-----QDTLEDQLSLASVHYMRMHYQEAIDVYKRV  177 (557)
T ss_pred             HHHHHHHhhCC-----CChHHHHHHHHHHHHhCcHHHHHHHHHHH-----hhhHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            66666544332     2222222222222  1111   1111111     1112222334444 3336678888888877


Q ss_pred             CC--CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHH----
Q 043490          164 EF--RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASA----  237 (589)
Q Consensus       164 ~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~----  237 (589)
                      ..  |+-...|.-+.-|            |.+..-++-+.+++.--.+. ++-++...+.......+.=+-..|.+    
T Consensus       178 L~dn~ey~alNVy~ALC------------yyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~ngr~ae~E~k~  244 (557)
T KOG3785|consen  178 LQDNPEYIALNVYMALC------------YYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLINGRTAEDEKKE  244 (557)
T ss_pred             HhcChhhhhhHHHHHHH------------HHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhhccchhHHHHHH
Confidence            64  4445555444333            26666666666666554442 22222233322222122111111111    


Q ss_pred             ----------HHHHHHHhCC------------CCc-----HHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHH
Q 043490          238 ----------VHSLIAKYGF------------EDD-----TVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILK  290 (589)
Q Consensus       238 ----------i~~~~~~~g~------------~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~  290 (589)
                                ..+.+.++++            -|.     +..--.|+--|.+.+++.+|..+.......++.-|-.-..
T Consensus       245 ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~PttP~EyilKgv  324 (557)
T KOG3785|consen  245 LADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLDPTTPYEYILKGV  324 (557)
T ss_pred             HHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcCCCChHHHHHHHH
Confidence                      1111222110            010     1122234445677777777777777766444443332222


Q ss_pred             HHHHcCC-------HHHHHHHHHhC---CCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHH
Q 043490          291 AYALHGQ-------AKEALQLFSNM---NVQPDSA-TFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDL  359 (589)
Q Consensus       291 ~~~~~g~-------~~~A~~~~~~m---~~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~  359 (589)
                      .++..|+       ..-|...|+-.   +..-|.. --.++.+++.-...+|+..-+++.+ +.+=...|...+ .+..+
T Consensus       325 v~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi-~sYF~NdD~Fn~-N~AQA  402 (557)
T KOG3785|consen  325 VFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSI-ESYFTNDDDFNL-NLAQA  402 (557)
T ss_pred             HHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHH-HHHhcCcchhhh-HHHHH
Confidence            2333332       34455555544   2222221 2233444455556677777777766 333333344333 46778


Q ss_pred             HhhcCCHHHHHHHHHhCC-CC-CCHHHHHHHH-HHHHHcCCHHHHHHHHHHHhhcC-CCChh-HHHHHHHHhhhcCChHH
Q 043490          360 LGRVGRILEAEKLIREMP-ME-PDSVIWSVLL-GSCRKHGETRLAELAATKLKQLE-PGDSL-GFVQMSNIYCLSGSFNK  434 (589)
Q Consensus       360 ~~~~g~~~~A~~~~~~m~-~~-p~~~~~~~ll-~~~~~~g~~~~a~~~~~~~~~~~-p~~~~-~~~~l~~~~~~~g~~~~  434 (589)
                      ++..|.+.+|+++|-++. .+ .|..+|.+++ .+|.++|+++.|..++   ++.+ |.+.. ....+++-|.+++.+--
T Consensus       403 k~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~---lk~~t~~e~fsLLqlIAn~CYk~~eFyy  479 (557)
T KOG3785|consen  403 KLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMM---LKTNTPSERFSLLQLIANDCYKANEFYY  479 (557)
T ss_pred             HHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHH---HhcCCchhHHHHHHHHHHHHHHHHHHHH
Confidence            888888888988887772 11 3556665554 5667778888776654   3333 33332 33456677888888888


Q ss_pred             HHHHHHHHhcCCC
Q 043490          435 ARLIRKEMKGSRV  447 (589)
Q Consensus       435 a~~~~~~m~~~~~  447 (589)
                      |.+.|+.+...+.
T Consensus       480 aaKAFd~lE~lDP  492 (557)
T KOG3785|consen  480 AAKAFDELEILDP  492 (557)
T ss_pred             HHHhhhHHHccCC
Confidence            8888888776543

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

Probab=98.98  E-value=2.8e-06  Score=80.94  Aligned_cols=272  Identities=13%  Similarity=0.006  Sum_probs=200.3

Q ss_pred             HhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCCCChhHHHHHH-HHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHH
Q 043490          131 KFSLDAHVYVANALINMYSK-SCADEAWKVFENMEFRNVISWNSMI-AAFRACKLEAQAIELFAKMKNEEEALFLFRQLQ  208 (589)
Q Consensus       131 ~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~~~~~~~~~li-~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~  208 (589)
                      +.-+..++....++...|.. |+.++|...|++...-|+.+-.+|= .++           ++.+.|+.++...+...+.
T Consensus       225 ~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~-----------LL~~eg~~e~~~~L~~~Lf  293 (564)
T KOG1174|consen  225 NTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAV-----------LLGQEGGCEQDSALMDYLF  293 (564)
T ss_pred             hccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHH-----------HHHhccCHhhHHHHHHHHH
Confidence            44567788899999999999 9999999999987654444333321 111           1267788887777777665


Q ss_pred             HcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHH
Q 043490          209 REGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSW  285 (589)
Q Consensus       209 ~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~  285 (589)
                      ... .-+...|-.-+.......+++.|..+-+..++.. +.+...+-.-...+...|+.++|.-.|+...   .-+..+|
T Consensus       294 ~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y  371 (564)
T KOG1174|consen  294 AKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIY  371 (564)
T ss_pred             hhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHH
Confidence            431 1222333333344456778888888888887765 4455556555677788999999999998766   3578899


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC-C-CCCCHHHHHHHH-HHHh-ccCcHHHHHHHHHHhHHhcCCccC-cchHHHHHHHH
Q 043490          286 NSILKAYALHGQAKEALQLFSNM-N-VQPDSATFVSLL-SACS-HAGLVQEGNKVFHSMLENHGVVPQ-LDHYACMVDLL  360 (589)
Q Consensus       286 ~~li~~~~~~g~~~~A~~~~~~m-~-~~p~~~t~~~ll-~a~~-~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~  360 (589)
                      .-++.+|...|+..+|.-+-+.. . ...+..++..+. ..|. ....-++|.++++.-.   .+.|+ ....+.+...+
T Consensus       372 ~GL~hsYLA~~~~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L---~~~P~Y~~AV~~~AEL~  448 (564)
T KOG1174|consen  372 RGLFHSYLAQKRFKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSL---KINPIYTPAVNLIAELC  448 (564)
T ss_pred             HHHHHHHHhhchHHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHHHHHHHHHhhh---ccCCccHHHHHHHHHHH
Confidence            99999999999999999887776 3 333455555442 3333 2344578888887654   45664 33556777888


Q ss_pred             hhcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhH
Q 043490          361 GRVGRILEAEKLIREM-PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLG  418 (589)
Q Consensus       361 ~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  418 (589)
                      .+.|..+++..++++. ...||...-+.|...++..+.+++|...|..++.++|.|..+
T Consensus       449 ~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~~~s  507 (564)
T KOG1174|consen  449 QVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKSKRT  507 (564)
T ss_pred             HhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccchHH
Confidence            9999999999999988 668999999999999999999999999999999999977543

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

Probab=98.97  E-value=3e-08  Score=91.21  Aligned_cols=226  Identities=13%  Similarity=0.034  Sum_probs=188.5

Q ss_pred             HHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-ChhHHHHHHHHHH
Q 043490          217 CTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY--H-DLVSWNSILKAYA  293 (589)
Q Consensus       217 ~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~  293 (589)
                      .--+-+..+|.+.|.+..|...++..++.  .|-+.+|..|-..|.+..+++.|+.+|..-.+  | |+.-..-+...+-
T Consensus       224 wWk~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~e  301 (478)
T KOG1129|consen  224 WWKQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHE  301 (478)
T ss_pred             HHHHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHH
Confidence            33456778889999999999999888876  45566777888999999999999999998763  3 5555556778888


Q ss_pred             HcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHH
Q 043490          294 LHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEK  371 (589)
Q Consensus       294 ~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  371 (589)
                      ..++.++|.++|+.. +..|+ ......+...|.-.++++.|.++++.+.+- |+ .+.+.|+.+.-.+.-.+++|-++.
T Consensus       302 am~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqm-G~-~speLf~NigLCC~yaqQ~D~~L~  379 (478)
T KOG1129|consen  302 AMEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQM-GA-QSPELFCNIGLCCLYAQQIDLVLP  379 (478)
T ss_pred             HHHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHh-cC-CChHHHhhHHHHHHhhcchhhhHH
Confidence            899999999999999 77764 446666777788889999999999998753 64 356788888888888999999999


Q ss_pred             HHHhC---CCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          372 LIREM---PMEPD--SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       372 ~~~~m---~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      -|++.   --.|+  ..+|-.|.......||+..|.+-|+..+..+|++..+++.|.-.-.+.|++++|..+++......
T Consensus       380 sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~  459 (478)
T KOG1129|consen  380 SFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVM  459 (478)
T ss_pred             HHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhC
Confidence            88877   22354  67898888888999999999999999999999999999999999999999999999999877543

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.96  E-value=1.3e-05  Score=80.85  Aligned_cols=401  Identities=13%  Similarity=0.126  Sum_probs=239.1

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC---CCcchHHHHHHHHH
Q 043490            8 YATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK---RNVVSWTALISGYA   84 (589)
Q Consensus         8 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~   84 (589)
                      |-.++. |-..+.+..++...+.+++.+|   ....+.....-.+...|+-++|......-..   .+.+.|.++.-.+-
T Consensus        11 F~~~lk-~yE~kQYkkgLK~~~~iL~k~~---eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R   86 (700)
T KOG1156|consen   11 FRRALK-CYETKQYKKGLKLIKQILKKFP---EHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQR   86 (700)
T ss_pred             HHHHHH-HHHHHHHHhHHHHHHHHHHhCC---ccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHHHHHHh
Confidence            334444 4466889999999999998765   4555555555556677999999988876554   46688999988888


Q ss_pred             hCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhh-
Q 043490           85 QHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFEN-  162 (589)
Q Consensus        85 ~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~-  162 (589)
                      ...++++|++.|+..... .||...                              .+.-|--.=++ |+++.....-.. 
T Consensus        87 ~dK~Y~eaiKcy~nAl~~-~~dN~q------------------------------ilrDlslLQ~QmRd~~~~~~tr~~L  135 (700)
T KOG1156|consen   87 SDKKYDEAIKCYRNALKI-EKDNLQ------------------------------ILRDLSLLQIQMRDYEGYLETRNQL  135 (700)
T ss_pred             hhhhHHHHHHHHHHHHhc-CCCcHH------------------------------HHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            899999999999988764 333322                              22211111122 333222222211 


Q ss_pred             --CCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHH------HHhCcCcHH
Q 043490          163 --MEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREG-MAPDWCTFSIVLK------ACAGLVTER  233 (589)
Q Consensus       163 --m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~------a~~~~~~~~  233 (589)
                        .....-..|..+..++             .-.|+...|..+.++..+.. -.|+...|.-...      .....|..+
T Consensus       136 Lql~~~~ra~w~~~Avs~-------------~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q  202 (700)
T KOG1156|consen  136 LQLRPSQRASWIGFAVAQ-------------HLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQ  202 (700)
T ss_pred             HHhhhhhHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHH
Confidence              1223456777777777             77788888888877776643 2455554433222      224556666


Q ss_pred             HHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC--CChhHHHHHH-HHHHHcCCHHHHH-HHHHhC-
Q 043490          234 HASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY--HDLVSWNSIL-KAYALHGQAKEAL-QLFSNM-  308 (589)
Q Consensus       234 ~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li-~~~~~~g~~~~A~-~~~~~m-  308 (589)
                      .|.+.+..-... +......-..-.+.+.+.+++++|..++..+..  ||...|+-.. .++.+--+.-+++ .+|... 
T Consensus       203 ~ale~L~~~e~~-i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls  281 (700)
T KOG1156|consen  203 KALEHLLDNEKQ-IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILS  281 (700)
T ss_pred             HHHHHHHhhhhH-HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHh
Confidence            666665443322 122233334556677888888888888888774  4444444333 3333232333333 444444 


Q ss_pred             CC-----CCC----------------------------HHHHHHHHHHHhccCcHHH----HHHHHHHhHHhcCC-----
Q 043490          309 NV-----QPD----------------------------SATFVSLLSACSHAGLVQE----GNKVFHSMLENHGV-----  346 (589)
Q Consensus       309 ~~-----~p~----------------------------~~t~~~ll~a~~~~g~~~~----a~~~~~~~~~~~~~-----  346 (589)
                      ..     .|-                            +.+|..+.+.+-.....+-    +..+...+ ...|.     
T Consensus       282 ~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SLyk~p~k~~~le~Lvt~y~~~L-~~~~~f~~~D  360 (700)
T KOG1156|consen  282 EKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLRSLYKDPEKVAFLEKLVTSYQHSL-SGTGMFNFLD  360 (700)
T ss_pred             hcCcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhHHHHhchhHhHHHHHHHHHHHhhc-ccccCCCccc
Confidence            11     110                            0111222222211111111    11111111 11011     


Q ss_pred             -----ccCcc--hHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChh
Q 043490          347 -----VPQLD--HYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSL  417 (589)
Q Consensus       347 -----~p~~~--~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  417 (589)
                           +|...  ++-.++..|-+.|+++.|+..++.. +-.|+ +.-|..=.+.+...|+++.|...++++.+++-.|..
T Consensus       361 ~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~  440 (700)
T KOG1156|consen  361 DGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRA  440 (700)
T ss_pred             ccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHH
Confidence                 23333  4456778889999999999999988 65677 556666668889999999999999999999976654


Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHHHhcCCCc-----cCCceeeEEE
Q 043490          418 GFVQMSNIYCLSGSFNKARLIRKEMKGSRVR-----KYPGLSWIEI  458 (589)
Q Consensus       418 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~-----~~~~~s~~~~  458 (589)
                      .-.--++-..++.+.++|.++.......|..     .+..|.|..+
T Consensus       441 INsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~  486 (700)
T KOG1156|consen  441 INSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQL  486 (700)
T ss_pred             HHHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhH
Confidence            4445566667899999999999888766642     1134677643

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

Probab=98.95  E-value=7e-08  Score=84.93  Aligned_cols=159  Identities=16%  Similarity=0.156  Sum_probs=120.0

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC-CCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhh
Q 043490          286 NSILKAYALHGQAKEALQLFSNM-NVQPDS-ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGR  362 (589)
Q Consensus       286 ~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~  362 (589)
                      ..+.-+|.+.|+...|..-+++. ...|+. .++..+...|.+.|..+.|.+.|+..+   .+.| +..+.|....-+|.
T Consensus        39 lqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAl---sl~p~~GdVLNNYG~FLC~  115 (250)
T COG3063          39 LQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKAL---SLAPNNGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHH---hcCCCccchhhhhhHHHHh
Confidence            34555666777777777777776 566654 366666677777777777777777665   3344 45566677777777


Q ss_pred             cCCHHHHHHHHHhC---CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHH
Q 043490          363 VGRILEAEKLIREM---PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLI  438 (589)
Q Consensus       363 ~g~~~~A~~~~~~m---~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  438 (589)
                      .|++++|...|++.   |.-|. ..+|..+.-+..+.|+.+.|+..+++.++.+|+.+.+...+.....+.|++-.|...
T Consensus       116 qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar~~  195 (250)
T COG3063         116 QGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPARLY  195 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHHHH
Confidence            77888888877777   22232 667888888888899999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCC
Q 043490          439 RKEMKGSRV  447 (589)
Q Consensus       439 ~~~m~~~~~  447 (589)
                      ++....++.
T Consensus       196 ~~~~~~~~~  204 (250)
T COG3063         196 LERYQQRGG  204 (250)
T ss_pred             HHHHHhccc
Confidence            998877665

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.87  E-value=2.2e-06  Score=87.03  Aligned_cols=204  Identities=16%  Similarity=0.137  Sum_probs=95.5

Q ss_pred             HHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHH
Q 043490          173 SMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTV  252 (589)
Q Consensus       173 ~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~  252 (589)
                      +-|+-|+..+...+|++.-.....+.+|+.+++.++...  .-.--|..+...|+..|+++.|.++|.+.         .
T Consensus       724 aainhfiea~~~~kaieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~---------~  792 (1636)
T KOG3616|consen  724 AAINHFIEANCLIKAIEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEA---------D  792 (1636)
T ss_pred             HHHHHHHHhhhHHHHHHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhc---------c
Confidence            334444444444445555555555555555555554432  12223445555556666666666555422         1


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcCCCC--hhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcH
Q 043490          253 IANALIHAYARCGSISLSKQVFDKMTYHD--LVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLV  330 (589)
Q Consensus       253 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~  330 (589)
                      .++--|+||.+.|++++|.++-.+...|.  +..|-+-..-+-.+|++.+|.++|-..| .|+.     .|..|-+.|..
T Consensus       793 ~~~dai~my~k~~kw~da~kla~e~~~~e~t~~~yiakaedldehgkf~eaeqlyiti~-~p~~-----aiqmydk~~~~  866 (1636)
T KOG3616|consen  793 LFKDAIDMYGKAGKWEDAFKLAEECHGPEATISLYIAKAEDLDEHGKFAEAEQLYITIG-EPDK-----AIQMYDKHGLD  866 (1636)
T ss_pred             hhHHHHHHHhccccHHHHHHHHHHhcCchhHHHHHHHhHHhHHhhcchhhhhheeEEcc-CchH-----HHHHHHhhCcc
Confidence            23344556666666666666555554332  2334444444555566655555554432 2322     23444455555


Q ss_pred             HHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 043490          331 QEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAEL  403 (589)
Q Consensus       331 ~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~  403 (589)
                      +...++...-   +| ..-..+...+..-|-..|++..|+..|-+.+      -|.+-+..|...+-+++|-+
T Consensus       867 ddmirlv~k~---h~-d~l~dt~~~f~~e~e~~g~lkaae~~flea~------d~kaavnmyk~s~lw~dayr  929 (1636)
T KOG3616|consen  867 DDMIRLVEKH---HG-DHLHDTHKHFAKELEAEGDLKAAEEHFLEAG------DFKAAVNMYKASELWEDAYR  929 (1636)
T ss_pred             hHHHHHHHHh---Ch-hhhhHHHHHHHHHHHhccChhHHHHHHHhhh------hHHHHHHHhhhhhhHHHHHH
Confidence            5555444321   01 1111233344445555556666555554432      23334444444444444433

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

Probab=98.82  E-value=2.1e-07  Score=85.73  Aligned_cols=217  Identities=12%  Similarity=0.060  Sum_probs=145.0

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHH
Q 043490           77 TALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADE  155 (589)
Q Consensus        77 ~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~  155 (589)
                      +.|..+|.+.|.+.+|.+.|+.-+..                                .|-+.+|--|-..|.+ .+.+.
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--------------------------------~~~~dTfllLskvY~ridQP~~  274 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--------------------------------FPHPDTFLLLSKVYQRIDQPER  274 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--------------------------------CCchhHHHHHHHHHHHhccHHH
Confidence            46777888888888888888776655                                3444555566677888 88888


Q ss_pred             HHHHHhhCCC--CChhHH-HHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcH
Q 043490          156 AWKVFENMEF--RNVISW-NSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTE  232 (589)
Q Consensus       156 A~~lf~~m~~--~~~~~~-~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~  232 (589)
                      |..+|.+-.+  |-.+|| ..+...+             ..+++.++|+++|+...+.. +.+.....++...|.-.++.
T Consensus       275 AL~~~~~gld~fP~~VT~l~g~ARi~-------------eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~P  340 (478)
T KOG1129|consen  275 ALLVIGEGLDSFPFDVTYLLGQARIH-------------EAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNP  340 (478)
T ss_pred             HHHHHhhhhhcCCchhhhhhhhHHHH-------------HHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCCh
Confidence            8888877654  444444 3344555             67778888888888776642 33455666666667777888


Q ss_pred             HHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC----CCCh--hHHHHHHHHHHHcCCHHHHHHHHH
Q 043490          233 RHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT----YHDL--VSWNSILKAYALHGQAKEALQLFS  306 (589)
Q Consensus       233 ~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~--~~~~~li~~~~~~g~~~~A~~~~~  306 (589)
                      +.|...++.+++.|+ .+...|+.+.-.+.-.+++|.++..|++..    .++.  ..|..+.......|+..-|.+.|+
T Consensus       341 E~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfr  419 (478)
T KOG1129|consen  341 EMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFR  419 (478)
T ss_pred             HHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHH
Confidence            888888888888884 466677777777777778887777776654    2332  356666666666666666666666


Q ss_pred             hC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHh
Q 043490          307 NM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSM  340 (589)
Q Consensus       307 ~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~  340 (589)
                      -. .-.| +...++.|.-.-.+.|++++|+.+++..
T Consensus       420 laL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A  455 (478)
T KOG1129|consen  420 LALTSDAQHGEALNNLAVLAARSGDILGARSLLNAA  455 (478)
T ss_pred             HHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHh
Confidence            65 3333 3346666665556666666666666655

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

Probab=98.80  E-value=1.3e-06  Score=77.12  Aligned_cols=187  Identities=15%  Similarity=0.137  Sum_probs=101.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCC---ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCH-HHHHHHHHHHhccCcH
Q 043490          256 ALIHAYARCGSISLSKQVFDKMTYH---DLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDS-ATFVSLLSACSHAGLV  330 (589)
Q Consensus       256 ~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-~t~~~ll~a~~~~g~~  330 (589)
                      .|.-.|...|+...|.+-+++..+.   +..+|..+...|-+.|+.+.|.+.|++. .+.|+. ...|....-+|..|.+
T Consensus        40 qLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~  119 (250)
T COG3063          40 QLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRP  119 (250)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCCh
Confidence            3444556666666666666655522   2245555556666666666666666665 555532 3444555555555666


Q ss_pred             HHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 043490          331 QEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKL  408 (589)
Q Consensus       331 ~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~  408 (589)
                      ++|...|+.........--..+|..+.-+..++|+++.|.+.|++. ...|+ ..+...+.....+.|++-.|...+++.
T Consensus       120 ~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~  199 (250)
T COG3063         120 EEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPARLYLERY  199 (250)
T ss_pred             HHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHHHHHHHH
Confidence            6666666655443222223345555555555666666666666555 33333 444455555555666666666666665


Q ss_pred             hhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHH
Q 043490          409 KQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEM  442 (589)
Q Consensus       409 ~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  442 (589)
                      ....+....+....+.+-...|+-+.+.+.=..+
T Consensus       200 ~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL  233 (250)
T COG3063         200 QQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQL  233 (250)
T ss_pred             HhcccccHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            5554445555555555555566655555544433

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

Probab=98.79  E-value=2.1e-05  Score=73.37  Aligned_cols=312  Identities=15%  Similarity=0.125  Sum_probs=192.5

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHHHH---HHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHH
Q 043490           40 QDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALI---SGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLIS  116 (589)
Q Consensus        40 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li---~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a  116 (589)
                      .++.-.--|.+.+...|++.+|+.-|....+-|+..|-++.   ..|...|+...|+.=|.+.++. +||          
T Consensus        36 advekhlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel-KpD----------  104 (504)
T KOG0624|consen   36 ADVEKHLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL-KPD----------  104 (504)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc-Ccc----------
Confidence            34444455666677778888888888888777777776664   4567777777777766666553 333          


Q ss_pred             hchhhHHHHHHHHHHhcCCCchhHHH-HHHHHHhc-CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHc
Q 043490          117 CDYLHGKLVHALALKFSLDAHVYVAN-ALINMYSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKM  194 (589)
Q Consensus       117 ~~~~~~~~~~~~~~~~g~~~~~~~~~-~li~~y~~-g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  194 (589)
                                           -.... ---..+.+ |.++.|..=|+.+.+.++. -+....++             .+.
T Consensus       105 ---------------------F~~ARiQRg~vllK~Gele~A~~DF~~vl~~~~s-~~~~~eaq-------------skl  149 (504)
T KOG0624|consen  105 ---------------------FMAARIQRGVVLLKQGELEQAEADFDQVLQHEPS-NGLVLEAQ-------------SKL  149 (504)
T ss_pred             ---------------------HHHHHHHhchhhhhcccHHHHHHHHHHHHhcCCC-cchhHHHH-------------HHH
Confidence                                 11100 11134566 8888888777776542210 00111111             111


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHH
Q 043490          195 KNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVF  274 (589)
Q Consensus       195 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  274 (589)
                      -..++       +         ......+..+...|+...++.....+++.. +.|...+..-..+|...|++..|..-+
T Consensus       150 ~~~~e-------~---------~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dl  212 (504)
T KOG0624|consen  150 ALIQE-------H---------WVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDL  212 (504)
T ss_pred             HhHHH-------H---------HHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHH
Confidence            11111       1         122334455567788888888888888775 678888888889999999999887766


Q ss_pred             hhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHH-HH---HH---H------HHHhccCcHHHHHHHH
Q 043490          275 DKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDSAT-FV---SL---L------SACSHAGLVQEGNKVF  337 (589)
Q Consensus       275 ~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t-~~---~l---l------~a~~~~g~~~~a~~~~  337 (589)
                      ....   ..+.....-+-..+...|+.+.++...++- .+.||... |.   .|   .      ......+++.++.+-.
T Consensus       213 k~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKldpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~g  292 (504)
T KOG0624|consen  213 KQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLKLDPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAG  292 (504)
T ss_pred             HHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccCcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            5544   556667777777888889999999888888 88888642 21   11   1      1122345555555555


Q ss_pred             HHhHHhcCCccC-----cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 043490          338 HSMLENHGVVPQ-----LDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQ  410 (589)
Q Consensus       338 ~~~~~~~~~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  410 (589)
                      +...+.   .|.     ...+..+-..|...|++-+|++.-.+. .+.|| +.++.--..+|.-...++.|+.-|+++.+
T Consensus       293 e~vlk~---ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e  369 (504)
T KOG0624|consen  293 EKVLKN---EPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALE  369 (504)
T ss_pred             HHHHhc---CCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh
Confidence            554432   232     123344455566667777777766665 55555 66666666777777777777777777777


Q ss_pred             cCCCChh
Q 043490          411 LEPGDSL  417 (589)
Q Consensus       411 ~~p~~~~  417 (589)
                      .++++..
T Consensus       370 ~n~sn~~  376 (504)
T KOG0624|consen  370 LNESNTR  376 (504)
T ss_pred             cCcccHH
Confidence            7766544

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.78  E-value=1.8e-05  Score=72.42  Aligned_cols=283  Identities=13%  Similarity=0.095  Sum_probs=161.1

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--CCcchHHH-HHHHHH
Q 043490            8 YATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--RNVVSWTA-LISGYA   84 (589)
Q Consensus         8 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~~~~~~~~-li~~~~   84 (589)
                      +.+.+..+.+..++..|.++...-.+..|   .+....+.|...|-...++..|-..++++..  |...-|.. -...+-
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p---~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSP---RSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLY   89 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCc---cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHH
Confidence            44555555666677777777766555433   4556666666677777777777777776653  33333322 234455


Q ss_pred             hCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhcCCHHHHHHHHhhCC
Q 043490           85 QHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSKSCADEAWKVFENME  164 (589)
Q Consensus        85 ~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~g~~~~A~~lf~~m~  164 (589)
                      +.+.+.+|+++...|...                    ..++...++.         .+. -.|..+++..++.+.++.+
T Consensus        90 ~A~i~ADALrV~~~~~D~--------------------~~L~~~~lqL---------qaA-IkYse~Dl~g~rsLveQlp  139 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDN--------------------PALHSRVLQL---------QAA-IKYSEGDLPGSRSLVEQLP  139 (459)
T ss_pred             HhcccHHHHHHHHHhcCC--------------------HHHHHHHHHH---------HHH-HhcccccCcchHHHHHhcc
Confidence            667777777777666542                    0111111100         000 1233477777888888877


Q ss_pred             C-CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHH
Q 043490          165 F-RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIA  243 (589)
Q Consensus       165 ~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~  243 (589)
                      . .+..+-+...-..             -+.|++++|++-|+...+-+--.....|+..+.. .+.++.+.|.....+++
T Consensus       140 ~en~Ad~~in~gCll-------------ykegqyEaAvqkFqaAlqvsGyqpllAYniALaH-y~~~qyasALk~iSEIi  205 (459)
T KOG4340|consen  140 SENEADGQINLGCLL-------------YKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAH-YSSRQYASALKHISEII  205 (459)
T ss_pred             CCCccchhccchhee-------------eccccHHHHHHHHHHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHH
Confidence            3 4444433333233             6778888888888877664433345567766644 45677888888888887


Q ss_pred             HhCCCC-------------c---------------HHHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CChhHHHHHHH
Q 043490          244 KYGFED-------------D---------------TVIANALIHAYARCGSISLSKQVFDKMTY-----HDLVSWNSILK  290 (589)
Q Consensus       244 ~~g~~~-------------~---------------~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~  290 (589)
                      ++|++.             |               +..+|.-...+.+.|+.+.|.+.+-.|+.     -|++|...+.-
T Consensus       206 eRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al  285 (459)
T KOG4340|consen  206 ERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQAL  285 (459)
T ss_pred             HhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHH
Confidence            776532             1               11122223345566777777777777763     35555554432


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHH
Q 043490          291 AYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFH  338 (589)
Q Consensus       291 ~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~  338 (589)
                      .-. .+++.+..+-++-+ ++.|- ..||..++-.||+..-++.|-.++.
T Consensus       286 ~n~-~~~p~~g~~KLqFLL~~nPfP~ETFANlLllyCKNeyf~lAADvLA  334 (459)
T KOG4340|consen  286 MNM-DARPTEGFEKLQFLLQQNPFPPETFANLLLLYCKNEYFDLAADVLA  334 (459)
T ss_pred             hcc-cCCccccHHHHHHHHhcCCCChHHHHHHHHHHhhhHHHhHHHHHHh
Confidence            211 23333333333333 45553 3577777777777777777766654

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

Probab=98.77  E-value=4e-06  Score=86.38  Aligned_cols=262  Identities=12%  Similarity=0.087  Sum_probs=179.5

Q ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcC----
Q 043490          191 FAKMKNEEEALFLFRQLQREGMAPDWC-TFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCG----  265 (589)
Q Consensus       191 ~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g----  265 (589)
                      +...|++++|++.+.+-..  ..+|.. .+......+.+.|+.++|..++..+++.+ |.+..-|..|..+..-..    
T Consensus        14 l~e~g~~~~AL~~L~~~~~--~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~~~~   90 (517)
T PF12569_consen   14 LEEAGDYEEALEHLEKNEK--QILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQLSD   90 (517)
T ss_pred             HHHCCCHHHHHHHHHhhhh--hCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhccccc
Confidence            3788999999999977544  345554 45556667799999999999999999997 666667777777663332    


Q ss_pred             -CHHHHHHHHhhcCC--CChhHHHHHHHHHHHcCCHHH-HHHHHHhC---CCCCCHHHHHHHHHHHhccCcHHHHHHHHH
Q 043490          266 -SISLSKQVFDKMTY--HDLVSWNSILKAYALHGQAKE-ALQLFSNM---NVQPDSATFVSLLSACSHAGLVQEGNKVFH  338 (589)
Q Consensus       266 -~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~-A~~~~~~m---~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  338 (589)
                       +.+....+|+++..  |...+...+.-.+.....+.. +...+..+   |++   .+|+.|-..|......+-..+++.
T Consensus        91 ~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~l~~  167 (517)
T PF12569_consen   91 EDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIESLVE  167 (517)
T ss_pred             ccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHHHHH
Confidence             56777788887752  221222122222222222222 22333333   543   345555555555555555555555


Q ss_pred             HhHHhc---C-C---------ccCcc--hHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHH
Q 043490          339 SMLENH---G-V---------VPQLD--HYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLA  401 (589)
Q Consensus       339 ~~~~~~---~-~---------~p~~~--~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a  401 (589)
                      ......   + +         .|...  ++..+...|-..|++++|++++++. ...|+ +..|..-...+.+.|++++|
T Consensus       168 ~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~~A  247 (517)
T PF12569_consen  168 EYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDLKEA  247 (517)
T ss_pred             HHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHHHH
Confidence            543321   1 1         12222  4456678889999999999999987 66777 77888888999999999999


Q ss_pred             HHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCCccCC-----ceeeEEE
Q 043490          402 ELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYP-----GLSWIEI  458 (589)
Q Consensus       402 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~-----~~s~~~~  458 (589)
                      ....+.+.++++.|...-+-.+..+.++|+.++|.+++......+..+..     .+.|.++
T Consensus       248 a~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~  309 (517)
T PF12569_consen  248 AEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFET  309 (517)
T ss_pred             HHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHH
Confidence            99999999999989888888889999999999999999998877753332     3567653

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 [], [].

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

Probab=98.75  E-value=2e-07  Score=92.59  Aligned_cols=216  Identities=13%  Similarity=0.080  Sum_probs=173.3

Q ss_pred             hCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCCHHHHHH
Q 043490          227 AGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY---HDLVSWNSILKAYALHGQAKEALQ  303 (589)
Q Consensus       227 ~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~  303 (589)
                      .+.|++.+|.-.|+..++.. |.+...|.-|.......++-..|+..+.+..+   .|....-+|...|...|.-.+|+.
T Consensus       296 m~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~  374 (579)
T KOG1125|consen  296 MKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALK  374 (579)
T ss_pred             HhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHH
Confidence            56788888888888888776 77888898898888888888888888888763   355677778888899999889998


Q ss_pred             HHHhC-CCCCCHH---------HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHH
Q 043490          304 LFSNM-NVQPDSA---------TFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLI  373 (589)
Q Consensus       304 ~~~~m-~~~p~~~---------t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  373 (589)
                      .++.- ...|-..         .+..- ........+....++|-.+....+.++|..++..|.-.|--.|.+++|.+-|
T Consensus       375 ~L~~Wi~~~p~y~~l~~a~~~~~~~~~-~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf  453 (579)
T KOG1125|consen  375 MLDKWIRNKPKYVHLVSAGENEDFENT-KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCF  453 (579)
T ss_pred             HHHHHHHhCccchhccccCccccccCC-cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHH
Confidence            88776 2221100         00000 1222334455667777777666676688889999999999999999999999


Q ss_pred             HhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          374 REM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       374 ~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      +.+ .++|+ ...||-|...++...+.++|+..|++++++.|.-..+...|.-.|...|.+++|.+.|-....
T Consensus       454 ~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  454 EAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            988 77885 889999999999999999999999999999999999999999999999999999998876553

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.75  E-value=2.2e-07  Score=89.08  Aligned_cols=242  Identities=11%  Similarity=-0.008  Sum_probs=157.6

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSK  271 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~  271 (589)
                      .-.|++..++.-.+ .....-..+..+...+.+++...|..+.+   ...+.+.. .|.......+...+...++-+.+.
T Consensus        12 fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~v---l~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l   86 (290)
T PF04733_consen   12 FYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSV---LSEIKKSS-SPELQAVRLLAEYLSSPSDKESAL   86 (290)
T ss_dssp             HCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHH---HHHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHH
T ss_pred             HHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHH---HHHhccCC-ChhHHHHHHHHHHHhCccchHHHH
Confidence            34577777765444 22221122334455666777777776543   33443433 666666655554444335566666


Q ss_pred             HHHhhcC-CC---ChhHHHH-HHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCC
Q 043490          272 QVFDKMT-YH---DLVSWNS-ILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGV  346 (589)
Q Consensus       272 ~~~~~~~-~~---~~~~~~~-li~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  346 (589)
                      .-++... .+   +-.++.. ....+...|++++|++++.+-   .+.......+..+.+.++++.|.+.++.|.   .+
T Consensus        87 ~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~---~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~---~~  160 (290)
T PF04733_consen   87 EELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG---GSLELLALAVQILLKMNRPDLAEKELKNMQ---QI  160 (290)
T ss_dssp             HHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT---TCHHHHHHHHHHHHHTT-HHHHHHHHHHHH---CC
T ss_pred             HHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc---CcccHHHHHHHHHHHcCCHHHHHHHHHHHH---hc
Confidence            6665443 22   1122222 223455679999999888764   445666777888999999999999999985   33


Q ss_pred             ccCcchHHHHHHHHh----hcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHH
Q 043490          347 VPQLDHYACMVDLLG----RVGRILEAEKLIREM--PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFV  420 (589)
Q Consensus       347 ~p~~~~~~~li~~~~----~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  420 (589)
                      ..| .+...+..++.    -.+.+.+|..+|+++  ...+++.+.+.+..+....|++++|+.++++..+.+|.++.+..
T Consensus       161 ~eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~La  239 (290)
T PF04733_consen  161 DED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLA  239 (290)
T ss_dssp             SCC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHH
T ss_pred             CCc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHH
Confidence            344 33444444433    334799999999999  44578889999999999999999999999999999999999999


Q ss_pred             HHHHHhhhcCCh-HHHHHHHHHHhcC
Q 043490          421 QMSNIYCLSGSF-NKARLIRKEMKGS  445 (589)
Q Consensus       421 ~l~~~~~~~g~~-~~a~~~~~~m~~~  445 (589)
                      .++-+....|+. +.+.+.+..++..
T Consensus       240 Nliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  240 NLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             HHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            999999999998 6678888887753

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.

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

Probab=98.72  E-value=0.00019  Score=74.18  Aligned_cols=391  Identities=17%  Similarity=0.144  Sum_probs=234.9

Q ss_pred             CCChhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC----CCcchHH
Q 043490            2 LHSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK----RNVVSWT   77 (589)
Q Consensus         2 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~----~~~~~~~   77 (589)
                      .-|+..|..|-=+....|+++.+-+.|++.....-   .....|+.+...|..+|.-..|..+.++-..    |+..+--
T Consensus       320 qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~---~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~  396 (799)
T KOG4162|consen  320 QNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSF---GEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVL  396 (799)
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh---hhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHH
Confidence            45778888888888999999999999999887622   4677899999999999999999999986542    3333333


Q ss_pred             HHHH-HHH-hCCChhHHHHHHHHHHhc-------cCCCceeHHHHHHHhc-------------hhhHHHHHHHHHHhc-C
Q 043490           78 ALIS-GYA-QHGNAEECFRLFCSLLQY-------FFPNEFSLASVLISCD-------------YLHGKLVHALALKFS-L  134 (589)
Q Consensus        78 ~li~-~~~-~~g~~~~A~~~~~~m~~~-------~~p~~~t~~~~l~a~~-------------~~~~~~~~~~~~~~g-~  134 (589)
                      .|+. .|. +.+..++++..-.+....       ..|-..-+..+-....             -..+.+..+.+++.+ -
T Consensus       397 Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~  476 (799)
T KOG4162|consen  397 LMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPT  476 (799)
T ss_pred             HHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC
Confidence            3332 233 346667766665555542       3333322222211111             122333333343333 2


Q ss_pred             CCchhHHHHHHHHHhc-CCHHHHHHHHhhCC----CCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 043490          135 DAHVYVANALINMYSK-SCADEAWKVFENME----FRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQR  209 (589)
Q Consensus       135 ~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~  209 (589)
                      +|++..|-++  -|+. ++++.|.....+..    .-+...|.-+.-.+             ...+++.+|+.+.+....
T Consensus       477 dp~~if~lal--q~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvl-------------Sa~kr~~~Al~vvd~al~  541 (799)
T KOG4162|consen  477 DPLVIFYLAL--QYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVL-------------SAQKRLKEALDVVDAALE  541 (799)
T ss_pred             CchHHHHHHH--HHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHH-------------hhhhhhHHHHHHHHHHHH
Confidence            3433333333  3556 88888877766543    45788999888888             444555555554443322


Q ss_pred             c-CC------------------CCCHHHHHHHHHHHhCcCcHHHHHHHHHHHH----HhCC-------CCcHHHHHHHHH
Q 043490          210 E-GM------------------APDWCTFSIVLKACAGLVTERHASAVHSLIA----KYGF-------EDDTVIANALIH  259 (589)
Q Consensus       210 ~-g~------------------~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~----~~g~-------~~~~~~~~~li~  259 (589)
                      . |.                  .--..|...++..+-..-.   +.+..++..    +.|+       .....++..+..
T Consensus       542 E~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~---~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~  618 (799)
T KOG4162|consen  542 EFGDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYG---VQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSS  618 (799)
T ss_pred             HhhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhh---HhhhhhhhhhhhhhcccccCcccccccchhhHHHHH
Confidence            1 10                  0001122222222111100   000000110    1111       111223332222


Q ss_pred             HHH---hcCCHHHHHHHHhhcCCCC------hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccC
Q 043490          260 AYA---RCGSISLSKQVFDKMTYHD------LVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAG  328 (589)
Q Consensus       260 ~~~---~~g~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g  328 (589)
                      ...   +.-..+.....+...+.|+      ...|......+.+.+..++|...+.+. ++.|- ...|......+...|
T Consensus       619 l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~~l~~~~~~~~G~~~~~~~  698 (799)
T KOG4162|consen  619 LVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKIDPLSASVYYLRGLLLEVKG  698 (799)
T ss_pred             HHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcchhhHHHHHHhhHHHHHHH
Confidence            221   1111112222222222333      235667777888999999999999888 77764 446666667777889


Q ss_pred             cHHHHHHHHHHhHHhcCCccC-cchHHHHHHHHhhcCCHHHHHH--HHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHH
Q 043490          329 LVQEGNKVFHSMLENHGVVPQ-LDHYACMVDLLGRVGRILEAEK--LIREM-PMEPD-SVIWSVLLGSCRKHGETRLAEL  403 (589)
Q Consensus       329 ~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~--~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~  403 (589)
                      ..++|.+.|....   -+.|+ +....++..++.+.|+..-|..  ++..+ .+.|+ ...|-.+...+.+.|+.+.|..
T Consensus       699 ~~~EA~~af~~Al---~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aae  775 (799)
T KOG4162|consen  699 QLEEAKEAFLVAL---ALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAE  775 (799)
T ss_pred             hhHHHHHHHHHHH---hcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHH
Confidence            9999999998765   56774 5578889999999998777766  88777 66775 8999999999999999999999


Q ss_pred             HHHHHhhcCCCCh
Q 043490          404 AATKLKQLEPGDS  416 (589)
Q Consensus       404 ~~~~~~~~~p~~~  416 (589)
                      .|....++++.+|
T Consensus       776 cf~aa~qLe~S~P  788 (799)
T KOG4162|consen  776 CFQAALQLEESNP  788 (799)
T ss_pred             HHHHHHhhccCCC
Confidence            9999999886554

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.70  E-value=7.7e-05  Score=77.23  Aligned_cols=360  Identities=13%  Similarity=0.134  Sum_probs=211.0

Q ss_pred             ChhHHHHHHH--HHHhcCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHHhc----------cCCCce
Q 043490           41 DLFVTNHLIN--MYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQY----------FFPNEF  108 (589)
Q Consensus        41 ~~~~~~~li~--~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----------~~p~~~  108 (589)
                      |..+-.++++  .|..-|++|.|.+-.+-+.  +-..|..|.+.+++..+.+-|.-.+-.|...          ..|+..
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~Ik--S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~e~  802 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIK--SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGEED  802 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHh--hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCcch
Confidence            4444444443  3444566666655554443  3345666666666655555554444444221          112211


Q ss_pred             eH-HHHHHH-hc-hhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCCC-ChhHHHHHHHHHHcCCc
Q 043490          109 SL-ASVLIS-CD-YLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEFR-NVISWNSMIAAFRACKL  183 (589)
Q Consensus       109 t~-~~~l~a-~~-~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~~-~~~~~~~li~~~~~~g~  183 (589)
                      .- .++|.. .. ++.++.++....+.         ..|=..|.. |.+++|.++-+.=..- =-.||..-..-+-.+++
T Consensus       803 eakvAvLAieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~D  873 (1416)
T KOG3617|consen  803 EAKVAVLAIELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRD  873 (1416)
T ss_pred             hhHHHHHHHHHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhcc
Confidence            11 111111 11 55555555554433         233345666 9999998876543321 11345555555666788


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHc--------CCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHH
Q 043490          184 EAQAIELFAKMKNEEEALFLFRQLQRE--------GMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIAN  255 (589)
Q Consensus       184 ~~~a~~~~~~~g~~~~A~~~~~~m~~~--------g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~  255 (589)
                      .+.|++.|.+.|..  |.++++-+.+.        .-..|...|.....-....|+.+.|..+|..+..         |-
T Consensus       874 i~~AleyyEK~~~h--afev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~f  942 (1416)
T KOG3617|consen  874 IEAALEYYEKAGVH--AFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YF  942 (1416)
T ss_pred             HHHHHHHHHhcCCh--HHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hh
Confidence            99999999888754  34444333221        1134556666677777888999999999987654         44


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc--------
Q 043490          256 ALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHA--------  327 (589)
Q Consensus       256 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~--------  327 (589)
                      +++...+-.|+.++|-++-++  ..|..+...+...|-..|++.+|...|.+.      .+|...|+.|-..        
T Consensus       943 s~VrI~C~qGk~~kAa~iA~e--sgd~AAcYhlaR~YEn~g~v~~Av~FfTrA------qafsnAIRlcKEnd~~d~L~n 1014 (1416)
T KOG3617|consen  943 SMVRIKCIQGKTDKAARIAEE--SGDKAACYHLARMYENDGDVVKAVKFFTRA------QAFSNAIRLCKENDMKDRLAN 1014 (1416)
T ss_pred             hheeeEeeccCchHHHHHHHh--cccHHHHHHHHHHhhhhHHHHHHHHHHHHH------HHHHHHHHHHHhcCHHHHHHH
Confidence            667777778999988887765  356777778889999999999999999876      3344444333322        


Q ss_pred             -------CcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-----------CC--CCCHHHHHH
Q 043490          328 -------GLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-----------PM--EPDSVIWSV  387 (589)
Q Consensus       328 -------g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-----------~~--~p~~~~~~~  387 (589)
                             .+.-.|-++|++.    |..     ...-+..|-++|.+.+|+++-=+-           .+  ..|+...+.
T Consensus      1015 lal~s~~~d~v~aArYyEe~----g~~-----~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~R 1085 (1416)
T KOG3617|consen 1015 LALMSGGSDLVSAARYYEEL----GGY-----AHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRR 1085 (1416)
T ss_pred             HHhhcCchhHHHHHHHHHHc----chh-----hhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHH
Confidence                   2334455555543    211     223456788888888888763221           12  235666666


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhh----------------------cCCC-----C----hhHHHHHHHHhhhcCChHHHH
Q 043490          388 LLGSCRKHGETRLAELAATKLKQ----------------------LEPG-----D----SLGFVQMSNIYCLSGSFNKAR  436 (589)
Q Consensus       388 ll~~~~~~g~~~~a~~~~~~~~~----------------------~~p~-----~----~~~~~~l~~~~~~~g~~~~a~  436 (589)
                      -..-+..+.++++|..++-...+                      +.|.     +    ......++..|.++|.+..|-
T Consensus      1086 cadFF~~~~qyekAV~lL~~ar~~~~AlqlC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~At 1165 (1416)
T KOG3617|consen 1086 CADFFENNQQYEKAVNLLCLAREFSGALQLCKNRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAAT 1165 (1416)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHH
Confidence            66666777777777666543321                      1111     1    234667888899999888776


Q ss_pred             HHH
Q 043490          437 LIR  439 (589)
Q Consensus       437 ~~~  439 (589)
                      +-|
T Consensus      1166 KKf 1168 (1416)
T KOG3617|consen 1166 KKF 1168 (1416)
T ss_pred             HHH
Confidence            655

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.69  E-value=0.00014  Score=72.21  Aligned_cols=388  Identities=13%  Similarity=0.030  Sum_probs=216.4

Q ss_pred             HHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--CC-cchHHHHHHHHHhCCCh
Q 043490           13 HACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--RN-VVSWTALISGYAQHGNA   89 (589)
Q Consensus        13 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~~-~~~~~~li~~~~~~g~~   89 (589)
                      .+....|+++.|...|...+...|   ++...|+.-..+|++.|++++|.+=-.+-.+  |+ .-.|+-...++.-.|++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~p---~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~   86 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLSP---TNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDY   86 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccCC---CccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccH
Confidence            455678999999999999998777   8999999999999999999998875555443  44 34788899999999999


Q ss_pred             hHHHHHHHHHHhccCCCceeHHHHHHHhchhh-------HHHHHHHHH----HhcCCCchhHHHHHHHHH----------
Q 043490           90 EECFRLFCSLLQYFFPNEFSLASVLISCDYLH-------GKLVHALAL----KFSLDAHVYVANALINMY----------  148 (589)
Q Consensus        90 ~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~-------~~~~~~~~~----~~g~~~~~~~~~~li~~y----------  148 (589)
                      ++|+.-|.+-++....|...+..+..+.....       .-.+|.-+.    ..+.. ....|..++..+          
T Consensus        87 ~eA~~ay~~GL~~d~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~-~~~~~~~~l~~~~~~p~~l~~~  165 (539)
T KOG0548|consen   87 EEAILAYSEGLEKDPSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSL-SDPAYVKILEIIQKNPTSLKLY  165 (539)
T ss_pred             HHHHHHHHHHhhcCCchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhh-ccHHHHHHHHHhhcCcHhhhcc
Confidence            99999999887753333333333333332000       000111000    00000 001112222211          


Q ss_pred             hc-CCHHHHHHHHhhCC----------------CC------------Ch----------hHHHHHHHHHHcCCcHHHHHH
Q 043490          149 SK-SCADEAWKVFENME----------------FR------------NV----------ISWNSMIAAFRACKLEAQAIE  189 (589)
Q Consensus       149 ~~-g~~~~A~~lf~~m~----------------~~------------~~----------~~~~~li~~~~~~g~~~~a~~  189 (589)
                      .. .++..|...+....                .|            |.          .-.-.+.++.           
T Consensus       166 l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaa-----------  234 (539)
T KOG0548|consen  166 LNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAA-----------  234 (539)
T ss_pred             cccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHH-----------
Confidence            11 11222222221110                01            00          0011222222           


Q ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHH-------HHHHHHHH
Q 043490          190 LFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIA-------NALIHAYA  262 (589)
Q Consensus       190 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~-------~~li~~~~  262 (589)
                        -+..++..|++-+.......  -+..-++..-.++...|........-...++.|-. ...-|       ..+...|.
T Consensus       235 --ykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~  309 (539)
T KOG0548|consen  235 --YKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYT  309 (539)
T ss_pred             --HHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhh
Confidence              44455566666666555432  22223333344456666555555554444444411 11111       12334666


Q ss_pred             hcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHh
Q 043490          263 RCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDSA-TFVSLLSACSHAGLVQEGNKVFHSM  340 (589)
Q Consensus       263 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~  340 (589)
                      +.++++.|...|.+...+...     -....+....++++...+.. -+.|+.. -.-.-.+.+.+.|++..|.+.|.++
T Consensus       310 k~~~~~~ai~~~~kaLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteA  384 (539)
T KOG0548|consen  310 KREDYEGAIKYYQKALTEHRT-----PDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEA  384 (539)
T ss_pred             hHHhHHHHHHHHHHHhhhhcC-----HHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHH
Confidence            667777777777765421110     01112233445555555544 4444432 1222355677788888888888888


Q ss_pred             HHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhH
Q 043490          341 LENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLG  418 (589)
Q Consensus       341 ~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  418 (589)
                      +++.  +-|...|....-+|.+.|.+..|++-.+.. ...|+ ...|..=..++....+++.|.+.|++.++.+|.+...
T Consensus       385 Ikr~--P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp~~~e~  462 (539)
T KOG0548|consen  385 IKRD--PEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELDPSNAEA  462 (539)
T ss_pred             HhcC--CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhHHH
Confidence            7642  336778888888888888888888766555 44555 4455555566666678888888888888888876655


Q ss_pred             HHHHHHHhh
Q 043490          419 FVQMSNIYC  427 (589)
Q Consensus       419 ~~~l~~~~~  427 (589)
                      ...+.+++.
T Consensus       463 ~~~~~rc~~  471 (539)
T KOG0548|consen  463 IDGYRRCVE  471 (539)
T ss_pred             HHHHHHHHH
Confidence            444444443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.68  E-value=0.00012  Score=68.66  Aligned_cols=414  Identities=15%  Similarity=0.133  Sum_probs=224.8

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCChhH
Q 043490           12 FHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEE   91 (589)
Q Consensus        12 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~   91 (589)
                      ...+-..|++++|...+..+.....   ++..++-.|.-.+.-.|.+.+|..+-.+.++ ++..-..|...--+.|+-++
T Consensus        64 a~C~fhLgdY~~Al~~Y~~~~~~~~---~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k-~pL~~RLlfhlahklndEk~  139 (557)
T KOG3785|consen   64 AHCYFHLGDYEEALNVYTFLMNKDD---APAELGVNLACCKFYLGQYIEAKSIAEKAPK-TPLCIRLLFHLAHKLNDEKR  139 (557)
T ss_pred             HHHHHhhccHHHHHHHHHHHhccCC---CCcccchhHHHHHHHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHhCcHHH
Confidence            3455588999999999998887633   5666777777777778999999998887763 11111122222223333333


Q ss_pred             HHHHHHHHHhccCCCceeHHHHHHHhc-hhhHHHHHHHHHHhcCCCchhHHHHH-HHHHhc-CCHHHHHHHHhhCCC--C
Q 043490           92 CFRLFCSLLQYFFPNEFSLASVLISCD-YLHGKLVHALALKFSLDAHVYVANAL-INMYSK-SCADEAWKVFENMEF--R  166 (589)
Q Consensus        92 A~~~~~~m~~~~~p~~~t~~~~l~a~~-~~~~~~~~~~~~~~g~~~~~~~~~~l-i~~y~~-g~~~~A~~lf~~m~~--~  166 (589)
                      -..+-..+... ..|..+..++-..-. .+++-.+...++..  .|+-...|.- .-+|.| .-++-+.++++--.+  |
T Consensus       140 ~~~fh~~LqD~-~EdqLSLAsvhYmR~HYQeAIdvYkrvL~d--n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~p  216 (557)
T KOG3785|consen  140 ILTFHSSLQDT-LEDQLSLASVHYMRMHYQEAIDVYKRVLQD--NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFP  216 (557)
T ss_pred             HHHHHHHHhhh-HHHHHhHHHHHHHHHHHHHHHHHHHHHHhc--ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCC
Confidence            32222222211 111111111111111 22233333332221  1222222221 123444 444444444433221  2


Q ss_pred             C-hhHHHHHHHHHHc--CCcHHHH-HHHHHHc-------------------CCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 043490          167 N-VISWNSMIAAFRA--CKLEAQA-IELFAKM-------------------KNEEEALFLFRQLQREGMAPDWCTFSIVL  223 (589)
Q Consensus       167 ~-~~~~~~li~~~~~--~g~~~~a-~~~~~~~-------------------g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  223 (589)
                      | +..-|.......+  .|+..++ .+-++.+                   ..-+.|++++-.+...  .|..  -..++
T Consensus       217 dStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~--IPEA--RlNL~  292 (557)
T KOG3785|consen  217 DSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKH--IPEA--RLNLI  292 (557)
T ss_pred             CcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhh--ChHh--hhhhe
Confidence            2 1222222111111  1111111 0111111                   2345667666555442  2322  22334


Q ss_pred             HHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHH-----HHHhcCCHHHHHHHHhhcCC-----CChhHHHHHHHHHH
Q 043490          224 KACAGLVTERHASAVHSLIAKYGFEDDTVIANALIH-----AYARCGSISLSKQVFDKMTY-----HDLVSWNSILKAYA  293 (589)
Q Consensus       224 ~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~-----~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~  293 (589)
                      --+.+.+++.+|..+.+.+.-  ..|-..+...++.     -......+.-|.+.|+-.-+     .++.--.+|.+.+.
T Consensus       293 iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fF  370 (557)
T KOG3785|consen  293 IYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFF  370 (557)
T ss_pred             eeecccccHHHHHHHHhhcCC--CChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHH
Confidence            456788999999887765421  1222222222222     22222335667777776542     23345667888888


Q ss_pred             HcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCc-cCcchHHH-HHHHHhhcCCHHHH
Q 043490          294 LHGQAKEALQLFSNM-N-VQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVV-PQLDHYAC-MVDLLGRVGRILEA  369 (589)
Q Consensus       294 ~~g~~~~A~~~~~~m-~-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~-p~~~~~~~-li~~~~~~g~~~~A  369 (589)
                      -..++++.+-.+... . ...|..--..+..|.+..|.+.+|+++|-.+.   |.+ .|..+|.+ |...|.+++..+-|
T Consensus       371 L~~qFddVl~YlnSi~sYF~NdD~Fn~N~AQAk~atgny~eaEelf~~is---~~~ikn~~~Y~s~LArCyi~nkkP~lA  447 (557)
T KOG3785|consen  371 LSFQFDDVLTYLNSIESYFTNDDDFNLNLAQAKLATGNYVEAEELFIRIS---GPEIKNKILYKSMLARCYIRNKKPQLA  447 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCcchhhhHHHHHHHHhcChHHHHHHHhhhc---ChhhhhhHHHHHHHHHHHHhcCCchHH
Confidence            888899999888887 2 22233333357789999999999999997763   322 34556654 56789999999999


Q ss_pred             HHHHHhCCCCCCHHHHH-HHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCCc
Q 043490          370 EKLIREMPMEPDSVIWS-VLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVR  448 (589)
Q Consensus       370 ~~~~~~m~~~p~~~~~~-~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  448 (589)
                      .+++-++.-..+..+.- .+..-|.+.+.+--|-+.|..+..++| ++..|         .|+-....-+|..+..+.-+
T Consensus       448 W~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP-~pEnW---------eGKRGACaG~f~~l~~~~~~  517 (557)
T KOG3785|consen  448 WDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDP-TPENW---------EGKRGACAGLFRQLANHKTD  517 (557)
T ss_pred             HHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCC-Ccccc---------CCccchHHHHHHHHHcCCCC
Confidence            99999986334444443 445679999999999999999999998 44433         34444455666666555444


Q ss_pred             cCC
Q 043490          449 KYP  451 (589)
Q Consensus       449 ~~~  451 (589)
                      |.|
T Consensus       518 ~~p  520 (557)
T KOG3785|consen  518 PIP  520 (557)
T ss_pred             CCc
Confidence            444

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

Probab=98.67  E-value=4.2e-05  Score=77.04  Aligned_cols=253  Identities=11%  Similarity=0.014  Sum_probs=159.5

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHH---HHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPDWCTFSI---VLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSIS  268 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~---ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  268 (589)
                      ...|++++|.+++++..+.. +.|...+..   ........+..+.+.+.+.. .....+........+...+...|+++
T Consensus        54 ~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~~~~~~a~~~~~~G~~~  131 (355)
T cd05804          54 WIAGDLPKALALLEQLLDDY-PRDLLALKLHLGAFGLGDFSGMRDHVARVLPL-WAPENPDYWYLLGMLAFGLEEAGQYD  131 (355)
T ss_pred             HHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHHHHhcccccCchhHHHHHhc-cCcCCCCcHHHHHHHHHHHHHcCCHH
Confidence            77899999999999988753 223334332   11111224455555555544 11122333445556777889999999


Q ss_pred             HHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC---CH--HHHHHHHHHHhccCcHHHHHHHHHH
Q 043490          269 LSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQP---DS--ATFVSLLSACSHAGLVQEGNKVFHS  339 (589)
Q Consensus       269 ~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p---~~--~t~~~ll~a~~~~g~~~~a~~~~~~  339 (589)
                      +|...+++..   ..+...+..+...|...|++++|+..+++. ...|   +.  ..|..+...+...|++++|..+++.
T Consensus       132 ~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~  211 (355)
T cd05804         132 RAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDT  211 (355)
T ss_pred             HHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            9999999887   345677888899999999999999999998 4333   32  2355677788899999999999998


Q ss_pred             hHHhcCCccCcchH-H--HHHHHHhhcCCHHHHHHH---HHhC-CCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Q 043490          340 MLENHGVVPQLDHY-A--CMVDLLGRVGRILEAEKL---IREM-PMEP---DSVIWSVLLGSCRKHGETRLAELAATKLK  409 (589)
Q Consensus       340 ~~~~~~~~p~~~~~-~--~li~~~~~~g~~~~A~~~---~~~m-~~~p---~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  409 (589)
                      ........+..... +  .++..+...|..+.+.++   .... +..|   ..........++...|+.+.|...++.+.
T Consensus       212 ~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~  291 (355)
T cd05804         212 HIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALK  291 (355)
T ss_pred             HhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHH
Confidence            74321111111111 1  223333344433222222   1111 1101   12222356677788899999999998886


Q ss_pred             hcCC---------CChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          410 QLEP---------GDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       410 ~~~p---------~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      ....         ...........++...|++++|.+.+.......
T Consensus       292 ~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         292 GRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            5321         123445566777889999999999999887644

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.

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

Probab=98.66  E-value=1.7e-06  Score=93.81  Aligned_cols=199  Identities=13%  Similarity=0.135  Sum_probs=169.1

Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC--------CChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHH
Q 043490          248 EDDTVIANALIHAYARCGSISLSKQVFDKMTY--------HDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDSATFV  318 (589)
Q Consensus       248 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~  318 (589)
                      |.+...|-..|......+++++|++++++...        --...|.+++..-...|.-+...++|++. ..---...|.
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~ 1534 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHL 1534 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHH
Confidence            55677888888888999999999999988762        12357888888888888888999999999 4443445788


Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC---CHHHHHHHHHHHHH
Q 043490          319 SLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP---DSVIWSVLLGSCRK  394 (589)
Q Consensus       319 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p---~~~~~~~ll~~~~~  394 (589)
                      .|...|.+.+..++|.++++.|.++++  -...+|...++.+.+..+-+.|..+++++ ..-|   ......-.+..-.+
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk 1612 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFK 1612 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhh
Confidence            899999999999999999999999887  45668999999999999999999999887 3233   35556666677789


Q ss_pred             cCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCCc
Q 043490          395 HGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVR  448 (589)
Q Consensus       395 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  448 (589)
                      +|+.+++..+|+..+.-.|.-...|...+++-.+.|+.+.++.+|++....++.
T Consensus      1613 ~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~ 1666 (1710)
T KOG1070|consen 1613 YGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLS 1666 (1710)
T ss_pred             cCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCC
Confidence            999999999999999999999999999999999999999999999999988774

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.64  E-value=0.00011  Score=75.22  Aligned_cols=236  Identities=14%  Similarity=0.114  Sum_probs=165.1

Q ss_pred             cCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Q 043490          180 ACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIH  259 (589)
Q Consensus       180 ~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~  259 (589)
                      ..|-+.+.-+-|+..|+++.|.++|.+.-         .++-.|..|.+.|.|+.|.++-.+.  .|-+...+.|-+-..
T Consensus       764 ~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~kla~e~--~~~e~t~~~yiakae  832 (1636)
T KOG3616|consen  764 ASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFKLAEEC--HGPEATISLYIAKAE  832 (1636)
T ss_pred             ccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHHHHHHh--cCchhHHHHHHHhHH
Confidence            34445555555788899999999986532         3556788899999999998876544  343455667777777


Q ss_pred             HHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCC--HHHHHHHHHHHhccCcHHHHHHHH
Q 043490          260 AYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPD--SATFVSLLSACSHAGLVQEGNKVF  337 (589)
Q Consensus       260 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~--~~t~~~ll~a~~~~g~~~~a~~~~  337 (589)
                      -.-+.|++.+|.++|-.+..|+.     -|..|-++|..+..+++.++-  .|+  ..|-..+..-+...|++..|.+.|
T Consensus       833 dldehgkf~eaeqlyiti~~p~~-----aiqmydk~~~~ddmirlv~k~--h~d~l~dt~~~f~~e~e~~g~lkaae~~f  905 (1636)
T KOG3616|consen  833 DLDEHGKFAEAEQLYITIGEPDK-----AIQMYDKHGLDDDMIRLVEKH--HGDHLHDTHKHFAKELEAEGDLKAAEEHF  905 (1636)
T ss_pred             hHHhhcchhhhhheeEEccCchH-----HHHHHHhhCcchHHHHHHHHh--ChhhhhHHHHHHHHHHHhccChhHHHHHH
Confidence            78889999999999999988886     477899999999999998886  333  345666777788899999999888


Q ss_pred             HHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCC-----HHHHHHH------HHHHHHcCCHHHHHH---
Q 043490          338 HSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPD-----SVIWSVL------LGSCRKHGETRLAEL---  403 (589)
Q Consensus       338 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~-----~~~~~~l------l~~~~~~g~~~~a~~---  403 (589)
                      -+..          -|.+-+++|-..+.+++|.++-+.-+ ..|     ...|.--      +..+-++|-.+.|+.   
T Consensus       906 lea~----------d~kaavnmyk~s~lw~dayriakteg-g~n~~k~v~flwaksiggdaavkllnk~gll~~~id~a~  974 (1636)
T KOG3616|consen  906 LEAG----------DFKAAVNMYKASELWEDAYRIAKTEG-GANAEKHVAFLWAKSIGGDAAVKLLNKHGLLEAAIDFAA  974 (1636)
T ss_pred             Hhhh----------hHHHHHHHhhhhhhHHHHHHHHhccc-cccHHHHHHHHHHHhhCcHHHHHHHHhhhhHHHHhhhhh
Confidence            6542          36677899999999999999887653 112     2233211      222344444444433   


Q ss_pred             ----------HHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          404 ----------AATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       404 ----------~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                                +.+...+-  .-+.+..-+..-+...|++++|.+-+-+..+.+
T Consensus       975 d~~afd~afdlari~~k~--k~~~vhlk~a~~ledegk~edaskhyveaikln 1025 (1636)
T KOG3616|consen  975 DNCAFDFAFDLARIAAKD--KMGEVHLKLAMFLEDEGKFEDASKHYVEAIKLN 1025 (1636)
T ss_pred             cccchhhHHHHHHHhhhc--cCccchhHHhhhhhhccchhhhhHhhHHHhhcc
Confidence                      32222221  123456667777888999999988877666544

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.62  E-value=2.1e-06  Score=82.38  Aligned_cols=245  Identities=13%  Similarity=0.104  Sum_probs=161.8

Q ss_pred             CCHHHHHHHHhhCC-CC--ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 043490          151 SCADEAWKVFENME-FR--NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACA  227 (589)
Q Consensus       151 g~~~~A~~lf~~m~-~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  227 (589)
                      |.+..+..-.+.-. .+  +.....-+.++|             ...|+++.++   .++... -.|.......+...+.
T Consensus        15 G~Y~~~i~e~~~~~~~~~~~~e~~~~~~Rs~-------------iAlg~~~~vl---~ei~~~-~~~~l~av~~la~y~~   77 (290)
T PF04733_consen   15 GNYQQCINEASLKSFSPENKLERDFYQYRSY-------------IALGQYDSVL---SEIKKS-SSPELQAVRLLAEYLS   77 (290)
T ss_dssp             T-HHHHCHHHHCHTSTCHHHHHHHHHHHHHH-------------HHTT-HHHHH---HHS-TT-SSCCCHHHHHHHHHHC
T ss_pred             hhHHHHHHHhhccCCCchhHHHHHHHHHHHH-------------HHcCChhHHH---HHhccC-CChhHHHHHHHHHHHh
Confidence            77777765444111 11  223344556777             7777766544   333332 2566666655555554


Q ss_pred             CcCcHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHH
Q 043490          228 GLVTERHASAVHSLIAKYGFE-DDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFS  306 (589)
Q Consensus       228 ~~~~~~~a~~i~~~~~~~g~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  306 (589)
                      ...+-+.+..-+......... .+..+......+|...|++++|++++...  .+.......+..|.+.++++.|.+.++
T Consensus        78 ~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~  155 (290)
T PF04733_consen   78 SPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELK  155 (290)
T ss_dssp             TSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred             CccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHH
Confidence            434444444444333333322 34444455556788899999999999876  567777788999999999999999999


Q ss_pred             hC-CCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC
Q 043490          307 NM-NVQPDSATFVSLLSACSH----AGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP  380 (589)
Q Consensus       307 ~m-~~~p~~~t~~~ll~a~~~----~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p  380 (589)
                      .| ....|.. ...+..++..    ...+.+|..+|+++..+  ..+++.+.+.+.-+....|++++|.+++.+. ...|
T Consensus       156 ~~~~~~eD~~-l~qLa~awv~l~~g~e~~~~A~y~f~El~~~--~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~  232 (290)
T PF04733_consen  156 NMQQIDEDSI-LTQLAEAWVNLATGGEKYQDAFYIFEELSDK--FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDP  232 (290)
T ss_dssp             HHHCCSCCHH-HHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC--S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-C
T ss_pred             HHHhcCCcHH-HHHHHHHHHHHHhCchhHHHHHHHHHHHHhc--cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc
Confidence            99 7766644 4444444432    34689999999998654  4567788899999999999999999999887 4455


Q ss_pred             C-HHHHHHHHHHHHHcCCH-HHHHHHHHHHhhcCCCChh
Q 043490          381 D-SVIWSVLLGSCRKHGET-RLAELAATKLKQLEPGDSL  417 (589)
Q Consensus       381 ~-~~~~~~ll~~~~~~g~~-~~a~~~~~~~~~~~p~~~~  417 (589)
                      + ..+...++......|+. +.+.+.+.++....|..+.
T Consensus       233 ~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~p~h~~  271 (290)
T PF04733_consen  233 NDPDTLANLIVCSLHLGKPTEAAERYLSQLKQSNPNHPL  271 (290)
T ss_dssp             CHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHTTTSHH
T ss_pred             CCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHhCCCChH
Confidence            4 77777888888888887 7788999999999996653

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.

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.60  E-value=9.2e-05  Score=78.29  Aligned_cols=378  Identities=16%  Similarity=0.113  Sum_probs=248.6

Q ss_pred             CCChhHHHHHHHHHHccCCHHHHHHHHHHHHHh-CCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCC-CCCcch----
Q 043490            2 LHSTQIYATLFHACALHGNIKQAMQLHEHMINN-FPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMP-KRNVVS----   75 (589)
Q Consensus         2 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~-~~~~~~----   75 (589)
                      |.|...|+.++.-     .-..-+++.++.+.. +| ...|+.--+.-+.++...+-+.+-+++++++. ++++++    
T Consensus       949 R~D~~LW~~VL~e-----~n~~rRqLiDqVv~tal~-E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~n 1022 (1666)
T KOG0985|consen  949 RSDPDLWAKVLNE-----ENPYRRQLIDQVVQTALP-ETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRN 1022 (1666)
T ss_pred             ccChHHHHHHHhc-----cChHHHHHHHHHHHhcCC-ccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchh
Confidence            3466667766641     223346788888877 43 33566677788899999999999999999875 444443    


Q ss_pred             -HHHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCH
Q 043490           76 -WTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCA  153 (589)
Q Consensus        76 -~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~  153 (589)
                       -|.||-.-.+. +.....+..+++-.--.|+....  .+..-..+++-.++.   +  +..+....+.|+.   . +.+
T Consensus      1023 LQnLLiLtAika-d~trVm~YI~rLdnyDa~~ia~i--ai~~~LyEEAF~ifk---k--f~~n~~A~~VLie---~i~~l 1091 (1666)
T KOG0985|consen 1023 LQNLLILTAIKA-DRTRVMEYINRLDNYDAPDIAEI--AIENQLYEEAFAIFK---K--FDMNVSAIQVLIE---NIGSL 1091 (1666)
T ss_pred             hhhhHHHHHhhc-ChHHHHHHHHHhccCCchhHHHH--HhhhhHHHHHHHHHH---H--hcccHHHHHHHHH---HhhhH
Confidence             34454444444 33445555554432222222111  000000222222222   1  2333333333332   3 788


Q ss_pred             HHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHH
Q 043490          154 DEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTER  233 (589)
Q Consensus       154 ~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~  233 (589)
                      +.|.+.-++..+|  ..|..+..+-.+.|.+.+|++.|.+.                   -|+..|.-++..+.+.|.++
T Consensus      1092 dRA~efAe~~n~p--~vWsqlakAQL~~~~v~dAieSyika-------------------dDps~y~eVi~~a~~~~~~e 1150 (1666)
T KOG0985|consen 1092 DRAYEFAERCNEP--AVWSQLAKAQLQGGLVKDAIESYIKA-------------------DDPSNYLEVIDVASRTGKYE 1150 (1666)
T ss_pred             HHHHHHHHhhCCh--HHHHHHHHHHHhcCchHHHHHHHHhc-------------------CCcHHHHHHHHHHHhcCcHH
Confidence            8888888877765  46889999995555555555555443                   36678899999999999999


Q ss_pred             HHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCC
Q 043490          234 HASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPD  313 (589)
Q Consensus       234 ~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~  313 (589)
                      .-...+..+.+..-+|.  +-+.||-+|++.+++.+-++++.   -||+.....+..-+...|.++.|.-+|..      
T Consensus      1151 dLv~yL~MaRkk~~E~~--id~eLi~AyAkt~rl~elE~fi~---gpN~A~i~~vGdrcf~~~~y~aAkl~y~~------ 1219 (1666)
T KOG0985|consen 1151 DLVKYLLMARKKVREPY--IDSELIFAYAKTNRLTELEEFIA---GPNVANIQQVGDRCFEEKMYEAAKLLYSN------ 1219 (1666)
T ss_pred             HHHHHHHHHHHhhcCcc--chHHHHHHHHHhchHHHHHHHhc---CCCchhHHHHhHHHhhhhhhHHHHHHHHH------
Confidence            99999888777765554  45678999999999988766644   47777777788888888989888877754      


Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHH
Q 043490          314 SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPM--EPDSVIWSVLLGS  391 (589)
Q Consensus       314 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~p~~~~~~~ll~~  391 (589)
                      ...|..|...+...|.++.|..--++.       .+..+|..+-.++...+.+.-|.    --|+  -....-..-|+.-
T Consensus      1220 vSN~a~La~TLV~LgeyQ~AVD~aRKA-------ns~ktWK~VcfaCvd~~EFrlAQ----iCGL~iivhadeLeeli~~ 1288 (1666)
T KOG0985|consen 1220 VSNFAKLASTLVYLGEYQGAVDAARKA-------NSTKTWKEVCFACVDKEEFRLAQ----ICGLNIIVHADELEELIEY 1288 (1666)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHhhhc-------cchhHHHHHHHHHhchhhhhHHH----hcCceEEEehHhHHHHHHH
Confidence            345777777777888888776654432       35567877777777666554332    1132  2345566788999


Q ss_pred             HHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHH
Q 043490          392 CRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRK  440 (589)
Q Consensus       392 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  440 (589)
                      |...|-+++-+.+++..+.++....+.|+-|+-.|++- +.++..+-++
T Consensus      1289 Yq~rGyFeElIsl~Ea~LGLERAHMgmfTELaiLYsky-kp~km~EHl~ 1336 (1666)
T KOG0985|consen 1289 YQDRGYFEELISLLEAGLGLERAHMGMFTELAILYSKY-KPEKMMEHLK 1336 (1666)
T ss_pred             HHhcCcHHHHHHHHHhhhchhHHHHHHHHHHHHHHHhc-CHHHHHHHHH
Confidence            99999999999999999999887888999999999876 3444444333

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.59  E-value=6.7e-05  Score=79.29  Aligned_cols=285  Identities=15%  Similarity=0.189  Sum_probs=194.9

Q ss_pred             CceeHHHHHHHhchhhHHHHHHHHHHhcCC--CchhHHHHHHHHHhc-CCHHHHHHHHhhCC-CCChhH-----HHHHHH
Q 043490          106 NEFSLASVLISCDYLHGKLVHALALKFSLD--AHVYVANALINMYSK-SCADEAWKVFENME-FRNVIS-----WNSMIA  176 (589)
Q Consensus       106 ~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~--~~~~~~~~li~~y~~-g~~~~A~~lf~~m~-~~~~~~-----~~~li~  176 (589)
                      |...|..+|..- -..-+++.+.++..+++  .|+...+.-+.++.. +-..+-.++++++. ++++.+     -|.||-
T Consensus       951 D~~LW~~VL~e~-n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiL 1029 (1666)
T KOG0985|consen  951 DPDLWAKVLNEE-NPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLIL 1029 (1666)
T ss_pred             ChHHHHHHHhcc-ChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHH
Confidence            444444444221 22345566666666653  345555666777777 77778888888765 344333     233333


Q ss_pred             HHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHH
Q 043490          177 AFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANA  256 (589)
Q Consensus       177 ~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~  256 (589)
                      .-              -.-+..+..+..+++..-. .|+      +...+...+-.++|..+|+..     ..+....+.
T Consensus      1030 tA--------------ikad~trVm~YI~rLdnyD-a~~------ia~iai~~~LyEEAF~ifkkf-----~~n~~A~~V 1083 (1666)
T KOG0985|consen 1030 TA--------------IKADRTRVMEYINRLDNYD-APD------IAEIAIENQLYEEAFAIFKKF-----DMNVSAIQV 1083 (1666)
T ss_pred             HH--------------hhcChHHHHHHHHHhccCC-chh------HHHHHhhhhHHHHHHHHHHHh-----cccHHHHHH
Confidence            32              2233445555555554322 122      223344556678888888653     445666666


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHH
Q 043490          257 LIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKV  336 (589)
Q Consensus       257 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~~~  336 (589)
                      |++   ..+.++.|.+.-++..+|  ..|+.+..+-.+.|...+|++-|-+.   -|+..|..++..+++.|.+++-.++
T Consensus      1084 Lie---~i~~ldRA~efAe~~n~p--~vWsqlakAQL~~~~v~dAieSyika---dDps~y~eVi~~a~~~~~~edLv~y 1155 (1666)
T KOG0985|consen 1084 LIE---NIGSLDRAYEFAERCNEP--AVWSQLAKAQLQGGLVKDAIESYIKA---DDPSNYLEVIDVASRTGKYEDLVKY 1155 (1666)
T ss_pred             HHH---HhhhHHHHHHHHHhhCCh--HHHHHHHHHHHhcCchHHHHHHHHhc---CCcHHHHHHHHHHHhcCcHHHHHHH
Confidence            665   467788888888887655  46889999999999999999999664   4667899999999999999999999


Q ss_pred             HHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCh
Q 043490          337 FHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDS  416 (589)
Q Consensus       337 ~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  416 (589)
                      +....++ .-+|.+.  +.||-+|++.+++.+.++++.    .||..-...+..-|...|.++.|.-++..        .
T Consensus      1156 L~MaRkk-~~E~~id--~eLi~AyAkt~rl~elE~fi~----gpN~A~i~~vGdrcf~~~~y~aAkl~y~~--------v 1220 (1666)
T KOG0985|consen 1156 LLMARKK-VREPYID--SELIFAYAKTNRLTELEEFIA----GPNVANIQQVGDRCFEEKMYEAAKLLYSN--------V 1220 (1666)
T ss_pred             HHHHHHh-hcCccch--HHHHHHHHHhchHHHHHHHhc----CCCchhHHHHhHHHhhhhhhHHHHHHHHH--------h
Confidence            9766443 5556544  589999999999999888876    57877788888899999999998888764        3


Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHH
Q 043490          417 LGFVQMSNIYCLSGSFNKARLIRK  440 (589)
Q Consensus       417 ~~~~~l~~~~~~~g~~~~a~~~~~  440 (589)
                      +.|..|+..+...|.++.|...-+
T Consensus      1221 SN~a~La~TLV~LgeyQ~AVD~aR 1244 (1666)
T KOG0985|consen 1221 SNFAKLASTLVYLGEYQGAVDAAR 1244 (1666)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHhh
Confidence            556667777777777776665443

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.59  E-value=0.0007  Score=68.85  Aligned_cols=410  Identities=15%  Similarity=0.130  Sum_probs=208.6

Q ss_pred             HccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC-------------------------
Q 043490           16 ALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK-------------------------   70 (589)
Q Consensus        16 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~-------------------------   70 (589)
                      ...|+.++|....+..++..+   .+.+.|..+.-.+-...++++|++.|.....                         
T Consensus        52 ~~lg~~~ea~~~vr~glr~d~---~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~  128 (700)
T KOG1156|consen   52 NCLGKKEEAYELVRLGLRNDL---KSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGY  128 (700)
T ss_pred             hcccchHHHHHHHHHHhccCc---ccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhH
Confidence            345666666666665555433   4555555555555555666666666654321                         


Q ss_pred             ------------CCcchHHHHHHHHHhCCChhHHHHHHHHHHhc--cCCCceeHHHHHHHh----c-hhhHH--HHHHHH
Q 043490           71 ------------RNVVSWTALISGYAQHGNAEECFRLFCSLLQY--FFPNEFSLASVLISC----D-YLHGK--LVHALA  129 (589)
Q Consensus        71 ------------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~p~~~t~~~~l~a~----~-~~~~~--~~~~~~  129 (589)
                                  ....+|..+.-++--.|+...|..+++...+.  -.|+...+.-...-.    . .+.+.  ......
T Consensus       129 ~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L  208 (700)
T KOG1156|consen  129 LETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHL  208 (700)
T ss_pred             HHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHH
Confidence                        23345666666777778888888888887776  245554443322211    1 11111  111111


Q ss_pred             H--HhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCC--CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHH-HH
Q 043490          130 L--KFSLDAHVYVANALINMYSK-SCADEAWKVFENMEF--RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEAL-FL  203 (589)
Q Consensus       130 ~--~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~-~~  203 (589)
                      .  +..+......-..-.+.+.+ +++++|..++..+..  ||.+.|+-.+....            .+..+.-+++ .+
T Consensus       209 ~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rnPdn~~Yy~~l~~~l------------gk~~d~~~~lk~l  276 (700)
T KOG1156|consen  209 LDNEKQIVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERNPDNLDYYEGLEKAL------------GKIKDMLEALKAL  276 (700)
T ss_pred             HhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhCchhHHHHHHHHHHH------------HHHhhhHHHHHHH
Confidence            1  11111122223344456777 888888888887764  45455544433220            1122222222 33


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHH----HHHHHHhhc--
Q 043490          204 FRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSIS----LSKQVFDKM--  277 (589)
Q Consensus       204 ~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~----~A~~~~~~~--  277 (589)
                      |....+. .+.....-..=++......-.+....++..+.+.|+++   ++..+...|-.-...+    -+..+...+  
T Consensus       277 y~~ls~~-y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~  352 (700)
T KOG1156|consen  277 YAILSEK-YPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSG  352 (700)
T ss_pred             HHHHhhc-CcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhccc
Confidence            3333321 11000000001111111222233444455555556543   2223333232211111    011111111  


Q ss_pred             ------------CCCChhHHH--HHHHHHHHcCCHHHHHHHHHhC-CCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhH
Q 043490          278 ------------TYHDLVSWN--SILKAYALHGQAKEALQLFSNM-NVQPDSA-TFVSLLSACSHAGLVQEGNKVFHSML  341 (589)
Q Consensus       278 ------------~~~~~~~~~--~li~~~~~~g~~~~A~~~~~~m-~~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~  341 (589)
                                  ..|....|.  -++..|-..|+++.|+..++.. +-.|+.+ -|..=.+.+.+.|++++|..++.+..
T Consensus       353 ~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~  432 (700)
T KOG1156|consen  353 TGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQ  432 (700)
T ss_pred             ccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHH
Confidence                        134444454  4667788889999999999888 7777765 45556677888899999999888774


Q ss_pred             HhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCC-C--------HHHHHHH--HHHHHHcCCHHHHHHHHHHHhh
Q 043490          342 ENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEP-D--------SVIWSVL--LGSCRKHGETRLAELAATKLKQ  410 (589)
Q Consensus       342 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p-~--------~~~~~~l--l~~~~~~g~~~~a~~~~~~~~~  410 (589)
                      +-  -.||...-.--..-..++++.++|.++.......- +        .-+|-.+  ..+|.+.|++.+|.+-|..+.+
T Consensus       433 el--D~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~k  510 (700)
T KOG1156|consen  433 EL--DTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIEK  510 (700)
T ss_pred             hc--cchhHHHHHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHHH
Confidence            31  13444433345566678889999888877662111 1        1233333  3567777777777765555432


Q ss_pred             c----------------CCCChhHHHHHHHHhhhcCC-------hHHHHHHHHHHhcCC
Q 043490          411 L----------------EPGDSLGFVQMSNIYCLSGS-------FNKARLIRKEMKGSR  446 (589)
Q Consensus       411 ~----------------~p~~~~~~~~l~~~~~~~g~-------~~~a~~~~~~m~~~~  446 (589)
                      .                ......+|+-|+...-..-.       ...|++++-.|.+..
T Consensus       511 ~~~~~~~dqfDfhtyc~rk~tlrsYv~ll~~~d~L~~~p~y~~Aa~~Ai~iYl~l~d~p  569 (700)
T KOG1156|consen  511 HYKTWSEDQFDFHTYCMRKGTLRSYVELLEWEDNLRSSPYYLRAAKGAIEIYLRLHDSP  569 (700)
T ss_pred             HHHHHhhhhhhHHHHHHhcCcHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcCc
Confidence            1                11234556666554332221       235677777776543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.58  E-value=0.00019  Score=81.92  Aligned_cols=255  Identities=13%  Similarity=0.020  Sum_probs=170.3

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHhCcCcHHHHHHHHHHHHHhCC---CC--cHHHHHHHHHHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPDW----CTFSIVLKACAGLVTERHASAVHSLIAKYGF---ED--DTVIANALIHAYA  262 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~~----~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~---~~--~~~~~~~li~~~~  262 (589)
                      ...|++++|...+++....-...+.    ...+.+...+...|+++.|...+.......-   .+  ...+...+...+.
T Consensus       463 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~  542 (903)
T PRK04841        463 INDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILF  542 (903)
T ss_pred             HhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHH
Confidence            6788999999988887653111222    2344555566789999999999888765311   11  1234566777888


Q ss_pred             hcCCHHHHHHHHhhcCC-------CC----hhHHHHHHHHHHHcCCHHHHHHHHHhC-----CCCCC--HHHHHHHHHHH
Q 043490          263 RCGSISLSKQVFDKMTY-------HD----LVSWNSILKAYALHGQAKEALQLFSNM-----NVQPD--SATFVSLLSAC  324 (589)
Q Consensus       263 ~~g~~~~A~~~~~~~~~-------~~----~~~~~~li~~~~~~g~~~~A~~~~~~m-----~~~p~--~~t~~~ll~a~  324 (589)
                      ..|+++.|...+++...       ++    ...+..+...+...|++++|...+++.     ...|.  ..++..+....
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            99999999998876541       11    223445556677789999999999887     22232  23444456677


Q ss_pred             hccCcHHHHHHHHHHhHHhcCCccCcchH-----HHHHHHHhhcCCHHHHHHHHHhCCC-C-CCH----HHHHHHHHHHH
Q 043490          325 SHAGLVQEGNKVFHSMLENHGVVPQLDHY-----ACMVDLLGRVGRILEAEKLIREMPM-E-PDS----VIWSVLLGSCR  393 (589)
Q Consensus       325 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~-----~~li~~~~~~g~~~~A~~~~~~m~~-~-p~~----~~~~~ll~~~~  393 (589)
                      ...|+.++|.+.+.....-.........+     ...+..+...|+.+.|.+.+..... . ...    ..+..+..++.
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~  702 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQI  702 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHH
Confidence            78999999999988774321111111111     1122445668999999999877621 1 111    12456677788


Q ss_pred             HcCCHHHHHHHHHHHhhcC------CCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          394 KHGETRLAELAATKLKQLE------PGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       394 ~~g~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      ..|+.++|...++++.+..      +....+...+..+|.+.|+.++|...+.+..+..
T Consensus       703 ~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        703 LLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            8999999999999987642      1123467788889999999999999999887543

>PF12854 PPR_1: PPR repeat

Probab=98.57  E-value=1e-07  Score=58.38  Aligned_cols=33  Identities=36%  Similarity=0.653  Sum_probs=25.4

Q ss_pred             CCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC
Q 043490          246 GFEDDTVIANALIHAYARCGSISLSKQVFDKMT  278 (589)
Q Consensus       246 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  278 (589)
                      |++||..+||+||++|++.|++++|.++|++|+
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            667777777777777777777777777777764

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.55  E-value=6.3e-06  Score=77.60  Aligned_cols=179  Identities=10%  Similarity=0.026  Sum_probs=118.8

Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC--CC-h---hHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHH----HH
Q 043490          249 DDTVIANALIHAYARCGSISLSKQVFDKMTY--HD-L---VSWNSILKAYALHGQAKEALQLFSNM-NVQPDSA----TF  317 (589)
Q Consensus       249 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~-~---~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~----t~  317 (589)
                      .....+..+...|.+.|++++|...|+++..  |+ .   .+|..+..+|.+.|++++|+..|+++ ...|+..    ++
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            3455666777778888888888888887652  22 2   35667777888888888888888888 5555332    34


Q ss_pred             HHHHHHHhcc--------CcHHHHHHHHHHhHHhcCCccCcc-hHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHH
Q 043490          318 VSLLSACSHA--------GLVQEGNKVFHSMLENHGVVPQLD-HYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVL  388 (589)
Q Consensus       318 ~~ll~a~~~~--------g~~~~a~~~~~~~~~~~~~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~l  388 (589)
                      ..+..++...        |+.++|.+.|+.+.+.   .|+.. .+..+...    +......           ......+
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~----~~~~~~~-----------~~~~~~~  172 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRM----DYLRNRL-----------AGKELYV  172 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHH----HHHHHHH-----------HHHHHHH
Confidence            4444455443        6677778777777644   34322 11111111    0011000           0111245


Q ss_pred             HHHHHHcCCHHHHHHHHHHHhhcCCCC---hhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          389 LGSCRKHGETRLAELAATKLKQLEPGD---SLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       389 l~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      ...+...|+++.|...++++.+..|++   +..+..++.+|.+.|++++|..+++.+..+
T Consensus       173 a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       173 ARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            567889999999999999999886643   568899999999999999999999988754

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

>PF12854 PPR_1: PPR repeat

Probab=98.54  E-value=1.1e-07  Score=58.20  Aligned_cols=33  Identities=42%  Similarity=0.580  Sum_probs=22.8

Q ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHHhcCC
Q 043490           37 NEPQDLFVTNHLINMYAKFGYLDDARHLFDEMP   69 (589)
Q Consensus        37 ~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~   69 (589)
                      |.+||..+||.||++|++.|++++|.++|++|+
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            445777777777777777777777777777664

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

Probab=98.47  E-value=0.00028  Score=70.97  Aligned_cols=253  Identities=11%  Similarity=-0.029  Sum_probs=159.8

Q ss_pred             HHcCCHHHHHHHHHHHHHcC-CCCCHHHHHH-HHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHH---HHHHHHhcCC
Q 043490          192 AKMKNEEEALFLFRQLQREG-MAPDWCTFSI-VLKACAGLVTERHASAVHSLIAKYGFEDDTVIANA---LIHAYARCGS  266 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~-ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~---li~~~~~~g~  266 (589)
                      ...|+.+++.+-+.+..+.. ..++...... ....+...|+.+.+..+++...+.. |.|...+..   +.......|.
T Consensus        17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~~~~~~~~~~   95 (355)
T cd05804          17 LLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLGAFGLGDFSGM   95 (355)
T ss_pred             HhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHHHHhcccccC
Confidence            66677777666666654432 1233322222 2233467899999999999988874 555555542   2222233566


Q ss_pred             HHHHHHHHhhcCCCC---hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhH
Q 043490          267 ISLSKQVFDKMTYHD---LVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSML  341 (589)
Q Consensus       267 ~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~  341 (589)
                      .+.+.+.++.....+   ...+..+...+...|++++|.+.+++. ...|+ ...+..+...+...|++++|...++...
T Consensus        96 ~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l  175 (355)
T cd05804          96 RDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWR  175 (355)
T ss_pred             chhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhh
Confidence            677777776533222   234455667888999999999999999 66675 4567778888999999999999999876


Q ss_pred             HhcCCccCc--chHHHHHHHHhhcCCHHHHHHHHHhC-CCCC--C-HHHH-H--HHHHHHHHcCCHHHHHHH---HHHHh
Q 043490          342 ENHGVVPQL--DHYACMVDLLGRVGRILEAEKLIREM-PMEP--D-SVIW-S--VLLGSCRKHGETRLAELA---ATKLK  409 (589)
Q Consensus       342 ~~~~~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p--~-~~~~-~--~ll~~~~~~g~~~~a~~~---~~~~~  409 (589)
                      ......|+.  ..|..+...+...|++++|..++++. ...|  . .... +  .++.-+...|..+.+.+.   .....
T Consensus       176 ~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~  255 (355)
T cd05804         176 DTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAA  255 (355)
T ss_pred             hccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHH
Confidence            532222332  23557888899999999999999987 2233  2 1111 1  233334444544333333   22211


Q ss_pred             hcCCC--ChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          410 QLEPG--DSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       410 ~~~p~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      ...|.  ....-...+.++...|+.++|.++++.+...
T Consensus       256 ~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~  293 (355)
T cd05804         256 WHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGR  293 (355)
T ss_pred             hhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHH
Confidence            11121  1222336777888999999999999998753

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.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.46  E-value=0.00091  Score=76.45  Aligned_cols=253  Identities=11%  Similarity=0.022  Sum_probs=163.7

Q ss_pred             HHHhc-CCHHHHHHHHhhCCC----CCh----hHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHc----CC
Q 043490          146 NMYSK-SCADEAWKVFENMEF----RNV----ISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQRE----GM  212 (589)
Q Consensus       146 ~~y~~-g~~~~A~~lf~~m~~----~~~----~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~----g~  212 (589)
                      ..+.. |++++|...+++...    .+.    ..++.+...+             ...|++++|...+.+....    |-
T Consensus       460 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~-------------~~~G~~~~A~~~~~~al~~~~~~g~  526 (903)
T PRK04841        460 QVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVH-------------HCKGELARALAMMQQTEQMARQHDV  526 (903)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHH-------------HHcCCHHHHHHHHHHHHHHHhhhcc
Confidence            34555 999999988877432    222    2334444455             6778888888777776542    11


Q ss_pred             -CCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh----CCC---CcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC-----
Q 043490          213 -APDWCTFSIVLKACAGLVTERHASAVHSLIAKY----GFE---DDTVIANALIHAYARCGSISLSKQVFDKMTY-----  279 (589)
Q Consensus       213 -~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~----g~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----  279 (589)
                       .+...++..+...+...|+++.|...++.....    +..   .....+..+...+...|++++|...++....     
T Consensus       527 ~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~  606 (903)
T PRK04841        527 YHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNY  606 (903)
T ss_pred             hHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhcc
Confidence             111234455566778899999999998876653    221   1233455666777888999999988887641     


Q ss_pred             -C--ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CC---CCCHHHHH-----HHHHHHhccCcHHHHHHHHHHhHHhcCCc
Q 043490          280 -H--DLVSWNSILKAYALHGQAKEALQLFSNM-NV---QPDSATFV-----SLLSACSHAGLVQEGNKVFHSMLENHGVV  347 (589)
Q Consensus       280 -~--~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~---~p~~~t~~-----~ll~a~~~~g~~~~a~~~~~~~~~~~~~~  347 (589)
                       +  ....+..+...+...|+.++|.+.+++. .+   ......+.     ..+..+...|+.+.|.+.+...... . .
T Consensus       607 ~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~-~-~  684 (903)
T PRK04841        607 QPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKP-E-F  684 (903)
T ss_pred             CchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCC-C-C
Confidence             1  1234555667788899999999998887 11   11111111     1123445578999999987665321 1 1


Q ss_pred             cCcc----hHHHHHHHHhhcCCHHHHHHHHHhC-------CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCC
Q 043490          348 PQLD----HYACMVDLLGRVGRILEAEKLIREM-------PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEP  413 (589)
Q Consensus       348 p~~~----~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  413 (589)
                      ....    .+..+..++...|+.++|...+++.       +..++ ..+...+..++...|+.++|...+.++.++..
T Consensus       685 ~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la~  762 (903)
T PRK04841        685 ANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLAN  762 (903)
T ss_pred             ccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhC
Confidence            1111    1345667788899999999998876       22222 34566777888999999999999999988764

>PLN02789 farnesyltranstransferase

Probab=98.45  E-value=5.5e-05  Score=73.64  Aligned_cols=211  Identities=9%  Similarity=0.097  Sum_probs=128.3

Q ss_pred             CcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcC-CHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCH--HHHHH
Q 043490          230 VTERHASAVHSLIAKYGFEDDTVIANALIHAYARCG-SISLSKQVFDKMT---YHDLVSWNSILKAYALHGQA--KEALQ  303 (589)
Q Consensus       230 ~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~--~~A~~  303 (589)
                      +..+.|..+...+++.. +-+..+|+.....+.+.| ++++++..++++.   .++..+|+.....+.+.|..  +++++
T Consensus        51 e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~  129 (320)
T PLN02789         51 ERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELE  129 (320)
T ss_pred             CCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHH
Confidence            34445555555555543 334444444444444555 4566666666654   23444565554444444542  55666


Q ss_pred             HHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhc---CC----HHHHHHHHH
Q 043490          304 LFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRV---GR----ILEAEKLIR  374 (589)
Q Consensus       304 ~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~---g~----~~~A~~~~~  374 (589)
                      +++++ ...| |..+|.....++.+.|+++++.+.++.+++..  ..+...|+.....+.+.   |.    .+++++...
T Consensus       130 ~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d--~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~  207 (320)
T PLN02789        130 FTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEED--VRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTI  207 (320)
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC--CCchhHHHHHHHHHHhccccccccccHHHHHHHHH
Confidence            67666 5555 44566666666667777777777777776431  22444555544444333   22    245566654


Q ss_pred             hC-CCCCC-HHHHHHHHHHHHHc----CCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcC------------------
Q 043490          375 EM-PMEPD-SVIWSVLLGSCRKH----GETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSG------------------  430 (589)
Q Consensus       375 ~m-~~~p~-~~~~~~ll~~~~~~----g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g------------------  430 (589)
                      ++ ...|+ ...|+.+...+...    ++..+|...+.++.+.+|.++.+...|++.|+...                  
T Consensus       208 ~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~  287 (320)
T PLN02789        208 DAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELS  287 (320)
T ss_pred             HHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhccccccc
Confidence            44 55564 78888888888773    34566888888888888888888999999998643                  


Q ss_pred             ChHHHHHHHHHHh
Q 043490          431 SFNKARLIRKEMK  443 (589)
Q Consensus       431 ~~~~a~~~~~~m~  443 (589)
                      ..++|.++++.+.
T Consensus       288 ~~~~a~~~~~~l~  300 (320)
T PLN02789        288 DSTLAQAVCSELE  300 (320)
T ss_pred             cHHHHHHHHHHHH
Confidence            2367888888874

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.43  E-value=0.00071  Score=68.08  Aligned_cols=389  Identities=12%  Similarity=0.037  Sum_probs=211.6

Q ss_pred             HHHHHHhcCChHHHHHHHhcCCC--C-CcchHHHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhc-hhhHH
Q 043490           48 LINMYAKFGYLDDARHLFDEMPK--R-NVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCD-YLHGK  123 (589)
Q Consensus        48 li~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~-~~~~~  123 (589)
                      =++.+.+.|++++|.+.-+++..  | |......=+-++++.+++++|+.+.+.-...   +......+=+++. ....+
T Consensus        18 ~ln~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~---~~~~~~~fEKAYc~Yrlnk   94 (652)
T KOG2376|consen   18 DLNRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL---LVINSFFFEKAYCEYRLNK   94 (652)
T ss_pred             HHHHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh---hhcchhhHHHHHHHHHccc
Confidence            35677788999999988888764  3 5566777788899999999999665543221   1111111223333 33333


Q ss_pred             HHHHHHHHhcCCCchh-HHHHHHHHHhc-CCHHHHHHHHhhCCCCChhHHHH-----HHHHH-HcC------------Cc
Q 043490          124 LVHALALKFSLDAHVY-VANALINMYSK-SCADEAWKVFENMEFRNVISWNS-----MIAAF-RAC------------KL  183 (589)
Q Consensus       124 ~~~~~~~~~g~~~~~~-~~~~li~~y~~-g~~~~A~~lf~~m~~~~~~~~~~-----li~~~-~~~------------g~  183 (589)
                      .-.+.....|.+++.. +...-...+.+ |++++|.++|+.+.+.+...+..     ++.+- ...            +.
T Consensus        95 ~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e~s  174 (652)
T KOG2376|consen   95 LDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEVPEDS  174 (652)
T ss_pred             HHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCCCcch
Confidence            3333333335555543 44434445566 88999999988875322221111     11110 000            11


Q ss_pred             HHHHHH---HHHHcCCHHHHHHHHHHHHHcC-------------CCCCHHH-HHHHHHHHhCcCcHHHHHHHHHHHHHhC
Q 043490          184 EAQAIE---LFAKMKNEEEALFLFRQLQREG-------------MAPDWCT-FSIVLKACAGLVTERHASAVHSLIAKYG  246 (589)
Q Consensus       184 ~~~a~~---~~~~~g~~~~A~~~~~~m~~~g-------------~~p~~~t-~~~ll~a~~~~~~~~~a~~i~~~~~~~g  246 (589)
                      ++.+..   .+...|++.+|+++++...+.+             ++-+..+ -.-+.-++...|+.++|.+++...++..
T Consensus       175 yel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~  254 (652)
T KOG2376|consen  175 YELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRN  254 (652)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc
Confidence            111111   1356677777777777662211             1111111 1123334456788888888888887776


Q ss_pred             CCCcH----HHHHHHHHHHHhcCCHH-HHHHHHhhcCCCC--------------hhHHHHHHHHHHHcCCHHHHHHHHHh
Q 043490          247 FEDDT----VIANALIHAYARCGSIS-LSKQVFDKMTYHD--------------LVSWNSILKAYALHGQAKEALQLFSN  307 (589)
Q Consensus       247 ~~~~~----~~~~~li~~~~~~g~~~-~A~~~~~~~~~~~--------------~~~~~~li~~~~~~g~~~~A~~~~~~  307 (589)
                       ++|.    ...|.|+.+-....=.+ .++..++......              .+..|..+-.+ -.+..+.+.++-..
T Consensus       255 -~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l-~tnk~~q~r~~~a~  332 (652)
T KOG2376|consen  255 -PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLAL-FTNKMDQVRELSAS  332 (652)
T ss_pred             -CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH-HhhhHHHHHHHHHh
Confidence             3333    23344443322111111 2333333322111              11122211111 13444556666555


Q ss_pred             C-CCCCCHHHHHHHHHHHh--ccCcHHHHHHHHHHhHHhcCCccC--cchHHHHHHHHhhcCCHHHHHHHHH--------
Q 043490          308 M-NVQPDSATFVSLLSACS--HAGLVQEGNKVFHSMLENHGVVPQ--LDHYACMVDLLGRVGRILEAEKLIR--------  374 (589)
Q Consensus       308 m-~~~p~~~t~~~ll~a~~--~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~--------  374 (589)
                      . +..|... +-.++..+.  +...+..+.+++....+.   .|.  ..+.-.++......|+++.|.+++.        
T Consensus       333 lp~~~p~~~-~~~ll~~~t~~~~~~~~ka~e~L~~~~~~---~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~s  408 (652)
T KOG2376|consen  333 LPGMSPESL-FPILLQEATKVREKKHKKAIELLLQFADG---HPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKS  408 (652)
T ss_pred             CCccCchHH-HHHHHHHHHHHHHHHHhhhHHHHHHHhcc---CCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhh
Confidence            5 5555543 334444332  223567777777766443   232  3455666778889999999999998        


Q ss_pred             hC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC----C---CChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          375 EM-PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLE----P---GDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       375 ~m-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~----p---~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      .. .+.-.+.+..++...+.+.++.+.|..++..+...-    +   .-...+..++..-.+.|+-++|.++++++.+.
T Consensus       409 s~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~  487 (652)
T KOG2376|consen  409 SILEAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKF  487 (652)
T ss_pred             hhhhhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHh
Confidence            44 233345666777888888888888888887776521    2   12233445555566789999999999999874

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

Probab=98.43  E-value=1.7e-05  Score=71.90  Aligned_cols=147  Identities=8%  Similarity=0.097  Sum_probs=107.8

Q ss_pred             HHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHH
Q 043490          290 KAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEA  369 (589)
Q Consensus       290 ~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  369 (589)
                      ..|...|+++.+....+.+ ..|.        ..+...++.+++...++...+.  -+.+...|..|...|...|++++|
T Consensus        24 ~~Y~~~g~~~~v~~~~~~~-~~~~--------~~~~~~~~~~~~i~~l~~~L~~--~P~~~~~w~~Lg~~~~~~g~~~~A   92 (198)
T PRK10370         24 GSYLLSPKWQAVRAEYQRL-ADPL--------HQFASQQTPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWRNDYDNA   92 (198)
T ss_pred             HHHHHcchHHHHHHHHHHH-hCcc--------ccccCchhHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHH
Confidence            4466667666654444333 0110        0111245666776666665543  134677888888889999999999


Q ss_pred             HHHHHhC-CCCCC-HHHHHHHHHHH-HHcCC--HHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          370 EKLIREM-PMEPD-SVIWSVLLGSC-RKHGE--TRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       370 ~~~~~~m-~~~p~-~~~~~~ll~~~-~~~g~--~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      ...|++. ...|+ ...+..+..++ ...|+  .++|.++++++++.+|.++.++..++..+.+.|++++|...|+++.+
T Consensus        93 ~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~  172 (198)
T PRK10370         93 LLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLD  172 (198)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            9999888 55664 77788887764 67676  59999999999999999999999999999999999999999999987


Q ss_pred             CCC
Q 043490          445 SRV  447 (589)
Q Consensus       445 ~~~  447 (589)
                      ..-
T Consensus       173 l~~  175 (198)
T PRK10370        173 LNS  175 (198)
T ss_pred             hCC
Confidence            543

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.42  E-value=4.2e-06  Score=71.65  Aligned_cols=113  Identities=12%  Similarity=-0.008  Sum_probs=66.8

Q ss_pred             CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHH
Q 043490          309 NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIW  385 (589)
Q Consensus       309 ~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~  385 (589)
                      .+.|+.  +..+..++...|++++|...|+....   +.| +...|..+..++.+.|++++|...|++. ...| +...|
T Consensus        21 ~~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~   95 (144)
T PRK15359         21 SVDPET--VYASGYASWQEGDYSRAVIDFSWLVM---AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPV   95 (144)
T ss_pred             HcCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHH
Confidence            344443  33344555566666666666666542   233 4445566666666666666666666665 3344 35666


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHh
Q 043490          386 SVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIY  426 (589)
Q Consensus       386 ~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  426 (589)
                      ..+..++...|++++|+..++++++..|+++..+.....+.
T Consensus        96 ~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~  136 (144)
T PRK15359         96 YQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQ  136 (144)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            66666666677777777777777777776666665544443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.38  E-value=2.3e-05  Score=73.78  Aligned_cols=180  Identities=14%  Similarity=0.037  Sum_probs=128.9

Q ss_pred             CCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcH---HHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-Chh---H
Q 043490          214 PDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDT---VIANALIHAYARCGSISLSKQVFDKMTY--H-DLV---S  284 (589)
Q Consensus       214 p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~---~  284 (589)
                      .....+......+...|+++.|...++.+++.. +.+.   .++..+...|.+.|++++|...|+++.+  | +..   +
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a  109 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYA  109 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHH
Confidence            455677788888899999999999999998764 3332   4667889999999999999999999862  2 222   4


Q ss_pred             HHHHHHHHHHc--------CCHHHHHHHHHhC-CCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHH
Q 043490          285 WNSILKAYALH--------GQAKEALQLFSNM-NVQPDSA-TFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYA  354 (589)
Q Consensus       285 ~~~li~~~~~~--------g~~~~A~~~~~~m-~~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~  354 (589)
                      +..+..++.+.        |+.++|.+.|+++ ...|+.. ....+... ..   .      .... .        ....
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~-~~---~------~~~~-~--------~~~~  170 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRM-DY---L------RNRL-A--------GKEL  170 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHH-HH---H------HHHH-H--------HHHH
Confidence            55556666654        7889999999999 6677653 22222111 00   0      0000 0        0122


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCC
Q 043490          355 CMVDLLGRVGRILEAEKLIREM----PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEP  413 (589)
Q Consensus       355 ~li~~~~~~g~~~~A~~~~~~m----~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  413 (589)
                      .+...|.+.|++++|...+++.    +-.|. ...|..+..++...|++++|...++.+....|
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            4567788999999999999887    32333 67888999999999999999999888876555

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).

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

Probab=98.38  E-value=1.7e-05  Score=79.13  Aligned_cols=239  Identities=14%  Similarity=0.069  Sum_probs=180.4

Q ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHH
Q 043490          191 FAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLS  270 (589)
Q Consensus       191 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  270 (589)
                      +.++|+..+|.-.|+...+.. +-+...|.-|....+..++-..|+..+.+..+.. +.+..+.-+|.-.|...|.-..|
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHHH
Confidence            378888999999999888763 3356788888888889999999999999998876 67788889999999999999999


Q ss_pred             HHHHhhcCC--C----------ChhHHHHHHHHHHHcCCHHHHHHHHHhC----CCCCCHHHHHHHHHHHhccCcHHHHH
Q 043490          271 KQVFDKMTY--H----------DLVSWNSILKAYALHGQAKEALQLFSNM----NVQPDSATFVSLLSACSHAGLVQEGN  334 (589)
Q Consensus       271 ~~~~~~~~~--~----------~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~~~t~~~ll~a~~~~g~~~~a~  334 (589)
                      .+.|+.-..  |          +...-+.  ..+..........++|-++    +..+|......|.-.|--.|.+++|.
T Consensus       373 l~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  373 LKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            999886531  0          1000000  1222223345566777777    43456666666666777889999999


Q ss_pred             HHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Q 043490          335 KVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQL  411 (589)
Q Consensus       335 ~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  411 (589)
                      ..|+..+   .++| |...||.|...++...+.++|+.-|++. .++|. +.++-.|.-+|...|.+++|...|-.++.+
T Consensus       451 Dcf~~AL---~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~m  527 (579)
T KOG1125|consen  451 DCFEAAL---QVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSM  527 (579)
T ss_pred             HHHHHHH---hcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHh
Confidence            9999887   5577 6678999999999999999999999998 88998 778888999999999999999999888776


Q ss_pred             CCC----------ChhHHHHHHHHhhhcCChHHHH
Q 043490          412 EPG----------DSLGFVQMSNIYCLSGSFNKAR  436 (589)
Q Consensus       412 ~p~----------~~~~~~~l~~~~~~~g~~~~a~  436 (589)
                      .+.          +...|.+|=.++.-.++.|-+.
T Consensus       528 q~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~  562 (579)
T KOG1125|consen  528 QRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQ  562 (579)
T ss_pred             hhcccccccCCcchHHHHHHHHHHHHHcCCchHHH
Confidence            542          1234555555555555554333

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

Probab=98.37  E-value=1.5e-05  Score=81.58  Aligned_cols=189  Identities=16%  Similarity=0.160  Sum_probs=151.9

Q ss_pred             CCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHH
Q 043490          246 GFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDSATFVSLLSAC  324 (589)
Q Consensus       246 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~  324 (589)
                      +++|-...-..+...+.++|-...|..+|++.     ..|.-.|.+|+..|+..+|..+..+- .-+||+.-|..+.+..
T Consensus       393 ~lpp~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~  467 (777)
T KOG1128|consen  393 HLPPIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVL  467 (777)
T ss_pred             CCCCcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhc
Confidence            45666677778899999999999999999986     57888999999999999999998888 8788999999999998


Q ss_pred             hccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHH
Q 043490          325 SHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAE  402 (589)
Q Consensus       325 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~  402 (589)
                      ....-+++|.++++....+        .-..+.....+.++++++.+.|+.- .+.|- ..+|-.+..+..+.++.+.|.
T Consensus       468 ~d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av  539 (777)
T KOG1128|consen  468 HDPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAV  539 (777)
T ss_pred             cChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHH
Confidence            8888899999998876433        1111122223467888888888765 55553 678888888888888888888


Q ss_pred             HHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCC
Q 043490          403 LAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRV  447 (589)
Q Consensus       403 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  447 (589)
                      +.|.....++|++...|+++..+|.+.|+-.+|...+++..+-+.
T Consensus       540 ~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~  584 (777)
T KOG1128|consen  540 KAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNY  584 (777)
T ss_pred             HHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCC
Confidence            888888888888888888888888888888888888888877664

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

Probab=98.34  E-value=6.7e-05  Score=82.05  Aligned_cols=179  Identities=13%  Similarity=0.122  Sum_probs=103.5

Q ss_pred             HHHHHHHHhc-CCHHHHHHHHhhCCCC-C-hhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHH
Q 043490          141 ANALINMYSK-SCADEAWKVFENMEFR-N-VISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWC  217 (589)
Q Consensus       141 ~~~li~~y~~-g~~~~A~~lf~~m~~~-~-~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  217 (589)
                      |.+++++-.. |.-+...++|++.-+- | ...|..|...|             .+.+.+++|.++|+.|.+. ..-...
T Consensus      1500 WiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~L~~iy-------------~k~ek~~~A~ell~~m~KK-F~q~~~ 1565 (1710)
T KOG1070|consen 1500 WIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLKLLGIY-------------EKSEKNDEADELLRLMLKK-FGQTRK 1565 (1710)
T ss_pred             HHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHHHHHHH-------------HHhhcchhHHHHHHHHHHH-hcchhh
Confidence            3444444444 4444444444444331 1 22345555555             6666666666666666543 223445


Q ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCC--cHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHH
Q 043490          218 TFSIVLKACAGLVTERHASAVHSLIAKYGFED--DTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAY  292 (589)
Q Consensus       218 t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~  292 (589)
                      .|...+..+.+..+-+.|..++.++++.= |.  .+....-.+.+-.++|+.+.++.+|+...   .+-...|+..|..-
T Consensus      1566 vW~~y~~fLl~~ne~~aa~~lL~rAL~~l-Pk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~e 1644 (1710)
T KOG1070|consen 1566 VWIMYADFLLRQNEAEAARELLKRALKSL-PKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDME 1644 (1710)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHhhc-chhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCccchhHHHHHHHHH
Confidence            56666666666666666666666665541 22  34455566666777788888888887766   23456788888888


Q ss_pred             HHcCCHHHHHHHHHhC---CCCCCH--HHHHHHHHHHhccCcHHHHH
Q 043490          293 ALHGQAKEALQLFSNM---NVQPDS--ATFVSLLSACSHAGLVQEGN  334 (589)
Q Consensus       293 ~~~g~~~~A~~~~~~m---~~~p~~--~t~~~ll~a~~~~g~~~~a~  334 (589)
                      .++|+.+.+..+|++.   ++.|-.  ..|.--|..=.+.|+-+.+.
T Consensus      1645 ik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE 1691 (1710)
T KOG1070|consen 1645 IKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVE 1691 (1710)
T ss_pred             HccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHH
Confidence            8888888888888887   555532  34555555444445544333

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.33  E-value=0.00015  Score=76.96  Aligned_cols=394  Identities=13%  Similarity=0.017  Sum_probs=195.9

Q ss_pred             CHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC---CCcchHHHHHHHHHhCCChhHHHHHH
Q 043490           20 NIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK---RNVVSWTALISGYAQHGNAEECFRLF   96 (589)
Q Consensus        20 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~   96 (589)
                      +...+...|=+.++..+   .=...|..|...|...-+...|.+.|++..+   .|..++......|++..+++.|..+.
T Consensus       473 ~~~~al~ali~alrld~---~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~  549 (1238)
T KOG1127|consen  473 NSALALHALIRALRLDV---SLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEIC  549 (1238)
T ss_pred             hHHHHHHHHHHHHhccc---chhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHH
Confidence            35555555555554433   3345788888888888888889999988765   46778889999999999999998884


Q ss_pred             HHHHhccCCCceeHHHHHHHhchhhHHHHHHHHH--Hh--c-CCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCCCChhH
Q 043490           97 CSLLQYFFPNEFSLASVLISCDYLHGKLVHALAL--KF--S-LDAHVYVANALINMYSK-SCADEAWKVFENMEFRNVIS  170 (589)
Q Consensus        97 ~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~--~~--g-~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~~~~~~  170 (589)
                      -..-+.-..-...++-+.+....-.+...|+.+.  +.  . -+.|...|..|..+|.+ |++..|.++|++...-++.+
T Consensus       550 l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s  629 (1238)
T KOG1127|consen  550 LRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLS  629 (1238)
T ss_pred             HHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHh
Confidence            3322221111111111111111112222333222  11  1 23466778888999999 99999999998876544433


Q ss_pred             HHH-HHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcC------CCCCHHHHHHHHHHHhCcCc-------HHHHH
Q 043490          171 WNS-MIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREG------MAPDWCTFSIVLKACAGLVT-------ERHAS  236 (589)
Q Consensus       171 ~~~-li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g------~~p~~~t~~~ll~a~~~~~~-------~~~a~  236 (589)
                      |-. .-.+-           +-+.+|.+.+|+..+.......      ..--..++..+...+...|-       ++.+.
T Consensus       630 ~y~~fk~A~-----------~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksi  698 (1238)
T KOG1127|consen  630 KYGRFKEAV-----------MECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSI  698 (1238)
T ss_pred             HHHHHHHHH-----------HHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence            322 11110           0156677777777776654321      11111222222222222222       22233


Q ss_pred             HHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChh--HHHHHHHH-HHHcCCH---H---HHHHHHHh
Q 043490          237 AVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLV--SWNSILKA-YALHGQA---K---EALQLFSN  307 (589)
Q Consensus       237 ~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~li~~-~~~~g~~---~---~A~~~~~~  307 (589)
                      +.+.-.+......+...|-.+.          .|..+|-... ||.+  .+..++.. .-..+..   +   -+.+.+-.
T Consensus       699 e~f~~~l~h~~~~~~~~Wi~as----------dac~~f~q~e-~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~  767 (1238)
T KOG1127|consen  699 ESFIVSLIHSLQSDRLQWIVAS----------DACYIFSQEE-PSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIA  767 (1238)
T ss_pred             HHHHHHHHHhhhhhHHHHHHHh----------HHHHHHHHhc-ccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhH
Confidence            3333333322222333332222          2223333332 2211  11111111 1111111   0   01111100


Q ss_pred             C-CCCCCHHHHHHHHHHHhc----c----CcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-C
Q 043490          308 M-NVQPDSATFVSLLSACSH----A----GLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-P  377 (589)
Q Consensus       308 m-~~~p~~~t~~~ll~a~~~----~----g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~  377 (589)
                      - ....+..+|..+...+.+    .    .+...|...+...+   ....+...+-..+......|.+.-|..-|-+. -
T Consensus       768 hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV---~L~ann~~~WnaLGVlsg~gnva~aQHCfIks~~  844 (1238)
T KOG1127|consen  768 HLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAV---SLCANNEGLWNALGVLSGIGNVACAQHCFIKSRF  844 (1238)
T ss_pred             HHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHH---HHhhccHHHHHHHHHhhccchhhhhhhhhhhhhh
Confidence            0 111122333333322221    1    12224444444433   22333333333333445556666555554433 2


Q ss_pred             CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHH
Q 043490          378 MEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKE  441 (589)
Q Consensus       378 ~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  441 (589)
                      ..| ...+|..+...|..+.+++-|...|.++..++|.|...|......-...|+.-++..+|..
T Consensus       845 sep~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLdP~nl~~WlG~Ali~eavG~ii~~~~lfaH  909 (1238)
T KOG1127|consen  845 SEPTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLDPLNLVQWLGEALIPEAVGRIIERLILFAH  909 (1238)
T ss_pred             ccccchhheeccceeEEecccHHHhhHHHHhhhhcCchhhHHHHHHHHhHHHHHHHHHHHHHHHh
Confidence            233 4677777777777788888888888888888887777777777777777777777776654

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.32  E-value=8.5e-06  Score=69.75  Aligned_cols=98  Identities=13%  Similarity=-0.088  Sum_probs=88.1

Q ss_pred             ccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHH
Q 043490          347 VPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSN  424 (589)
Q Consensus       347 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  424 (589)
                      .|+  .+..+...+...|++++|...|+.. ...| +...|..+..++...|++++|...++++.+++|.++..+..+..
T Consensus        23 ~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~  100 (144)
T PRK15359         23 DPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGV  100 (144)
T ss_pred             CHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHH
Confidence            454  3556788889999999999999988 5566 58899999999999999999999999999999999999999999


Q ss_pred             HhhhcCChHHHHHHHHHHhcCC
Q 043490          425 IYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       425 ~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      ++...|++++|+..++...+..
T Consensus       101 ~l~~~g~~~eAi~~~~~Al~~~  122 (144)
T PRK15359        101 CLKMMGEPGLAREAFQTAIKMS  122 (144)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999999999999987654

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

Probab=98.32  E-value=1.4e-05  Score=81.79  Aligned_cols=218  Identities=14%  Similarity=0.092  Sum_probs=156.8

Q ss_pred             CCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC--CCChhHHHHHH
Q 043490          212 MAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT--YHDLVSWNSIL  289 (589)
Q Consensus       212 ~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li  289 (589)
                      .+|--..=..+...+.+.|-...|..+++.+.         .+.-.+..|...|+..+|..+..+-.  +||...|..+.
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LG  464 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLG  464 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhh
Confidence            33333333444555566777777777776543         45566777888888777777766554  45667777777


Q ss_pred             HHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHH
Q 043490          290 KAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILE  368 (589)
Q Consensus       290 ~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~  368 (589)
                      ...-+.--+++|.++++....    ..-..+.....+.++++++.+.|+.-.+   +.| ...+|-.+.-+..++++++.
T Consensus       465 Dv~~d~s~yEkawElsn~~sa----rA~r~~~~~~~~~~~fs~~~~hle~sl~---~nplq~~~wf~~G~~ALqlek~q~  537 (777)
T KOG1128|consen  465 DVLHDPSLYEKAWELSNYISA----RAQRSLALLILSNKDFSEADKHLERSLE---INPLQLGTWFGLGCAALQLEKEQA  537 (777)
T ss_pred             hhccChHHHHHHHHHhhhhhH----HHHHhhccccccchhHHHHHHHHHHHhh---cCccchhHHHhccHHHHHHhhhHH
Confidence            777777777888888877511    1111111122336788888888876543   333 45577777778888889999


Q ss_pred             HHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          369 AEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       369 A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      |.+.|..- ...|| ...||.+-.+|.+.|+-.+|...++++.+.+-.+...|...+-.-.+.|.|++|.+.+.++.+.
T Consensus       538 av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  538 AVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             HHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHHh
Confidence            88888777 66787 7889999999999999999999999999988777788888888889999999999999888653

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.31  E-value=0.0008  Score=71.63  Aligned_cols=411  Identities=13%  Similarity=0.056  Sum_probs=202.6

Q ss_pred             ccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHH-H--HHHHHhCCChhHHH
Q 043490           17 LHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTA-L--ISGYAQHGNAEECF   93 (589)
Q Consensus        17 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~-l--i~~~~~~g~~~~A~   93 (589)
                      ..++...+..-|....+..|   .|...|..|..+|..+|++..|.++|++...-++.+|-. .  ...-+..|.+.+|+
T Consensus       574 ea~n~h~aV~~fQsALR~dP---kD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~GkYkeal  650 (1238)
T KOG1127|consen  574 EAHNLHGAVCEFQSALRTDP---KDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNGKYKEAL  650 (1238)
T ss_pred             CccchhhHHHHHHHHhcCCc---hhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhhhHHHHH
Confidence            34555566666666665555   788888999999999999999999998776544443322 1  22345677888888


Q ss_pred             HHHHHHHhc---cCCCceeHHHHHHHhc---------------hhhHHHHHHHHHHhcCCCchhHHH-------------
Q 043490           94 RLFCSLLQY---FFPNEFSLASVLISCD---------------YLHGKLVHALALKFSLDAHVYVAN-------------  142 (589)
Q Consensus        94 ~~~~~m~~~---~~p~~~t~~~~l~a~~---------------~~~~~~~~~~~~~~g~~~~~~~~~-------------  142 (589)
                      ..+......   ..|-.......+-.++               .+...+.+...+......+...|-             
T Consensus       651 d~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f~q~e  730 (1238)
T KOG1127|consen  651 DALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIFSQEE  730 (1238)
T ss_pred             HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHHHHhc
Confidence            877766543   1111111111111111               122222222222211111111111             


Q ss_pred             ------HHHHHH----hc-CCH--HH----HHHHHhhCC--CCChhHHHHHHHHHHcCCcHHHHHHHHHHc----CCHHH
Q 043490          143 ------ALINMY----SK-SCA--DE----AWKVFENME--FRNVISWNSMIAAFRACKLEAQAIELFAKM----KNEEE  199 (589)
Q Consensus       143 ------~li~~y----~~-g~~--~~----A~~lf~~m~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~~----g~~~~  199 (589)
                            .++..+    -+ +..  ++    +.+.+-.-.  .-+..+|..++..|.+         .|...    .+...
T Consensus       731 ~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr---------~f~~l~et~~~~~~  801 (1238)
T KOG1127|consen  731 PSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLR---------YFLLLGETMKDACT  801 (1238)
T ss_pred             ccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHH---------HHHHcCCcchhHHH
Confidence                  111111    11 111  00    000000000  0134556555555411         01111    12235


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC
Q 043490          200 ALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY  279 (589)
Q Consensus       200 A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  279 (589)
                      |+..+.+-.+.. ..+..+|+. +......|++..+..-|-.-.... +....+|..+.-.+.+..+++.|...|.+...
T Consensus       802 Ai~c~KkaV~L~-ann~~~Wna-LGVlsg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qS  878 (1238)
T KOG1127|consen  802 AIRCCKKAVSLC-ANNEGLWNA-LGVLSGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQS  878 (1238)
T ss_pred             HHHHHHHHHHHh-hccHHHHHH-HHHhhccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhh
Confidence            666666655431 223344443 333344455544444333333222 45566677777777777777777777776652


Q ss_pred             ---CChhHHHHHH---------------------------------------HHHHHcCCHHHHHHHHHhC---------
Q 043490          280 ---HDLVSWNSIL---------------------------------------KAYALHGQAKEALQLFSNM---------  308 (589)
Q Consensus       280 ---~~~~~~~~li---------------------------------------~~~~~~g~~~~A~~~~~~m---------  308 (589)
                         .|...|--+.                                       .-..++|+.++-+..-+++         
T Consensus       879 LdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~  958 (1238)
T KOG1127|consen  879 LDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSY  958 (1238)
T ss_pred             cCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHH
Confidence               2333333222                                       2234445544443333333         


Q ss_pred             --CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHH----HHHhhcCCHHHHHHHHHhCCCCCC
Q 043490          309 --NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMV----DLLGRVGRILEAEKLIREMPMEPD  381 (589)
Q Consensus       309 --~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li----~~~~~~g~~~~A~~~~~~m~~~p~  381 (589)
                        +-.| +...|........+.+.+..|.+...+...-...+-+...|+...    ..+...|.++.|..-+...+...|
T Consensus       959 yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~~~~evd 1038 (1238)
T KOG1127|consen  959 YFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKASWKEWMEVD 1038 (1238)
T ss_pred             HHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhcccchhHH
Confidence              2223 345666666666666777766666555432222234555666433    334456777777776666544555


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCh---hHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          382 SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDS---LGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       382 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      ..+-.+-+..+ -.++++.+.+.|+++..+-..+.   .....++..-..++.-+.|...+-+..
T Consensus      1039 Edi~gt~l~lF-fkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~~ 1102 (1238)
T KOG1127|consen 1039 EDIRGTDLTLF-FKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEVK 1102 (1238)
T ss_pred             HHHhhhhHHHH-HHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHHH
Confidence            55554444443 35688999999999887543222   223334444455666667766554444

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

Probab=98.31  E-value=0.0025  Score=59.94  Aligned_cols=301  Identities=12%  Similarity=0.060  Sum_probs=166.5

Q ss_pred             HHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHHHH---HHHHhCCCh
Q 043490           13 HACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALI---SGYAQHGNA   89 (589)
Q Consensus        13 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li---~~~~~~g~~   89 (589)
                      ..+...|.+..|+.-|-..++..|   .+-.++-.-...|...|+-.-|+.=|++..+.-+..+.+-|   ..+.+.|.+
T Consensus        46 k~lla~~Q~sDALt~yHaAve~dp---~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~vllK~Gel  122 (504)
T KOG0624|consen   46 KELLARGQLSDALTHYHAAVEGDP---NNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVVLLKQGEL  122 (504)
T ss_pred             HHHHHhhhHHHHHHHHHHHHcCCc---hhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchhhhhcccH
Confidence            344445566666655555554322   33333444456777788877777777766543333333333   457889999


Q ss_pred             hHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCCCCh
Q 043490           90 EECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEFRNV  168 (589)
Q Consensus        90 ~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~~~~  168 (589)
                      ++|..=|+..++. .|+.-+-.                                  ..+.+ .-+++-+.+         
T Consensus       123 e~A~~DF~~vl~~-~~s~~~~~----------------------------------eaqskl~~~~e~~~l---------  158 (504)
T KOG0624|consen  123 EQAEADFDQVLQH-EPSNGLVL----------------------------------EAQSKLALIQEHWVL---------  158 (504)
T ss_pred             HHHHHHHHHHHhc-CCCcchhH----------------------------------HHHHHHHhHHHHHHH---------
Confidence            9999999998875 23221111                                  11111 111111111         


Q ss_pred             hHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCC
Q 043490          169 ISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFE  248 (589)
Q Consensus       169 ~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~  248 (589)
                         -..+..+             ...|+...|+.....+++. .+-|...|..-..+|...|.+..|+.=++...+.. .
T Consensus       159 ---~~ql~s~-------------~~~GD~~~ai~~i~~llEi-~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~  220 (504)
T KOG0624|consen  159 ---VQQLKSA-------------SGSGDCQNAIEMITHLLEI-QPWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-Q  220 (504)
T ss_pred             ---HHHHHHH-------------hcCCchhhHHHHHHHHHhc-CcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-c
Confidence               0111222             3445555555555555542 12244444444445555555555554444444443 2


Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCh--h----HHHHH---------HHHHHHcCCHHHHHHHHHhC-CCCC
Q 043490          249 DDTVIANALIHAYARCGSISLSKQVFDKMTYHDL--V----SWNSI---------LKAYALHGQAKEALQLFSNM-NVQP  312 (589)
Q Consensus       249 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~--~----~~~~l---------i~~~~~~g~~~~A~~~~~~m-~~~p  312 (589)
                      .+....--+-..+...|+.+.++...++..+-|+  -    .|-.+         +......+++.++++-.+.. ...|
T Consensus       221 DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKldpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep  300 (504)
T KOG0624|consen  221 DNTEGHYKISQLLYTVGDAENSLKEIRECLKLDPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEP  300 (504)
T ss_pred             cchHHHHHHHHHHHhhhhHHHHHHHHHHHHccCcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCC
Confidence            2333333444555555666665555555542221  1    11111         12345567888888888887 6666


Q ss_pred             CH--HHH---HHHHHHHhccCcHHHHHHHHHHhHHhcCCccC-cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC
Q 043490          313 DS--ATF---VSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ-LDHYACMVDLLGRVGRILEAEKLIREM-PMEPD  381 (589)
Q Consensus       313 ~~--~t~---~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~  381 (589)
                      ..  +++   ..+-.++...+.+.+|.+.-.+++   .+.|+ +.++.--.++|.-...+++|+.-|+.. ...++
T Consensus       301 ~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL---~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~s  373 (504)
T KOG0624|consen  301 EETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVL---DIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNES  373 (504)
T ss_pred             cccceeeeeeheeeecccccCCHHHHHHHHHHHH---hcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcc
Confidence            52  233   344455667889999999888776   55675 778888888999999999999999887 44443

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

Probab=98.29  E-value=8.5e-05  Score=67.29  Aligned_cols=117  Identities=20%  Similarity=0.136  Sum_probs=52.1

Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCC
Q 043490          320 LLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGE  397 (589)
Q Consensus       320 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~  397 (589)
                      .+....+.|++.+|...+++...  .-++|...|+.+.-+|.+.|++++|..-|.+. .+.|+ ....+.|.-.+.-.|+
T Consensus       106 ~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd  183 (257)
T COG5010         106 QGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGD  183 (257)
T ss_pred             HHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCC
Confidence            33444444444444444444321  22234444444444444444444444444433 22222 3444444444444555


Q ss_pred             HHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHH
Q 043490          398 TRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLI  438 (589)
Q Consensus       398 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  438 (589)
                      .+.|+.++.......+.|..+-..|..+-...|++++|..+
T Consensus       184 ~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i  224 (257)
T COG5010         184 LEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDI  224 (257)
T ss_pred             HHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhh
Confidence            55555555544444444444444555555555555555443

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

Probab=98.27  E-value=6e-05  Score=68.25  Aligned_cols=151  Identities=11%  Similarity=0.136  Sum_probs=104.6

Q ss_pred             HHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHH
Q 043490          258 IHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNK  335 (589)
Q Consensus       258 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~  335 (589)
                      +-+|...|+++......+.+..+.        ..|...++.++++..+++. ...| |...|..+...+...|++++|..
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~~~P~~~~~w~~Lg~~~~~~g~~~~A~~   94 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIRANPQNSEQWALLGEYYLWRNDYDNALL   94 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            446777777766655443332221        0112255667777777776 5555 55677778888888888888888


Q ss_pred             HHHHhHHhcCCcc-CcchHHHHHHH-HhhcCC--HHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Q 043490          336 VFHSMLENHGVVP-QLDHYACMVDL-LGRVGR--ILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLK  409 (589)
Q Consensus       336 ~~~~~~~~~~~~p-~~~~~~~li~~-~~~~g~--~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  409 (589)
                      .|+...+   +.| +...+..+..+ |.+.|+  .++|.+++++. ...| +...+..+...+...|++++|+..+++++
T Consensus        95 a~~~Al~---l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL  171 (198)
T PRK10370         95 AYRQALQ---LRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVL  171 (198)
T ss_pred             HHHHHHH---hCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            8887753   344 55667777765 466676  48888888887 4556 47788888889999999999999999999


Q ss_pred             hcCCCChhHH
Q 043490          410 QLEPGDSLGF  419 (589)
Q Consensus       410 ~~~p~~~~~~  419 (589)
                      ++.|++..-+
T Consensus       172 ~l~~~~~~r~  181 (198)
T PRK10370        172 DLNSPRVNRT  181 (198)
T ss_pred             hhCCCCccHH
Confidence            9887665443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.24  E-value=8.9e-05  Score=79.59  Aligned_cols=155  Identities=11%  Similarity=0.093  Sum_probs=121.8

Q ss_pred             CChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHH
Q 043490          280 HDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDSA-TFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACM  356 (589)
Q Consensus       280 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l  356 (589)
                      .++..+-.|.....+.|..++|+.+++.. ...||.. ....+...+.+.+++++|....+....   ..| +......+
T Consensus        84 ~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~---~~p~~~~~~~~~  160 (694)
T PRK15179         84 HTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS---GGSSSAREILLE  160 (694)
T ss_pred             ccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh---cCCCCHHHHHHH
Confidence            35778888888899999999999999999 8899765 677788899999999999999988864   355 45567778


Q ss_pred             HHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHH
Q 043490          357 VDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNK  434 (589)
Q Consensus       357 i~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  434 (589)
                      ..++.+.|++++|.++|++. .-.|+ ..+|..+..++...|+.++|...|+++.+...+-...|+.++      ++...
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~------~~~~~  234 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRL------VDLNA  234 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHH------HHHHH
Confidence            88899999999999999998 33455 888999999999999999999999999887654445555433      23333


Q ss_pred             HHHHHHHHh
Q 043490          435 ARLIRKEMK  443 (589)
Q Consensus       435 a~~~~~~m~  443 (589)
                      -...++.+.
T Consensus       235 ~~~~~~~~~  243 (694)
T PRK15179        235 DLAALRRLG  243 (694)
T ss_pred             HHHHHHHcC
Confidence            344555554

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.23  E-value=0.00045  Score=71.82  Aligned_cols=246  Identities=17%  Similarity=0.168  Sum_probs=174.6

Q ss_pred             CchhHHHHHHH--HHhc-CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Q 043490          136 AHVYVANALIN--MYSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGM  212 (589)
Q Consensus       136 ~~~~~~~~li~--~y~~-g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~  212 (589)
                      .|..+..++++  .|.. |+.+.|.+-.+.+.  +...|..|.+.+++..+.+-|.-.+..+++...|.. +++.++.|-
T Consensus       724 Cd~~TRkaml~FSfyvtiG~MD~AfksI~~Ik--S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRA-lR~a~q~~~  800 (1416)
T KOG3617|consen  724 CDESTRKAMLDFSFYVTIGSMDAAFKSIQFIK--SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARA-LRRAQQNGE  800 (1416)
T ss_pred             cCHHHHHhhhceeEEEEeccHHHHHHHHHHHh--hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHH-HHHHHhCCc
Confidence            46677777876  4777 99999988877765  457899999999999999999888877777665544 344444432


Q ss_pred             CCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCh-hHHHHHHHH
Q 043490          213 APDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDL-VSWNSILKA  291 (589)
Q Consensus       213 ~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~li~~  291 (589)
                        +...-..+  .....|.+++|..+|++-.+..         .|-..|-..|.+++|.++-+.-..-.. .||.....-
T Consensus       801 --e~eakvAv--LAieLgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~  867 (1416)
T KOG3617|consen  801 --EDEAKVAV--LAIELGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKY  867 (1416)
T ss_pred             --chhhHHHH--HHHHHhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHH
Confidence              11111112  2357899999999999887643         455567889999999988765432222 366666666


Q ss_pred             HHHcCCHHHHHHHHHhCCCC----------------------CCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccC
Q 043490          292 YALHGQAKEALQLFSNMNVQ----------------------PDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ  349 (589)
Q Consensus       292 ~~~~g~~~~A~~~~~~m~~~----------------------p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~  349 (589)
                      +-..++.+.|++.|++.++.                      .|...|.--..-....|++|.|..+|....        
T Consensus       868 Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~--------  939 (1416)
T KOG3617|consen  868 LEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAK--------  939 (1416)
T ss_pred             HHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhh--------
Confidence            77788899999999887221                      123333344444556788888888887763        


Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 043490          350 LDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQ  410 (589)
Q Consensus       350 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  410 (589)
                        -|-+++...+-.|+.++|-++-++-+   |....-.|.+-|-..|++.+|..+|.++..
T Consensus       940 --D~fs~VrI~C~qGk~~kAa~iA~esg---d~AAcYhlaR~YEn~g~v~~Av~FfTrAqa  995 (1416)
T KOG3617|consen  940 --DYFSMVRIKCIQGKTDKAARIAEESG---DKAACYHLARMYENDGDVVKAVKFFTRAQA  995 (1416)
T ss_pred             --hhhhheeeEeeccCchHHHHHHHhcc---cHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence              25677888888899999999888865   555555678888889999999888877643

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.19  E-value=0.0014  Score=60.44  Aligned_cols=280  Identities=12%  Similarity=-0.008  Sum_probs=185.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhcCCCC---CcchHHHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhh
Q 043490           45 TNHLINMYAKFGYLDDARHLFDEMPKR---NVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLH  121 (589)
Q Consensus        45 ~~~li~~~~~~g~~~~A~~~f~~m~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~  121 (589)
                      +++.+.-+.+..++++|++++..-.++   +....+.|.-+|-...++..|...|+++-..                   
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql-------------------   73 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL-------------------   73 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-------------------
Confidence            456666677888999999998876653   4556777778888899999999999988654                   


Q ss_pred             HHHHHHHHHHhcCCCchhHHH--HHHHHHhcCCHHHHHHHHhhCCC-CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHH
Q 043490          122 GKLVHALALKFSLDAHVYVAN--ALINMYSKSCADEAWKVFENMEF-RNVISWNSMIAAFRACKLEAQAIELFAKMKNEE  198 (589)
Q Consensus       122 ~~~~~~~~~~~g~~~~~~~~~--~li~~y~~g~~~~A~~lf~~m~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~  198 (589)
                                   .|...-|.  -.-+.|-.+.+.+|.++...|.. ++...-..-+.+-.           .-+.+++.
T Consensus        74 -------------~P~~~qYrlY~AQSLY~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAI-----------kYse~Dl~  129 (459)
T KOG4340|consen   74 -------------HPELEQYRLYQAQSLYKACIYADALRVAFLLLDNPALHSRVLQLQAAI-----------KYSEGDLP  129 (459)
T ss_pred             -------------ChHHHHHHHHHHHHHHHhcccHHHHHHHHHhcCCHHHHHHHHHHHHHH-----------hcccccCc
Confidence                         12111111  11123333778899999888876 33322222222210           14557777


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHHHhcCCHHHHHHHHhhc
Q 043490          199 EALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYG-FEDDTVIANALIHAYARCGSISLSKQVFDKM  277 (589)
Q Consensus       199 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  277 (589)
                      .+..+.++....|   +..+.+.......+.|+.+.|.+-|....+.+ +.| ...||.-+ +..+.|+++.|++...++
T Consensus       130 g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqp-llAYniAL-aHy~~~qyasALk~iSEI  204 (459)
T KOG4340|consen  130 GSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQP-LLAYNLAL-AHYSSRQYASALKHISEI  204 (459)
T ss_pred             chHHHHHhccCCC---ccchhccchheeeccccHHHHHHHHHHHHhhcCCCc-hhHHHHHH-HHHhhhhHHHHHHHHHHH
Confidence            7777777765433   33444444334468899999999999988764 444 44565444 456679999999988776


Q ss_pred             CC-----------------CCh---------------hHHHHHHHHHHHcCCHHHHHHHHHhC----CCCCCHHHHHHHH
Q 043490          278 TY-----------------HDL---------------VSWNSILKAYALHGQAKEALQLFSNM----NVQPDSATFVSLL  321 (589)
Q Consensus       278 ~~-----------------~~~---------------~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~~~t~~~ll  321 (589)
                      .+                 +|+               ..+|.-...+.+.|+.+.|.+.+..|    .-..|++|...+.
T Consensus       205 ieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~A  284 (459)
T KOG4340|consen  205 IERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQA  284 (459)
T ss_pred             HHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHH
Confidence            41                 222               12343444467889999999999999    4456788887654


Q ss_pred             HHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 043490          322 SACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM  376 (589)
Q Consensus       322 ~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m  376 (589)
                      -.= ..+++.++.+-++-+.   ++.| ..+|+..++-.|++..-++-|-+++.+-
T Consensus       285 l~n-~~~~p~~g~~KLqFLL---~~nPfP~ETFANlLllyCKNeyf~lAADvLAEn  336 (459)
T KOG4340|consen  285 LMN-MDARPTEGFEKLQFLL---QQNPFPPETFANLLLLYCKNEYFDLAADVLAEN  336 (459)
T ss_pred             Hhc-ccCCccccHHHHHHHH---hcCCCChHHHHHHHHHHhhhHHHhHHHHHHhhC
Confidence            322 2345666666666655   4445 5579999999999999999999998775

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

Probab=98.19  E-value=8.9e-05  Score=67.16  Aligned_cols=140  Identities=16%  Similarity=0.092  Sum_probs=113.5

Q ss_pred             HHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCH
Q 043490          305 FSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM--PMEPDS  382 (589)
Q Consensus       305 ~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~  382 (589)
                      .......|+......+-.++...|+-+....+.......  -..|.......+....+.|++.+|...|++.  +-.||.
T Consensus        57 ~~~~~~~p~d~~i~~~a~a~~~~G~a~~~l~~~~~~~~~--~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~  134 (257)
T COG5010          57 GAAVLRNPEDLSIAKLATALYLRGDADSSLAVLQKSAIA--YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDW  134 (257)
T ss_pred             HHHHhcCcchHHHHHHHHHHHhcccccchHHHHhhhhcc--CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCCh
Confidence            333345564433355666777788888888887765332  2234456666889999999999999999999  445679


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          383 VIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       383 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      ..|+.+..+|.+.|+++.|...+.+..++.|.++..++.|...|.-.|+.++|..++......+
T Consensus       135 ~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~  198 (257)
T COG5010         135 EAWNLLGAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP  198 (257)
T ss_pred             hhhhHHHHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            9999999999999999999999999999999999999999999999999999999998877544

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.19  E-value=0.015  Score=61.79  Aligned_cols=401  Identities=15%  Similarity=0.140  Sum_probs=216.7

Q ss_pred             HccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHH--HHhcCChHHHHHHHhcCCC---CCcchHHHHHHHHHhCCChh
Q 043490           16 ALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINM--YAKFGYLDDARHLFDEMPK---RNVVSWTALISGYAQHGNAE   90 (589)
Q Consensus        16 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~--~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~   90 (589)
                      ...+++..|.+..+.+.+..|   ...  |...+.+  ..+.|+.++|..+++....   .|..+...+-..|.+.|+.+
T Consensus        20 ld~~qfkkal~~~~kllkk~P---n~~--~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d   94 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKHP---NAL--YAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLD   94 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHCC---CcH--HHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhh
Confidence            356789999999999988854   332  3333443  4578999999999987653   37788999999999999999


Q ss_pred             HHHHHHHHHHhccCCCceeHHHHHHHhc----hhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc--CCH---------HH
Q 043490           91 ECFRLFCSLLQYFFPNEFSLASVLISCD----YLHGKLVHALALKFSLDAHVYVANALINMYSK--SCA---------DE  155 (589)
Q Consensus        91 ~A~~~~~~m~~~~~p~~~t~~~~l~a~~----~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~--g~~---------~~  155 (589)
                      +|..+|++.... .|+..-...++.++.    ...-.++--.+ -..++.+.+.+=+.++.+..  ...         .-
T Consensus        95 ~~~~~Ye~~~~~-~P~eell~~lFmayvR~~~yk~qQkaa~~L-yK~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~L  172 (932)
T KOG2053|consen   95 EAVHLYERANQK-YPSEELLYHLFMAYVREKSYKKQQKAALQL-YKNFPKRAYYFWSVISLILQSIFSENELLDPILLAL  172 (932)
T ss_pred             HHHHHHHHHHhh-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHhCCcccchHHHHHHHHHHhccCCcccccchhHHH
Confidence            999999998876 555444445555544    11111111111 11344445544455555443  111         22


Q ss_pred             HHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHH------HHHHHcCCHHHHHHHHH-HHHHcCCCCCHHHHHHHHHHHhC
Q 043490          156 AWKVFENMEFRNVISWNSMIAAFRACKLEAQAI------ELFAKMKNEEEALFLFR-QLQREGMAPDWCTFSIVLKACAG  228 (589)
Q Consensus       156 A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~------~~~~~~g~~~~A~~~~~-~m~~~g~~p~~~t~~~ll~a~~~  228 (589)
                      |.+.++.+.+..              |..+...      -++...|.+++|++++. ..-+.-..-+...-+--+..+..
T Consensus       173 A~~m~~~~l~~~--------------gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~  238 (932)
T KOG2053|consen  173 AEKMVQKLLEKK--------------GKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKL  238 (932)
T ss_pred             HHHHHHHHhccC--------------CccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHH
Confidence            334444433222              1111100      11256677888888873 33332233344444455666677


Q ss_pred             cCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHH----------------hcCCHHHHHHHHhhcCCC-ChhHHHHHHHH
Q 043490          229 LVTERHASAVHSLIAKYGFEDDTVIANALIHAYA----------------RCGSISLSKQVFDKMTYH-DLVSWNSILKA  291 (589)
Q Consensus       229 ~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~----------------~~g~~~~A~~~~~~~~~~-~~~~~~~li~~  291 (589)
                      .+++.+..++-.++...| ..|   |...++.+.                ..+.++...+..++.... .--.|-+-+.+
T Consensus       239 l~~w~~l~~l~~~Ll~k~-~Dd---y~~~~~sv~klLe~~~~~~a~~~~s~~~~l~~~~ek~~~~i~~~~Rgp~LA~lel  314 (932)
T KOG2053|consen  239 LNRWQELFELSSRLLEKG-NDD---YKIYTDSVFKLLELLNKEPAEAAHSLSKSLDECIEKAQKNIGSKSRGPYLARLEL  314 (932)
T ss_pred             hcChHHHHHHHHHHHHhC-Ccc---hHHHHHHHHHHHHhcccccchhhhhhhhhHHHHHHHHHHhhcccccCcHHHHHHH
Confidence            788888888888887776 223   333222222                223333333333332211 11223333333


Q ss_pred             H---HHcCCHHHHHHHHHhC-CCCC----CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcc-------hHHHH
Q 043490          292 Y---ALHGQAKEALQLFSNM-NVQP----DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLD-------HYACM  356 (589)
Q Consensus       292 ~---~~~g~~~~A~~~~~~m-~~~p----~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~-------~~~~l  356 (589)
                      +   -.-|+.+++...|-+- |-.|    |...|...+       ..++-..++....   +..++..       -+.+.
T Consensus       315 ~kr~~~~gd~ee~~~~y~~kfg~kpcc~~Dl~~yl~~l-------~~~q~~~l~~~l~---~~~~~~s~~~k~l~~h~c~  384 (932)
T KOG2053|consen  315 DKRYKLIGDSEEMLSYYFKKFGDKPCCAIDLNHYLGHL-------NIDQLKSLMSKLV---LADDDSSGDEKVLQQHLCV  384 (932)
T ss_pred             HHHhcccCChHHHHHHHHHHhCCCcHhHhhHHHhhccC-------CHHHHHHHHHHhh---ccCCcchhhHHHHHHHHHH
Confidence            3   3457777766555443 5544    222222211       1112222222221   1111111       01222


Q ss_pred             HHHHhhcCC-----HHHHHHHHHhC------------CCCCC---------HHHHHHHHHHHHHcCCHH---HHHHHHHH
Q 043490          357 VDLLGRVGR-----ILEAEKLIREM------------PMEPD---------SVIWSVLLGSCRKHGETR---LAELAATK  407 (589)
Q Consensus       357 i~~~~~~g~-----~~~A~~~~~~m------------~~~p~---------~~~~~~ll~~~~~~g~~~---~a~~~~~~  407 (589)
                      +....-.|.     -+.-..++.+.            +.-|+         .-+.+.|+..|.+.++..   +|+-+++.
T Consensus       385 l~~~rl~G~~~~l~ad~i~a~~~kl~~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~  464 (932)
T KOG2053|consen  385 LLLLRLLGLYEKLPADSILAYVRKLKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLEN  464 (932)
T ss_pred             HHHHHHhhccccCChHHHHHHHHHHHHHHhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            222222221     11112222111            11122         234577888899988754   56667777


Q ss_pred             HhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCCccCC
Q 043490          408 LKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYP  451 (589)
Q Consensus       408 ~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~  451 (589)
                      .....|.|..+-..|+.+|.-.|-+..|..+++.+.-+.++.+.
T Consensus       465 glt~s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~DT  508 (932)
T KOG2053|consen  465 GLTKSPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTDT  508 (932)
T ss_pred             HhhcCCccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhcc
Confidence            77888988888889999999999999999999998877776553

>PLN02789 farnesyltranstransferase

Probab=98.18  E-value=0.0011  Score=64.74  Aligned_cols=216  Identities=13%  Similarity=0.071  Sum_probs=151.1

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhCcC-cHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCH--
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPDWC-TFSIVLKACAGLV-TERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSI--  267 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~~-~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~--  267 (589)
                      ...++.++|+.+..++++.  .|+.. .|+.--.++...+ +++++...++.+++.. +.+..+|+...-.+.+.|+.  
T Consensus        48 ~~~e~serAL~lt~~aI~l--nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~~  124 (320)
T PLN02789         48 ASDERSPRALDLTADVIRL--NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDAA  124 (320)
T ss_pred             HcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchhh
Confidence            7778999999999999874  45544 4444444445556 6799999999998876 56667787666566666653  


Q ss_pred             HHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhcc---Cc----HHHHHH
Q 043490          268 SLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHA---GL----VQEGNK  335 (589)
Q Consensus       268 ~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~---g~----~~~a~~  335 (589)
                      +++..+++++.   .+|..+|+.....+...|+++++++.++++ ...| |...|+.....+.+.   |.    .++..+
T Consensus       125 ~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~  204 (320)
T PLN02789        125 NKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEAMRDSELK  204 (320)
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhccccccccccHHHHHH
Confidence            67788887776   457789999999999999999999999999 5555 455666655555443   22    245666


Q ss_pred             HHHHhHHhcCCcc-CcchHHHHHHHHhhc----CCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcC------------
Q 043490          336 VFHSMLENHGVVP-QLDHYACMVDLLGRV----GRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHG------------  396 (589)
Q Consensus       336 ~~~~~~~~~~~~p-~~~~~~~li~~~~~~----g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g------------  396 (589)
                      +...++..   .| |...|+.+...|...    ++..+|.+++.+. ...| +......|+..|....            
T Consensus       205 y~~~aI~~---~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~  281 (320)
T PLN02789        205 YTIDAILA---NPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDT  281 (320)
T ss_pred             HHHHHHHh---CCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhc
Confidence            66555542   45 677888888888773    4456788888776 4445 4777888888887532            


Q ss_pred             ------CHHHHHHHHHHHhhcCC
Q 043490          397 ------ETRLAELAATKLKQLEP  413 (589)
Q Consensus       397 ------~~~~a~~~~~~~~~~~p  413 (589)
                            ..++|..+++.+.+.+|
T Consensus       282 ~~~~~~~~~~a~~~~~~l~~~d~  304 (320)
T PLN02789        282 LAEELSDSTLAQAVCSELEVADP  304 (320)
T ss_pred             cccccccHHHHHHHHHHHHhhCc
Confidence                  23556666666655555

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.17  E-value=0.00054  Score=68.17  Aligned_cols=213  Identities=16%  Similarity=0.076  Sum_probs=140.1

Q ss_pred             HHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChh----------HHHHHH
Q 043490          220 SIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLV----------SWNSIL  289 (589)
Q Consensus       220 ~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~----------~~~~li  289 (589)
                      .-+.++.-+..+++.+.+-+...+...  .+..-++....+|...|.+..+...-+...+..-.          +...+.
T Consensus       228 k~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g  305 (539)
T KOG0548|consen  228 KELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLG  305 (539)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhh
Confidence            345555556666777777777666654  45556666677777777776665554443322111          122233


Q ss_pred             HHHHHcCCHHHHHHHHHhC---CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcc-hHHHHHHHHhhcCC
Q 043490          290 KAYALHGQAKEALQLFSNM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLD-HYACMVDLLGRVGR  365 (589)
Q Consensus       290 ~~~~~~g~~~~A~~~~~~m---~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~-~~~~li~~~~~~g~  365 (589)
                      .+|.+.++++.|+..|++.   ...||.         ..+....+++.+......   -+.|... --..=...+.+.|+
T Consensus       306 ~a~~k~~~~~~ai~~~~kaLte~Rt~~~---------ls~lk~~Ek~~k~~e~~a---~~~pe~A~e~r~kGne~Fk~gd  373 (539)
T KOG0548|consen  306 NAYTKREDYEGAIKYYQKALTEHRTPDL---------LSKLKEAEKALKEAERKA---YINPEKAEEEREKGNEAFKKGD  373 (539)
T ss_pred             hhhhhHHhHHHHHHHHHHHhhhhcCHHH---------HHHHHHHHHHHHHHHHHH---hhChhHHHHHHHHHHHHHhccC
Confidence            4566667777777777776   222221         112233344444333221   2233221 11111456778899


Q ss_pred             HHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          366 ILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       366 ~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      +..|...+.++ ...| |...|.....+|.+.|++..|..-.+..++++|+....|..=+.++....+|+.|.+.|.+-.
T Consensus       374 y~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eal  453 (539)
T KOG0548|consen  374 YPEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEAL  453 (539)
T ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999988 4456 488899999999999999999999999999999999999988888989999999999998877


Q ss_pred             cCC
Q 043490          444 GSR  446 (589)
Q Consensus       444 ~~~  446 (589)
                      +.+
T Consensus       454 e~d  456 (539)
T KOG0548|consen  454 ELD  456 (539)
T ss_pred             hcC
Confidence            655

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.16  E-value=5.5e-05  Score=63.85  Aligned_cols=93  Identities=14%  Similarity=0.015  Sum_probs=81.8

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhc
Q 043490          352 HYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLS  429 (589)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  429 (589)
                      ..-.+...+...|++++|.++|+-. .+.|. ..-|-.|...|...|++++|+..+.++..++|+|+.++..+..+|...
T Consensus        37 ~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L~l  116 (157)
T PRK15363         37 TLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYLAC  116 (157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHc
Confidence            3444556677889999999999988 45564 778889999999999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHhc
Q 043490          430 GSFNKARLIRKEMKG  444 (589)
Q Consensus       430 g~~~~a~~~~~~m~~  444 (589)
                      |+.+.|++.|+....
T Consensus       117 G~~~~A~~aF~~Ai~  131 (157)
T PRK15363        117 DNVCYAIKALKAVVR  131 (157)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999999999998764

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.15  E-value=0.001  Score=65.73  Aligned_cols=118  Identities=19%  Similarity=0.187  Sum_probs=94.6

Q ss_pred             HhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHH
Q 043490          324 CSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLA  401 (589)
Q Consensus       324 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a  401 (589)
                      ....|.+++|+..++.+.+.  .+-|+.......+.+.+.++.++|.+.++++ ...|+ ...+-.+..++.+.|++.+|
T Consensus       316 ~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~ea  393 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEA  393 (484)
T ss_pred             HHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHH
Confidence            34568888888888887654  2335555666778888999999999999888 56677 66777788889999999999


Q ss_pred             HHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          402 ELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       402 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      +.+++.....+|.|+..|..|..+|...|+..++...+.+..
T Consensus       394 i~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~  435 (484)
T COG4783         394 IRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGY  435 (484)
T ss_pred             HHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHHH
Confidence            999999988889899999999999988888888877776654

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.11  E-value=0.00031  Score=76.35  Aligned_cols=193  Identities=7%  Similarity=0.030  Sum_probs=132.8

Q ss_pred             CHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CC-----------
Q 043490          215 DWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YH-----------  280 (589)
Q Consensus       215 ~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~-----------  280 (589)
                      +...+..|+..+-..+++++|.++.+...+.. +.....|-.+...|...++.+++..+  .+.   ..           
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~-P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~~~~~~~~~ve~~~  106 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEH-KKSISALYISGILSLSRRPLNDSNLL--NLIDSFSQNLKWAIVEHIC  106 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CcceehHHHHHHHHHhhcchhhhhhh--hhhhhcccccchhHHHHHH
Confidence            34456667777777777777777777555543 33334444444466666666665555  222   11           


Q ss_pred             --------ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCc
Q 043490          281 --------DLVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQL  350 (589)
Q Consensus       281 --------~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~  350 (589)
                              +..++..+..+|-+.|+.++|..+|+++ ...| |..+.+.+...++.. ++++|.+++...+..       
T Consensus       107 ~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~-------  178 (906)
T PRK14720        107 DKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR-------  178 (906)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH-------
Confidence                    1245666788888999999999999999 7767 456888888888888 999999998877654       


Q ss_pred             chHHHHHHHHhhcCCHHHHHHHHHhC----------------------CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 043490          351 DHYACMVDLLGRVGRILEAEKLIREM----------------------PMEPDSVIWSVLLGSCRKHGETRLAELAATKL  408 (589)
Q Consensus       351 ~~~~~li~~~~~~g~~~~A~~~~~~m----------------------~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  408 (589)
                               |...+++.++.+++.++                      +..--+.++-.+-..|...++++++..+++.+
T Consensus       179 ---------~i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~i  249 (906)
T PRK14720        179 ---------FIKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKI  249 (906)
T ss_pred             ---------HHhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHH
Confidence                     33333444444444443                      22223445555667788899999999999999


Q ss_pred             hhcCCCChhHHHHHHHHhh
Q 043490          409 KQLEPGDSLGFVQMSNIYC  427 (589)
Q Consensus       409 ~~~~p~~~~~~~~l~~~~~  427 (589)
                      ++.+|.|..+..-++..|.
T Consensus       250 L~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        250 LEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HhcCCcchhhHHHHHHHHH
Confidence            9999999888888888875

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.09  E-value=4e-05  Score=65.01  Aligned_cols=96  Identities=21%  Similarity=0.174  Sum_probs=77.6

Q ss_pred             chHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhh
Q 043490          351 DHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCL  428 (589)
Q Consensus       351 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  428 (589)
                      .....+...+...|++++|.+.|+.. ...| +...|..+...+...|+++.|...++++.+.+|.++..+..+..+|..
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~   97 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLA   97 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHH
Confidence            44556667777888888888888776 4345 477788888888888999999999999888888888888889999999


Q ss_pred             cCChHHHHHHHHHHhcCC
Q 043490          429 SGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       429 ~g~~~~a~~~~~~m~~~~  446 (589)
                      .|++++|.+.++...+..
T Consensus        98 ~g~~~~A~~~~~~al~~~  115 (135)
T TIGR02552        98 LGEPESALKALDLAIEIC  115 (135)
T ss_pred             cCCHHHHHHHHHHHHHhc
Confidence            999999999988777643

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>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=98.08  E-value=0.0001  Score=73.23  Aligned_cols=122  Identities=20%  Similarity=0.204  Sum_probs=98.3

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHH
Q 043490          317 FVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRK  394 (589)
Q Consensus       317 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~  394 (589)
                      ..+|+..+...++++.|.++|+++.+.   .|+  ....|+..+...++-.+|.+++++. ...| |...+..-...|.+
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~---~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRER---DPE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhc---CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence            445666666778888888888887643   243  5556777777778888888888777 3234 56777777778899


Q ss_pred             cCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          395 HGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       395 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      .++++.|..+.+++.+..|.+..+|..|+.+|.+.|++++|...++.+-
T Consensus       247 k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             cCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            9999999999999999999999999999999999999999999999875

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.06  E-value=8.1e-06  Score=50.56  Aligned_cols=35  Identities=34%  Similarity=0.659  Sum_probs=32.8

Q ss_pred             hHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH
Q 043490          169 ISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDW  216 (589)
Q Consensus       169 ~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~  216 (589)
                      ++||++|.+|             ++.|++++|.++|++|.+.|++||.
T Consensus         1 ~~~n~li~~~-------------~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGL-------------CKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHH-------------HHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            4799999999             9999999999999999999999983

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.05  E-value=0.00089  Score=66.11  Aligned_cols=146  Identities=21%  Similarity=0.217  Sum_probs=115.9

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHH-HHHHHhccCcHHHHHHHHHHhHHhcCCccC-cchHHHHH
Q 043490          281 DLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDSATFVS-LLSACSHAGLVQEGNKVFHSMLENHGVVPQ-LDHYACMV  357 (589)
Q Consensus       281 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~~-ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li  357 (589)
                      ....+.-....+...|+.++|+..++.+ +-.||..-|.. ....+...++.++|.+.++.++.   ..|+ ....-.+.
T Consensus       305 ~~aa~YG~A~~~~~~~~~d~A~~~l~~L~~~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~---l~P~~~~l~~~~a  381 (484)
T COG4783         305 GLAAQYGRALQTYLAGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKALA---LDPNSPLLQLNLA  381 (484)
T ss_pred             chHHHHHHHHHHHHhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCCccHHHHHHH
Confidence            3444555555667889999999999999 77787666554 45678899999999999999874   4666 44566778


Q ss_pred             HHHhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHH
Q 043490          358 DLLGRVGRILEAEKLIREM--PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKA  435 (589)
Q Consensus       358 ~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  435 (589)
                      .+|.+.|++.+|..++++.  ...-|+..|..|..+|...|+..++...                 ..+.|.-.|+|+.|
T Consensus       382 ~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A-----------------~AE~~~~~G~~~~A  444 (484)
T COG4783         382 QALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLA-----------------RAEGYALAGRLEQA  444 (484)
T ss_pred             HHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHH-----------------HHHHHHhCCCHHHH
Confidence            9999999999999999988  3334699999999999999998776554                 45667889999999


Q ss_pred             HHHHHHHhcCC
Q 043490          436 RLIRKEMKGSR  446 (589)
Q Consensus       436 ~~~~~~m~~~~  446 (589)
                      ...+....++.
T Consensus       445 ~~~l~~A~~~~  455 (484)
T COG4783         445 IIFLMRASQQV  455 (484)
T ss_pred             HHHHHHHHHhc
Confidence            99998887653

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.99  E-value=0.00087  Score=72.13  Aligned_cols=142  Identities=9%  Similarity=0.086  Sum_probs=116.8

Q ss_pred             CCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC--CC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHH-HHHHHH
Q 043490          247 FEDDTVIANALIHAYARCGSISLSKQVFDKMT--YH-DLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDSA-TFVSLL  321 (589)
Q Consensus       247 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~-t~~~ll  321 (589)
                      .+.++..+-.|.......|.+++|..+++...  .| +...+..++..+.+.+++++|+..+++. ...|+.. ....+.
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~a  161 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLEA  161 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHHH
Confidence            45678889999999999999999999999987  34 5568888999999999999999999999 8888765 455666


Q ss_pred             HHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHH
Q 043490          322 SACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM--PMEPDSVIWSVLLG  390 (589)
Q Consensus       322 ~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~  390 (589)
                      .++.+.|++++|..+|+++...  ..-+...+..+..++-..|+.++|...|++.  ...|....|+.++.
T Consensus       162 ~~l~~~g~~~~A~~~y~~~~~~--~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~~  230 (694)
T PRK15179        162 KSWDEIGQSEQADACFERLSRQ--HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRLV  230 (694)
T ss_pred             HHHHHhcchHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHHH
Confidence            6888999999999999999752  2224668888899999999999999999988  33455666665543

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.95  E-value=0.028  Score=56.44  Aligned_cols=144  Identities=10%  Similarity=0.045  Sum_probs=103.9

Q ss_pred             HHHHHHHHHhC----CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHH
Q 043490          298 AKEALQLFSNM----NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKL  372 (589)
Q Consensus       298 ~~~A~~~~~~m----~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~  372 (589)
                      .+...+.+++.    ..+|+ .+|..+++.-.+..-+..|+.+|.+..+. +..+ ++.++++++.-|+ .++.+-|.++
T Consensus       347 ~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR~~-~r~~hhVfVa~A~mEy~c-skD~~~AfrI  423 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKARED-KRTRHHVFVAAALMEYYC-SKDKETAFRI  423 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHhhc-cCCcchhhHHHHHHHHHh-cCChhHHHHH
Confidence            44555566666    33343 46777788777888889999999988655 5555 7778888887665 5677888998


Q ss_pred             HHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhc--CC-CChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          373 IREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQL--EP-GDSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       373 ~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~--~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      |+-- .--+| ..-....+.-+...++-..+..+|++++..  .| .....|..++.--+.-|+...+.++-+++..
T Consensus       424 FeLGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  424 FELGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             HHHHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            8765 22234 444566777778888889999999998876  22 2346788888888889999988888877654

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.95  E-value=0.028  Score=56.39  Aligned_cols=426  Identities=13%  Similarity=0.122  Sum_probs=241.1

Q ss_pred             CChhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--CCcchHHHHH
Q 043490            3 HSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--RNVVSWTALI   80 (589)
Q Consensus         3 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~~~~~~~~li   80 (589)
                      -|..+|+.|++-+... -.++++..++++...+|   ..+..|..-+..-.+..+++..+++|.+...  -++..|..-|
T Consensus        18 ~di~sw~~lire~qt~-~~~~~R~~YEq~~~~FP---~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvLnlDLW~lYl   93 (656)
T KOG1914|consen   18 YDIDSWSQLIREAQTQ-PIDKVRETYEQLVNVFP---SSPRAWKLYIERELASKDFESVEKLFSRCLVKVLNLDLWKLYL   93 (656)
T ss_pred             ccHHHHHHHHHHHccC-CHHHHHHHHHHHhccCC---CCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHhHHHHHH
Confidence            3677899999977666 89999999999998887   8889999999999999999999999998653  4677787777


Q ss_pred             HHHHh-CCChh----HHHHHHHHHHhc--cCCCcee-HHHHHHHhc-------------hhhHHHHHHHHHHhcCCCchh
Q 043490           81 SGYAQ-HGNAE----ECFRLFCSLLQY--FFPNEFS-LASVLISCD-------------YLHGKLVHALALKFSLDAHVY  139 (589)
Q Consensus        81 ~~~~~-~g~~~----~A~~~~~~m~~~--~~p~~~t-~~~~l~a~~-------------~~~~~~~~~~~~~~g~~~~~~  139 (589)
                      +---+ +|+..    .-.+.|+-....  ..+-+.+ |..-+.-..             ++..+.+...++..-+..=..
T Consensus        94 ~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlEk  173 (656)
T KOG1914|consen   94 SYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLEK  173 (656)
T ss_pred             HHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHHH
Confidence            63332 22222    223334444443  2222222 222222111             333334444333222111111


Q ss_pred             HHHHH------HH------HHh-c-CCHHHHHHHHhhCCC------CCh---------------hHHHHHHHHHHcCCcH
Q 043490          140 VANAL------IN------MYS-K-SCADEAWKVFENMEF------RNV---------------ISWNSMIAAFRACKLE  184 (589)
Q Consensus       140 ~~~~l------i~------~y~-~-g~~~~A~~lf~~m~~------~~~---------------~~~~~li~~~~~~g~~  184 (589)
                      .|+-.      |+      +-+ + ..+-.|++++++...      ++.               ..|-.+|.---.++.-
T Consensus       174 LW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL~  253 (656)
T KOG1914|consen  174 LWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPLR  253 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCcc
Confidence            11110      00      001 1 233455555554421      111               1244444321000000


Q ss_pred             HHHHHHHHHcCCH--HHHHHHHHH-HHHcCCCCCHHHH-HHHHH----HHhCcCc-------HHHHHHHHHHHHHhCCCC
Q 043490          185 AQAIELFAKMKNE--EEALFLFRQ-LQREGMAPDWCTF-SIVLK----ACAGLVT-------ERHASAVHSLIAKYGFED  249 (589)
Q Consensus       185 ~~a~~~~~~~g~~--~~A~~~~~~-m~~~g~~p~~~t~-~~ll~----a~~~~~~-------~~~a~~i~~~~~~~g~~~  249 (589)
                             ...|..  .+..-.+++ |.--+..|+..-. ...+.    .+...|+       -+++..+++..+..-...
T Consensus       254 -------t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~  326 (656)
T KOG1914|consen  254 -------TLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKE  326 (656)
T ss_pred             -------cccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHH
Confidence                   000000  111112222 2223344443221 11111    1122222       455666666666554444


Q ss_pred             cHHHHHHHHHHHHhcC---CHHHHHHHHhhcC----CCChhHHHHHHHHHHHcCCHHHHHHHHHhC---CCCC-CHHHHH
Q 043490          250 DTVIANALIHAYARCG---SISLSKQVFDKMT----YHDLVSWNSILKAYALHGQAKEALQLFSNM---NVQP-DSATFV  318 (589)
Q Consensus       250 ~~~~~~~li~~~~~~g---~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~p-~~~t~~  318 (589)
                      +..+|.++.+---..-   ..+.....+++..    ..-..+|-..+..-.+..-.+.|..+|.+.   +..+ +....+
T Consensus       327 ~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~  406 (656)
T KOG1914|consen  327 NKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAA  406 (656)
T ss_pred             HHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHH
Confidence            5555555543221111   2444445555544    122346777777777778889999999999   5555 666778


Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC---CCCCC--HHHHHHHHHHHH
Q 043490          319 SLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM---PMEPD--SVIWSVLLGSCR  393 (589)
Q Consensus       319 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~p~--~~~~~~ll~~~~  393 (589)
                      +++.-++ .++.+-|.++|+.-++++|-.|  .--...++-+...++-..|..+|++.   .+.||  ..+|..+|.-=.
T Consensus       407 A~mEy~c-skD~~~AfrIFeLGLkkf~d~p--~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES  483 (656)
T KOG1914|consen  407 ALMEYYC-SKDKETAFRIFELGLKKFGDSP--EYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYES  483 (656)
T ss_pred             HHHHHHh-cCChhHHHHHHHHHHHhcCCCh--HHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHH
Confidence            8887666 5889999999998877765433  34456788888999999999999998   23454  689999999999


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCC----hhHHHHHHHHhhhcCChHHHHHHHHHH
Q 043490          394 KHGETRLAELAATKLKQLEPGD----SLGFVQMSNIYCLSGSFNKARLIRKEM  442 (589)
Q Consensus       394 ~~g~~~~a~~~~~~~~~~~p~~----~~~~~~l~~~~~~~g~~~~a~~~~~~m  442 (589)
                      .-|+...+.++-++....-|.+    ...-..+++-|.-.+.+..-..-++.|
T Consensus       484 ~vGdL~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~c~~~elk~l  536 (656)
T KOG1914|consen  484 NVGDLNSILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYPCSLDELKFL  536 (656)
T ss_pred             hcccHHHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhcccccccHHHHHhh
Confidence            9999999999988876654411    123345666666666655444444433

>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=97.94  E-value=0.00023  Score=70.79  Aligned_cols=125  Identities=14%  Similarity=0.185  Sum_probs=88.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcH
Q 043490          253 IANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLV  330 (589)
Q Consensus       253 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~  330 (589)
                      ...+|+..+...++++.|..+|+++.+.++..+..++..+...++-.+|++++++. ...| +...+..-...|.+.+++
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~k~~~  250 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLSKKKY  250 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCH
Confidence            34455666666778888888888887666666666777777777778888888777 4444 444455555567777888


Q ss_pred             HHHHHHHHHhHHhcCCccC-cchHHHHHHHHhhcCCHHHHHHHHHhCCCCC
Q 043490          331 QEGNKVFHSMLENHGVVPQ-LDHYACMVDLLGRVGRILEAEKLIREMPMEP  380 (589)
Q Consensus       331 ~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p  380 (589)
                      +.|.++.+++.+   ..|+ ..+|..|...|.+.|++++|+..++.+|..|
T Consensus       251 ~lAL~iAk~av~---lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~~  298 (395)
T PF09295_consen  251 ELALEIAKKAVE---LSPSEFETWYQLAECYIQLGDFENALLALNSCPMLT  298 (395)
T ss_pred             HHHHHHHHHHHH---hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCCC
Confidence            888888877763   3554 4478888888888888888888888776544

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.90  E-value=2.4e-05  Score=48.09  Aligned_cols=34  Identities=32%  Similarity=0.633  Sum_probs=31.9

Q ss_pred             hhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC
Q 043490          168 VISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAP  214 (589)
Q Consensus       168 ~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p  214 (589)
                      +.+||++|.+|             .+.|+++.|.++|++|.+.|++|
T Consensus         1 v~ty~~ll~a~-------------~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    1 VHTYNALLRAC-------------AKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             CcHHHHHHHHH-------------HHCCCHHHHHHHHHHHHHhCCCC
Confidence            36899999999             99999999999999999999988

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.90  E-value=2e-05  Score=48.77  Aligned_cols=33  Identities=33%  Similarity=0.662  Sum_probs=30.3

Q ss_pred             chHHHHHHHHHhCCChhHHHHHHHHHHhc-cCCC
Q 043490           74 VSWTALISGYAQHGNAEECFRLFCSLLQY-FFPN  106 (589)
Q Consensus        74 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~p~  106 (589)
                      ++||++|++|++.|++++|.++|++|.+. +.||
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            47999999999999999999999999988 7776

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.

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.82  E-value=0.056  Score=55.88  Aligned_cols=195  Identities=12%  Similarity=0.086  Sum_probs=122.5

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHhcCCC-CCcch------------HHHHHHHHHhCCChhHHHHHHHHHHhccCCC
Q 043490           40 QDLFVTNHLINMYAKFGYLDDARHLFDEMPK-RNVVS------------WTALISGYAQHGNAEECFRLFCSLLQYFFPN  106 (589)
Q Consensus        40 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~-~~~~~------------~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~  106 (589)
                      |.+..|..|...-...-.++.|+..|-+... +.+..            -.+=|++|  -|++++|.++|-+|-+.    
T Consensus       690 PHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~feeaek~yld~drr----  763 (1189)
T KOG2041|consen  690 PHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEAEKLYLDADRR----  763 (1189)
T ss_pred             CchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHhhhhhhccchh----
Confidence            7788888888777777778888888876653 22111            11112222  47888888888777543    


Q ss_pred             ceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCCC-----ChhHHHHHHHHHHc
Q 043490          107 EFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEFR-----NVISWNSMIAAFRA  180 (589)
Q Consensus       107 ~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~~-----~~~~~~~li~~~~~  180 (589)
                                                         ...|.++.+ |++-...++++.-...     -...|+.+...+..
T Consensus       764 -----------------------------------DLAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~  808 (1189)
T KOG2041|consen  764 -----------------------------------DLAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAE  808 (1189)
T ss_pred             -----------------------------------hhhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHH
Confidence                                               234556666 7777666666553321     23578888888888


Q ss_pred             CCcHHHHHHHHHHcCCHHHHHHHH------HHHHH--cCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHH
Q 043490          181 CKLEAQAIELFAKMKNEEEALFLF------RQLQR--EGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTV  252 (589)
Q Consensus       181 ~g~~~~a~~~~~~~g~~~~A~~~~------~~m~~--~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~  252 (589)
                      ...|++|.+.|.+.|+.+.-.+.+      .++..  ..++-|....-.+..++.+.|.-++|.+.|-   +.+. |   
T Consensus       809 ~~~We~A~~yY~~~~~~e~~~ecly~le~f~~LE~la~~Lpe~s~llp~~a~mf~svGMC~qAV~a~L---r~s~-p---  881 (1189)
T KOG2041|consen  809 MMEWEEAAKYYSYCGDTENQIECLYRLELFGELEVLARTLPEDSELLPVMADMFTSVGMCDQAVEAYL---RRSL-P---  881 (1189)
T ss_pred             HHHHHHHHHHHHhccchHhHHHHHHHHHhhhhHHHHHHhcCcccchHHHHHHHHHhhchHHHHHHHHH---hccC-c---
Confidence            888888888888888776544433      22221  2244455666677777788888887776663   2232 2   


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcCCCChhH
Q 043490          253 IANALIHAYARCGSISLSKQVFDKMTYHDLVS  284 (589)
Q Consensus       253 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~  284 (589)
                        .+-++.+....++.+|.++-++..-|.+.+
T Consensus       882 --kaAv~tCv~LnQW~~avelaq~~~l~qv~t  911 (1189)
T KOG2041|consen  882 --KAAVHTCVELNQWGEAVELAQRFQLPQVQT  911 (1189)
T ss_pred             --HHHHHHHHHHHHHHHHHHHHHhccchhHHH
Confidence              133455666777777777777665554443

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.81  E-value=0.00043  Score=58.63  Aligned_cols=99  Identities=9%  Similarity=0.034  Sum_probs=56.3

Q ss_pred             HHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHc
Q 043490          219 FSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALH  295 (589)
Q Consensus       219 ~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~  295 (589)
                      ...+...+...|+.+.|.+.+..+...+ +.+...+..+...|.+.|++++|...|+...   ..+...|..+...|...
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~   98 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLAL   98 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHc
Confidence            4444445556666666666666665554 4455566666666666666666666666553   22344555555566666


Q ss_pred             CCHHHHHHHHHhC-CCCCCHHHHH
Q 043490          296 GQAKEALQLFSNM-NVQPDSATFV  318 (589)
Q Consensus       296 g~~~~A~~~~~~m-~~~p~~~t~~  318 (589)
                      |+.++|+..|++. ...|+...+.
T Consensus        99 g~~~~A~~~~~~al~~~p~~~~~~  122 (135)
T TIGR02552        99 GEPESALKALDLAIEICGENPEYS  122 (135)
T ss_pred             CCHHHHHHHHHHHHHhccccchHH
Confidence            6666666666655 5555444433

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.80  E-value=0.00028  Score=54.83  Aligned_cols=93  Identities=17%  Similarity=0.201  Sum_probs=74.5

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcC
Q 043490          353 YACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSG  430 (589)
Q Consensus       353 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  430 (589)
                      +..+...+...|++++|...+++. ...|+ ...+..+...+...++++.|...++...+..|.+...+..++.++...|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            445666777788888888888876 33443 4677778888888899999999999998888888788888999999999


Q ss_pred             ChHHHHHHHHHHhcC
Q 043490          431 SFNKARLIRKEMKGS  445 (589)
Q Consensus       431 ~~~~a~~~~~~m~~~  445 (589)
                      ++++|...+....+.
T Consensus        83 ~~~~a~~~~~~~~~~   97 (100)
T cd00189          83 KYEEALEAYEKALEL   97 (100)
T ss_pred             hHHHHHHHHHHHHcc
Confidence            999999988877643

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=97.78  E-value=0.0088  Score=65.39  Aligned_cols=222  Identities=14%  Similarity=0.120  Sum_probs=130.7

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHhcCCC--CCcc-hHHHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHH
Q 043490           40 QDLFVTNHLINMYAKFGYLDDARHLFDEMPK--RNVV-SWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLIS  116 (589)
Q Consensus        40 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a  116 (589)
                      .+...+..|+..|...+++++|.++.+.-.+  |+.. .|-.+...+.+.++..++..+  .+... .++..-|..+-. 
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~-~~~~~~~~~ve~-  104 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLL--NLIDS-FSQNLKWAIVEH-  104 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh--hhhhh-cccccchhHHHH-
Confidence            5566677777777777777777777664432  3332 222233355556666665555  33333 111111111111 


Q ss_pred             hchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCC---CChhHHHHHHHHHHcCCcHHHHHHHH-
Q 043490          117 CDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEF---RNVISWNSMIAAFRACKLEAQAIELF-  191 (589)
Q Consensus       117 ~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~-  191 (589)
                              +...+..  ...+...+-.|..+|.+ |+.++|..+++++.+   .|+...|.+...|... +.++|++++ 
T Consensus       105 --------~~~~i~~--~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~~m~~  173 (906)
T PRK14720        105 --------ICDKILL--YGENKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAITYLK  173 (906)
T ss_pred             --------HHHHHHh--hhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHHHHHH
Confidence                    1111111  22334466778889999 999999999999875   4677888888888666 777666553 


Q ss_pred             ------HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHHHhc
Q 043490          192 ------AKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKY-GFEDDTVIANALIHAYARC  264 (589)
Q Consensus       192 ------~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~-g~~~~~~~~~~li~~~~~~  264 (589)
                            ...+++.++.+++.++...  .|+               +.+.-.++.+.+... |...-+.++-.|-..|-+.
T Consensus       174 KAV~~~i~~kq~~~~~e~W~k~~~~--~~~---------------d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~  236 (906)
T PRK14720        174 KAIYRFIKKKQYVGIEEIWSKLVHY--NSD---------------DFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKAL  236 (906)
T ss_pred             HHHHHHHhhhcchHHHHHHHHHHhc--Ccc---------------cchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhh
Confidence                  4556777777777777663  232               222333333333333 3334455566667777788


Q ss_pred             CCHHHHHHHHhhcC---CCChhHHHHHHHHHH
Q 043490          265 GSISLSKQVFDKMT---YHDLVSWNSILKAYA  293 (589)
Q Consensus       265 g~~~~A~~~~~~~~---~~~~~~~~~li~~~~  293 (589)
                      .+++++..+|..+.   ..|..+..-++.+|.
T Consensus       237 ~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        237 EDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             hhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence            88888888888776   335556666666665

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.76  E-value=0.00099  Score=57.15  Aligned_cols=123  Identities=16%  Similarity=0.148  Sum_probs=74.0

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCH----HHHHHHHH
Q 043490          317 FVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPDS----VIWSVLLG  390 (589)
Q Consensus       317 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~----~~~~~ll~  390 (589)
                      |..++.+.. .++...+...++.+.+.++-.| .....-.+...+...|++++|...|+.. ...||.    .....|..
T Consensus        15 y~~~~~~~~-~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~   93 (145)
T PF09976_consen   15 YEQALQALQ-AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLAR   93 (145)
T ss_pred             HHHHHHHHH-CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHH
Confidence            444444443 5667777777777665432221 1122333446666777777777777776 212332    23444566


Q ss_pred             HHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHH
Q 043490          391 SCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKE  441 (589)
Q Consensus       391 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  441 (589)
                      .+...|++++|...++... ..+..+..+..+.++|.+.|++++|+..|+.
T Consensus        94 ~~~~~~~~d~Al~~L~~~~-~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   94 ILLQQGQYDEALATLQQIP-DEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHcCCHHHHHHHHHhcc-CcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            7777788888877775532 2233455667788888888888888887765

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.74  E-value=0.00068  Score=55.74  Aligned_cols=103  Identities=15%  Similarity=0.112  Sum_probs=56.7

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HHHHHHHH
Q 043490          316 TFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD----SVIWSVLL  389 (589)
Q Consensus       316 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~ll  389 (589)
                      ++..+...+...|++++|.+.|..+.+.+.-.+ ....+..+...+.+.|++++|.+.++.+ ...|+    ..++..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            344455555566666666666666654321111 1223444556666666666666666655 22222    34455556


Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCCCChhH
Q 043490          390 GSCRKHGETRLAELAATKLKQLEPGDSLG  418 (589)
Q Consensus       390 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  418 (589)
                      .++...|+.+.|...++++.+..|++..+
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  112 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPGSSAA  112 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcCChhH
Confidence            66666666666666666666666655443

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.74  E-value=5e-05  Score=58.21  Aligned_cols=78  Identities=18%  Similarity=0.173  Sum_probs=53.6

Q ss_pred             cCCHHHHHHHHHhC----CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHH
Q 043490          363 VGRILEAEKLIREM----PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLI  438 (589)
Q Consensus       363 ~g~~~~A~~~~~~m----~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  438 (589)
                      .|++++|+.+++++    +..|+...|-.+..++.+.|++++|..++++ .+.+|.+......++.+|.+.|++++|+++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            35666777776666    2122445555677888888888888888877 566665666666778888888888888888


Q ss_pred             HHH
Q 043490          439 RKE  441 (589)
Q Consensus       439 ~~~  441 (589)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            765

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.68  E-value=7.4e-05  Score=45.82  Aligned_cols=33  Identities=24%  Similarity=0.491  Sum_probs=28.9

Q ss_pred             cchHHHHHHHHHhCCChhHHHHHHHHHHhc-cCC
Q 043490           73 VVSWTALISGYAQHGNAEECFRLFCSLLQY-FFP  105 (589)
Q Consensus        73 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~p  105 (589)
                      +.+||++|.+|++.|+++.|.++|++|.+. ++|
T Consensus         1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    1 VHTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             CcHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            368999999999999999999999999887 555

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.68  E-value=0.036  Score=57.22  Aligned_cols=188  Identities=11%  Similarity=0.071  Sum_probs=103.4

Q ss_pred             CChhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCC--------ChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcc
Q 043490            3 HSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQ--------DLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVV   74 (589)
Q Consensus         3 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~--------~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~   74 (589)
                      |.+..|..|.......-.++.|...|-+... .+|++.        +.....+=+.  +-.|++++|++++-.|.++|..
T Consensus       690 PHprLWrllAe~Al~Kl~l~tAE~AFVrc~d-Y~Gik~vkrl~~i~s~~~q~aei~--~~~g~feeaek~yld~drrDLA  766 (1189)
T KOG2041|consen  690 PHPRLWRLLAEYALFKLALDTAEHAFVRCGD-YAGIKLVKRLRTIHSKEQQRAEIS--AFYGEFEEAEKLYLDADRRDLA  766 (1189)
T ss_pred             CchHHHHHHHHHHHHHHhhhhHhhhhhhhcc-ccchhHHHHhhhhhhHHHHhHhHh--hhhcchhHhhhhhhccchhhhh
Confidence            6777787777777776777777776654422 222211        1111111222  2258999999999999887754


Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHhccCCCce----eHHHHHHHhc----hhhHHHHHHHHHHhcCCCchhHHHHHHH
Q 043490           75 SWTALISGYAQHGNAEECFRLFCSLLQYFFPNEF----SLASVLISCD----YLHGKLVHALALKFSLDAHVYVANALIN  146 (589)
Q Consensus        75 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~----t~~~~l~a~~----~~~~~~~~~~~~~~g~~~~~~~~~~li~  146 (589)
                           |..+.+.|++-...++++.--..  .|..    .|..+-...+    ++.+.+.+.+..      +   ....+.
T Consensus       767 -----ielr~klgDwfrV~qL~r~g~~d--~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~------~---~e~~~e  830 (1189)
T KOG2041|consen  767 -----IELRKKLGDWFRVYQLIRNGGSD--DDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCG------D---TENQIE  830 (1189)
T ss_pred             -----HHHHHhhhhHHHHHHHHHccCCC--cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc------c---hHhHHH
Confidence                 44455556665555554321100  0110    1111111111    222222222110      0   123445


Q ss_pred             HHhc-CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 043490          147 MYSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQRE  210 (589)
Q Consensus       147 ~y~~-g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~  210 (589)
                      +|.+ ..+++-+.+-..+++. ....-.|...+.+.|..++|.+.|.+.++++.|+..-.++.+.
T Consensus       831 cly~le~f~~LE~la~~Lpe~-s~llp~~a~mf~svGMC~qAV~a~Lr~s~pkaAv~tCv~LnQW  894 (1189)
T KOG2041|consen  831 CLYRLELFGELEVLARTLPED-SELLPVMADMFTSVGMCDQAVEAYLRRSLPKAAVHTCVELNQW  894 (1189)
T ss_pred             HHHHHHhhhhHHHHHHhcCcc-cchHHHHHHHHHhhchHHHHHHHHHhccCcHHHHHHHHHHHHH
Confidence            5555 5566666666666553 3445567788888999999999999998888887666555543

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

Probab=97.67  E-value=0.0058  Score=55.71  Aligned_cols=17  Identities=12%  Similarity=0.206  Sum_probs=7.8

Q ss_pred             HHHhcCCHHHHHHHHhh
Q 043490          260 AYARCGSISLSKQVFDK  276 (589)
Q Consensus       260 ~~~~~g~~~~A~~~~~~  276 (589)
                      .|...|++++|++....
T Consensus       117 i~~~~~~~deAl~~~~~  133 (299)
T KOG3081|consen  117 IYMHDGDFDEALKALHL  133 (299)
T ss_pred             HhhcCCChHHHHHHHhc
Confidence            34444444444444444

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.66  E-value=0.0034  Score=56.75  Aligned_cols=180  Identities=17%  Similarity=0.186  Sum_probs=116.5

Q ss_pred             cCCHHHHHHHHhhcC--------CCChh-HHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHHHHHHHH-HHHhccCcHH
Q 043490          264 CGSISLSKQVFDKMT--------YHDLV-SWNSILKAYALHGQAKEALQLFSNM--NVQPDSATFVSLL-SACSHAGLVQ  331 (589)
Q Consensus       264 ~g~~~~A~~~~~~~~--------~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~t~~~ll-~a~~~~g~~~  331 (589)
                      ..+.++..+++..+.        .++.. .|..++-+....|+.+-|..+++++  .. |.+.-...+= --+-..|.++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchh
Confidence            356777777777665        12332 3444555566677788888888887  33 5443222221 1223457788


Q ss_pred             HHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Q 043490          332 EGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM--PMEPDSVIWSVLLGSCRKHGETRLAELAATKLK  409 (589)
Q Consensus       332 ~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  409 (589)
                      +|.++++.++++.  +.|..+|-.=+.+.-..|+--+|++-+.+.  .+-.|...|.-|...|...|+++.|.--++++.
T Consensus       104 ~A~e~y~~lL~dd--pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~l  181 (289)
T KOG3060|consen  104 EAIEYYESLLEDD--PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELL  181 (289)
T ss_pred             hHHHHHHHHhccC--cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHH
Confidence            8888888876542  335556666666666667666777666555  344578888888888888888888888888888


Q ss_pred             hcCCCChhHHHHHHHHhhhcC---ChHHHHHHHHHHhcCC
Q 043490          410 QLEPGDSLGFVQMSNIYCLSG---SFNKARLIRKEMKGSR  446 (589)
Q Consensus       410 ~~~p~~~~~~~~l~~~~~~~g---~~~~a~~~~~~m~~~~  446 (589)
                      -..|.++..+..+++.+.-.|   +.+-+++.+.+..+..
T Consensus       182 l~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  182 LIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            888888777777877765554   3455666666665543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.65  E-value=0.00064  Score=55.90  Aligned_cols=97  Identities=13%  Similarity=0.049  Sum_probs=81.5

Q ss_pred             chHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC---hhHHHHH
Q 043490          351 DHYACMVDLLGRVGRILEAEKLIREM-PMEPD----SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGD---SLGFVQM  422 (589)
Q Consensus       351 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l  422 (589)
                      .++..+...+.+.|++++|.+.|+.+ ...|+    ...+..+..++.+.|+++.|...++.+....|.+   +.++..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            35667788889999999999999988 33343    3566778899999999999999999999988764   4578899


Q ss_pred             HHHhhhcCChHHHHHHHHHHhcCCC
Q 043490          423 SNIYCLSGSFNKARLIRKEMKGSRV  447 (589)
Q Consensus       423 ~~~~~~~g~~~~a~~~~~~m~~~~~  447 (589)
                      ..+|.+.|++++|.+.++++.+...
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~p  107 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKRYP  107 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHHCc
Confidence            9999999999999999999987643

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.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.61  E-value=7.7e-05  Score=44.60  Aligned_cols=31  Identities=35%  Similarity=0.710  Sum_probs=28.7

Q ss_pred             hHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Q 043490          169 ISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGM  212 (589)
Q Consensus       169 ~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~  212 (589)
                      ++||+||++|             .+.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~-------------~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGY-------------CKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHH-------------HccchHHHHHHHHHHHhHCcC
Confidence            5899999999             999999999999999998874

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.

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

Probab=97.60  E-value=0.0074  Score=55.06  Aligned_cols=148  Identities=13%  Similarity=0.077  Sum_probs=107.2

Q ss_pred             HHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhh----c
Q 043490          289 LKAYALHGQAKEALQLFSNM-NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGR----V  363 (589)
Q Consensus       289 i~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~----~  363 (589)
                      ...|...|++++|++..... +++  ....  =...+.+..+.+.|.+.++.|.+   + .+..+.+.|..++.+    .
T Consensus       115 a~i~~~~~~~deAl~~~~~~~~lE--~~Al--~VqI~lk~~r~d~A~~~lk~mq~---i-ded~tLtQLA~awv~la~gg  186 (299)
T KOG3081|consen  115 AIIYMHDGDFDEALKALHLGENLE--AAAL--NVQILLKMHRFDLAEKELKKMQQ---I-DEDATLTQLAQAWVKLATGG  186 (299)
T ss_pred             hHHhhcCCChHHHHHHHhccchHH--HHHH--HHHHHHHHHHHHHHHHHHHHHHc---c-chHHHHHHHHHHHHHHhccc
Confidence            34578889999999988874 322  2222  22334456788888888888853   2 234456656655544    4


Q ss_pred             CCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHH-HHHHH
Q 043490          364 GRILEAEKLIREM--PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKA-RLIRK  440 (589)
Q Consensus       364 g~~~~A~~~~~~m--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a-~~~~~  440 (589)
                      +.+.+|.-+|++|  ...|+..+.+-...++...|++++|+.+++.++..++.++.+...++-.-...|.-.++ .+.+.
T Consensus       187 ek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~l~  266 (299)
T KOG3081|consen  187 EKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTERNLS  266 (299)
T ss_pred             hhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHHHHH
Confidence            5788999999999  46788888888888999999999999999999999988888888888777777776555 44555


Q ss_pred             HHhc
Q 043490          441 EMKG  444 (589)
Q Consensus       441 ~m~~  444 (589)
                      .++.
T Consensus       267 QLk~  270 (299)
T KOG3081|consen  267 QLKL  270 (299)
T ss_pred             HHHh
Confidence            5544

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.59  E-value=0.024  Score=51.47  Aligned_cols=164  Identities=15%  Similarity=0.163  Sum_probs=109.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHH---HHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCc
Q 043490          255 NALIHAYARCGSISLSKQVFDKMTYHDLVSWNSI---LKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGL  329 (589)
Q Consensus       255 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l---i~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~  329 (589)
                      .-++-+...+|+.+.|..+++.+..+=+-++...   ..-+-..|++++|+++|+.. .-.| |.+++..=+...-..|.
T Consensus        56 EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK  135 (289)
T KOG3060|consen   56 EQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDDPTDTVIRKRKLAILKAQGK  135 (289)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhHHHHHHHHhccCcchhHHHHHHHHHHHHcCC
Confidence            3444445556777777777666542111111111   11233468888888888888 4445 55666655555556677


Q ss_pred             HHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHc---CCHHHHHHH
Q 043490          330 VQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKH---GETRLAELA  404 (589)
Q Consensus       330 ~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~---g~~~~a~~~  404 (589)
                      .-+|.+-+....+.  +..|.+.|.-+.+.|...|++++|.-.++++ -+.|- ...+..+...+.-.   .+.+.+.+.
T Consensus       136 ~l~aIk~ln~YL~~--F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arky  213 (289)
T KOG3060|consen  136 NLEAIKELNEYLDK--FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLELARKY  213 (289)
T ss_pred             cHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            77888877777664  4668889999999999999999999999998 34554 44555555554433   367889999


Q ss_pred             HHHHhhcCCCChhHHH
Q 043490          405 ATKLKQLEPGDSLGFV  420 (589)
Q Consensus       405 ~~~~~~~~p~~~~~~~  420 (589)
                      +.+.+++.|.+...+.
T Consensus       214 y~~alkl~~~~~ral~  229 (289)
T KOG3060|consen  214 YERALKLNPKNLRALF  229 (289)
T ss_pred             HHHHHHhChHhHHHHH
Confidence            9999999985554433

>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=97.58  E-value=0.00024  Score=52.05  Aligned_cols=64  Identities=16%  Similarity=0.163  Sum_probs=58.8

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcC-ChHHHHHHHHHHhc
Q 043490          381 DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSG-SFNKARLIRKEMKG  444 (589)
Q Consensus       381 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~a~~~~~~m~~  444 (589)
                      ++.+|..+...+...|++++|+..|+++++.+|.++.+|..++.+|...| ++++|++.+++..+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            46788999999999999999999999999999999999999999999999 79999999987654

...

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.58  E-value=0.00065  Score=62.96  Aligned_cols=98  Identities=16%  Similarity=0.109  Sum_probs=68.2

Q ss_pred             HhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHH
Q 043490          324 CSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRL  400 (589)
Q Consensus       324 ~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~  400 (589)
                      ..+.+++++|+..|...+   .+.| |..-|..-..+|.+.|.++.|.+-.+.. .+.|. ..+|..|..+|...|++++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI---~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAI---ELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHhhhHHHHHHHHHHHH---hcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHH
Confidence            345566777777776665   3454 4445555566777777777777766655 55665 6788888888888888888


Q ss_pred             HHHHHHHHhhcCCCChhHHHHHHH
Q 043490          401 AELAATKLKQLEPGDSLGFVQMSN  424 (589)
Q Consensus       401 a~~~~~~~~~~~p~~~~~~~~l~~  424 (589)
                      |++.|++.++++|++......|-.
T Consensus       168 A~~aykKaLeldP~Ne~~K~nL~~  191 (304)
T KOG0553|consen  168 AIEAYKKALELDPDNESYKSNLKI  191 (304)
T ss_pred             HHHHHHhhhccCCCcHHHHHHHHH
Confidence            888888888888877744444433

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.52  E-value=0.00011  Score=43.87  Aligned_cols=29  Identities=34%  Similarity=0.659  Sum_probs=24.9

Q ss_pred             chHHHHHHHHHhCCChhHHHHHHHHHHhc
Q 043490           74 VSWTALISGYAQHGNAEECFRLFCSLLQY  102 (589)
Q Consensus        74 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~  102 (589)
                      ++||+||++|++.|++++|.++|++|.+.
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~   29 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRER   29 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHC
Confidence            47899999999999999999999988764

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.

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.50  E-value=0.00073  Score=67.44  Aligned_cols=104  Identities=17%  Similarity=0.122  Sum_probs=84.3

Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcC
Q 043490          320 LLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHG  396 (589)
Q Consensus       320 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g  396 (589)
                      -...+...|++++|.+.|..+++.   .| +...|..+..+|.+.|++++|+..++++ .+.|+ ...|..+..+|...|
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~---~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDL---DPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhC
Confidence            345566789999999999988753   44 5567888888999999999999999888 55664 778888888999999


Q ss_pred             CHHHHHHHHHHHhhcCCCChhHHHHHHHHh
Q 043490          397 ETRLAELAATKLKQLEPGDSLGFVQMSNIY  426 (589)
Q Consensus       397 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  426 (589)
                      +++.|+..++++++++|.++.....+..+.
T Consensus        85 ~~~eA~~~~~~al~l~P~~~~~~~~l~~~~  114 (356)
T PLN03088         85 EYQTAKAALEKGASLAPGDSRFTKLIKECD  114 (356)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            999999999999999998877766654443

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.49  E-value=0.0072  Score=51.80  Aligned_cols=22  Identities=18%  Similarity=0.063  Sum_probs=9.7

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHH
Q 043490          353 YACMVDLLGRVGRILEAEKLIR  374 (589)
Q Consensus       353 ~~~li~~~~~~g~~~~A~~~~~  374 (589)
                      +....+.|.+.|+.++|...|+
T Consensus       121 ~~~~Gdi~~~~g~~~~A~~~y~  142 (145)
T PF09976_consen  121 AELLGDIYLAQGDYDEARAAYQ  142 (145)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHH
Confidence            3334444444444444444443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.45  E-value=0.0045  Score=64.60  Aligned_cols=64  Identities=25%  Similarity=0.215  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          382 SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       382 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      ...|.++.-.....|++++|...++++++++| +...|..++.+|...|+.++|...+++....+
T Consensus       420 ~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        420 PRIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            44555554444555666666666666666666 45566666666666666666666666554433

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.44  E-value=0.0015  Score=57.85  Aligned_cols=80  Identities=21%  Similarity=0.100  Sum_probs=60.7

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHh
Q 043490          352 HYACMVDLLGRVGRILEAEKLIREM-PMEPD----SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIY  426 (589)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  426 (589)
                      .+..+...|.+.|++++|...|++. ...|+    ...|..+...+.+.|+++.|...++++.+..|.+...+..+..+|
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~  116 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVIY  116 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            4556666677777777777777766 22222    457778888888889999999999999888888888888888888


Q ss_pred             hhcCC
Q 043490          427 CLSGS  431 (589)
Q Consensus       427 ~~~g~  431 (589)
                      ...|+
T Consensus       117 ~~~g~  121 (172)
T PRK02603        117 HKRGE  121 (172)
T ss_pred             HHcCC
Confidence            87776

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.42  E-value=0.00049  Score=49.65  Aligned_cols=58  Identities=14%  Similarity=0.161  Sum_probs=44.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          388 LLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       388 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      +...+...|++++|+..++++++..|.++..+..+..++...|++++|...+++..+.
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            3456677788888888888888888888888888888888888888888888777643

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.42  E-value=0.0034  Score=55.63  Aligned_cols=126  Identities=16%  Similarity=0.149  Sum_probs=70.7

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHH
Q 043490          282 LVSWNSILKAYALHGQAKEALQLFSNM-NVQPD----SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYAC  355 (589)
Q Consensus       282 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~  355 (589)
                      ...+..+...+...|++++|+..|++. ...|+    ...+..+...+.+.|++++|...+......   .| +...+..
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~  111 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL---NPKQPSALNN  111 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcccHHHHHH
Confidence            345556666666677777777777766 33332    235555666666666777776666665432   23 2334444


Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCC
Q 043490          356 MVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGS  431 (589)
Q Consensus       356 li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  431 (589)
                      +...|...|+...+..-++..                  ...++.|.+.++++.+.+|++   |..++..+...|+
T Consensus       112 lg~~~~~~g~~~~a~~~~~~A------------------~~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~~  166 (172)
T PRK02603        112 IAVIYHKRGEKAEEAGDQDEA------------------EALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHHcCChHhHhhCHHHH------------------HHHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcCc
Confidence            455555555544433322211                  012577888888888888855   5555555555444

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.38  E-value=0.15  Score=49.27  Aligned_cols=272  Identities=17%  Similarity=0.128  Sum_probs=180.0

Q ss_pred             CCHHHHHHHHhhCC---CCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHH--HHHHHHHH
Q 043490          151 SCADEAWKVFENME---FRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWC--TFSIVLKA  225 (589)
Q Consensus       151 g~~~~A~~lf~~m~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--t~~~ll~a  225 (589)
                      |+-..|+++-.+-.   ..|....--++.+-.           -.-.|++++|.+-|+.|...   |...  -+..|.-.
T Consensus        98 Gda~lARkmt~~~~~llssDqepLIhlLeAQa-----------al~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyle  163 (531)
T COG3898          98 GDASLARKMTARASKLLSSDQEPLIHLLEAQA-----------ALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLE  163 (531)
T ss_pred             CchHHHHHHHHHHHhhhhccchHHHHHHHHHH-----------HHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHH
Confidence            67777776655432   233333333333220           14568889999999998762   2221  22333334


Q ss_pred             HhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC-----CCChh--HHHHHHHHHH---Hc
Q 043490          226 CAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT-----YHDLV--SWNSILKAYA---LH  295 (589)
Q Consensus       226 ~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~~~~--~~~~li~~~~---~~  295 (589)
                      ..+.|+.+.|++.-+..-..- +.-.....+++...+..|+++.|+++.+.-.     ++++.  .-..|+.+-+   -.
T Consensus       164 Aqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ld  242 (531)
T COG3898         164 AQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLD  242 (531)
T ss_pred             HHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhc
Confidence            467888888888887776553 3345677888999999999999999998654     44543  2223333322   13


Q ss_pred             CCHHHHHHHHHhC-CCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHH
Q 043490          296 GQAKEALQLFSNM-NVQPDSA-TFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLI  373 (589)
Q Consensus       296 g~~~~A~~~~~~m-~~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  373 (589)
                      -+...|.+.-.+. ++.||-+ .-..-..++.+.|++.++-.+++.+-+.   .|.+..+.  +-.+.|.|+  .+..-+
T Consensus       243 adp~~Ar~~A~~a~KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~---ePHP~ia~--lY~~ar~gd--ta~dRl  315 (531)
T COG3898         243 ADPASARDDALEANKLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKA---EPHPDIAL--LYVRARSGD--TALDRL  315 (531)
T ss_pred             CChHHHHHHHHHHhhcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhc---CCChHHHH--HHHHhcCCC--cHHHHH
Confidence            4566677766666 7888865 3444566889999999999999988654   55544432  223345554  333333


Q ss_pred             HhC----CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhc-CChHHHHHHHHHHhcC
Q 043490          374 REM----PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLS-GSFNKARLIRKEMKGS  445 (589)
Q Consensus       374 ~~m----~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~~  445 (589)
                      ++.    .++|| ..+.-.+..+....|++..|..-.+.+....| ....|..|.++-... |+-.+++..+.+-.+.
T Consensus       316 kRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~p-res~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         316 KRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAP-RESAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             HHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCc-hhhHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            332    44565 77777888899999999999999999999998 567888999887655 9999999988876653

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.37  E-value=0.0028  Score=63.23  Aligned_cols=100  Identities=13%  Similarity=0.151  Sum_probs=79.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcC
Q 043490          288 ILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVG  364 (589)
Q Consensus       288 li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g  364 (589)
                      -...+...|++++|++.|++. ...|+ ...|..+..++...|++++|...++.+++.   .| +...|..+..+|...|
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l---~P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIEL---DPSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcCCHHHHHHHHHHHHHhC
Confidence            345677889999999999999 77775 567778888999999999999999988743   45 5667888899999999


Q ss_pred             CHHHHHHHHHhC-CCCCCHHHHHHHHH
Q 043490          365 RILEAEKLIREM-PMEPDSVIWSVLLG  390 (589)
Q Consensus       365 ~~~~A~~~~~~m-~~~p~~~~~~~ll~  390 (589)
                      ++++|...|++. .+.|+.......+.
T Consensus        85 ~~~eA~~~~~~al~l~P~~~~~~~~l~  111 (356)
T PLN03088         85 EYQTAKAALEKGASLAPGDSRFTKLIK  111 (356)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            999999999988 55666444444443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.35  E-value=0.17  Score=49.29  Aligned_cols=104  Identities=16%  Similarity=0.180  Sum_probs=58.8

Q ss_pred             HHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 043490          258 IHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVF  337 (589)
Q Consensus       258 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~~~~  337 (589)
                      |.-+...|+...|.++-....-||-.-|-..+.+|+..+++++-.++...   +-.++.|...+.+|...|...+|..+.
T Consensus       184 i~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s---kKsPIGyepFv~~~~~~~~~~eA~~yI  260 (319)
T PF04840_consen  184 IRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS---KKSPIGYEPFVEACLKYGNKKEASKYI  260 (319)
T ss_pred             HHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC---CCCCCChHHHHHHHHHCCCHHHHHHHH
Confidence            33444556666666666666666666666666666666666655543322   223355566666666666666666555


Q ss_pred             HHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHh
Q 043490          338 HSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIRE  375 (589)
Q Consensus       338 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  375 (589)
                      ..+           .+..-+.+|.++|++.+|.+.--+
T Consensus       261 ~k~-----------~~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  261 PKI-----------PDEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HhC-----------ChHHHHHHHHHCCCHHHHHHHHHH
Confidence            432           123455666666666666555433

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

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.34  E-value=0.001  Score=47.98  Aligned_cols=61  Identities=20%  Similarity=0.234  Sum_probs=49.7

Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCh
Q 043490          356 MVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDS  416 (589)
Q Consensus       356 li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  416 (589)
                      +...+.+.|++++|.+.|++. ...|+ ...|..+..++...|++++|...++++++..|+++
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            445677888889999888888 55675 78888899999999999999999999999999764

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.34  E-value=0.027  Score=57.58  Aligned_cols=134  Identities=13%  Similarity=0.098  Sum_probs=93.3

Q ss_pred             HHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHH
Q 043490          175 IAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIA  254 (589)
Q Consensus       175 i~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~  254 (589)
                      ...+...|+.++|+++...+|-.+-+.++=+++..    .+..+...+..-+-+...+..|.++|..|-..         
T Consensus       710 AEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~----~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------  776 (1081)
T KOG1538|consen  710 AEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDK----AEREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------  776 (1081)
T ss_pred             HHHhhcccchhhhhhhhhcccHHHHHHHHHhhcch----hhhhHHHHHHHHHhhccccchHHHHHHHhccH---------
Confidence            34456678888888888888888777777666543    24445555555556677778888888776432         


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHH
Q 043490          255 NALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGN  334 (589)
Q Consensus       255 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~  334 (589)
                      .+++++....+++++|..+-++.++--...|-.-..-++...++++|.+.|.                   ++|+-.+|.
T Consensus       777 ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqkAfh-------------------kAGr~~EA~  837 (1081)
T KOG1538|consen  777 KSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQKAFH-------------------KAGRQREAV  837 (1081)
T ss_pred             HHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHHHHHH-------------------HhcchHHHH
Confidence            3678889999999999999999885444444445556667777777765443                   457777777


Q ss_pred             HHHHHh
Q 043490          335 KVFHSM  340 (589)
Q Consensus       335 ~~~~~~  340 (589)
                      ++++++
T Consensus       838 ~vLeQL  843 (1081)
T KOG1538|consen  838 QVLEQL  843 (1081)
T ss_pred             HHHHHh
Confidence            777766

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.33  E-value=0.0019  Score=57.05  Aligned_cols=93  Identities=18%  Similarity=-0.043  Sum_probs=74.5

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHH
Q 043490          350 LDHYACMVDLLGRVGRILEAEKLIREM-PMEPD----SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSN  424 (589)
Q Consensus       350 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  424 (589)
                      ...|..+...+...|++++|+..|++. .+.|+    ..+|..+...+...|++++|+..++++.++.|.....+..+..
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~  114 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHH
Confidence            345666777777889999999988887 33332    3578889999999999999999999999999988888888888


Q ss_pred             Hhh-------hcCChHHHHHHHHHH
Q 043490          425 IYC-------LSGSFNKARLIRKEM  442 (589)
Q Consensus       425 ~~~-------~~g~~~~a~~~~~~m  442 (589)
                      +|.       ..|++++|...+++-
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHHH
Confidence            888       788888776666543

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.32  E-value=0.0038  Score=49.04  Aligned_cols=72  Identities=17%  Similarity=0.154  Sum_probs=62.8

Q ss_pred             HHcCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHhCcC--------cHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGM-APDWCTFSIVLKACAGLV--------TERHASAVHSLIAKYGFEDDTVIANALIHAYA  262 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~a~~~~~--------~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~  262 (589)
                      ...+++.....+|+.+++.|+ .|+..+|+.+|.+.++..        .+-....+|+.|+..+++|+..+|+.++..+.
T Consensus        36 ~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl~~Ll  115 (120)
T PF08579_consen   36 FENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVLGSLL  115 (120)
T ss_pred             HhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHH
Confidence            666999999999999999999 899999999999986542        34556788999999999999999999998876


Q ss_pred             h
Q 043490          263 R  263 (589)
Q Consensus       263 ~  263 (589)
                      +
T Consensus       116 k  116 (120)
T PF08579_consen  116 K  116 (120)
T ss_pred             H
Confidence            5

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 [, , ].

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.31  E-value=0.0037  Score=58.45  Aligned_cols=103  Identities=12%  Similarity=0.040  Sum_probs=88.0

Q ss_pred             ccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHc---CCHHHHHHHHHHHhhcCCCChhHHHH
Q 043490          347 VPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKH---GETRLAELAATKLKQLEPGDSLGFVQ  421 (589)
Q Consensus       347 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~---g~~~~a~~~~~~~~~~~p~~~~~~~~  421 (589)
                      +-|...|-.|...|.+.|++..|..-|.+. .+.| +...+..+..++...   ....++..+++++++.+|.|..+...
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~l  232 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSL  232 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHH
Confidence            348889999999999999999999999988 4444 477777777766544   34688999999999999999999999


Q ss_pred             HHHHhhhcCChHHHHHHHHHHhcCCCcc
Q 043490          422 MSNIYCLSGSFNKARLIRKEMKGSRVRK  449 (589)
Q Consensus       422 l~~~~~~~g~~~~a~~~~~~m~~~~~~~  449 (589)
                      |...+...|++.+|...|+.|.+....-
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~lp~~  260 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLLPAD  260 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCCCC
Confidence            9999999999999999999999876543

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.31  E-value=0.19  Score=48.74  Aligned_cols=242  Identities=18%  Similarity=0.131  Sum_probs=162.3

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH--hCcCcHHHHHHHHHHHHHhCCCCcHH--HHHHHHHHHHhcCCH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKAC--AGLVTERHASAVHSLIAKYGFEDDTV--IANALIHAYARCGSI  267 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~--~~~~~~~~a~~i~~~~~~~g~~~~~~--~~~~li~~~~~~g~~  267 (589)
                      .-.|+-..|.++-.+-.+. +..|...+.-+|.+-  .-.|+.+.|++-|+-|...   |...  -...|.-.--+.|..
T Consensus        95 agAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~Gar  170 (531)
T COG3898          95 AGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAR  170 (531)
T ss_pred             hccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccH
Confidence            4457777776666554322 455666666677665  4569999999999999863   2221  122333344567899


Q ss_pred             HHHHHHHhhcCC---CChhHHHHHHHHHHHcCCHHHHHHHHHhC----CCCCCHH--HHHHHHHHHhc---cCcHHHHHH
Q 043490          268 SLSKQVFDKMTY---HDLVSWNSILKAYALHGQAKEALQLFSNM----NVQPDSA--TFVSLLSACSH---AGLVQEGNK  335 (589)
Q Consensus       268 ~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~~~--t~~~ll~a~~~---~g~~~~a~~  335 (589)
                      +.|..+-+..-.   .-...|.+.+...+..|+++.|+++.+.-    -+.++..  .-..|+.+-..   ..+...|..
T Consensus       171 eaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~  250 (531)
T COG3898         171 EAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARD  250 (531)
T ss_pred             HHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHH
Confidence            988888777652   23468899999999999999999999887    4566643  23334433221   224555555


Q ss_pred             HHHHhHHhcCCccCcchHHH-HHHHHhhcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHcCCHHHH-HHHHHHHhhcC
Q 043490          336 VFHSMLENHGVVPQLDHYAC-MVDLLGRVGRILEAEKLIREM-PMEPDSVIWSVLLGSCRKHGETRLA-ELAATKLKQLE  412 (589)
Q Consensus       336 ~~~~~~~~~~~~p~~~~~~~-li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~~~~~~g~~~~a-~~~~~~~~~~~  412 (589)
                      .-.+.   ..+.||...-.. -..+|.+.|++.++-.+++.+ ...|...+|....  ..+.|+.... .+-.+++..+.
T Consensus       251 ~A~~a---~KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia~lY~--~ar~gdta~dRlkRa~~L~slk  325 (531)
T COG3898         251 DALEA---NKLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIALLYV--RARSGDTALDRLKRAKKLESLK  325 (531)
T ss_pred             HHHHH---hhcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHHHHHH--HhcCCCcHHHHHHHHHHHHhcC
Confidence            44333   356777654333 346789999999999999999 6678887775433  3455554332 23345566788


Q ss_pred             CCChhHHHHHHHHhhhcCChHHHHHHHHHH
Q 043490          413 PGDSLGFVQMSNIYCLSGSFNKARLIRKEM  442 (589)
Q Consensus       413 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  442 (589)
                      |++......+..+-...|++..|+.--+..
T Consensus       326 ~nnaes~~~va~aAlda~e~~~ARa~Aeaa  355 (531)
T COG3898         326 PNNAESSLAVAEAALDAGEFSAARAKAEAA  355 (531)
T ss_pred             ccchHHHHHHHHHHHhccchHHHHHHHHHH
Confidence            999999999999999999998877655444

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.25  E-value=0.0034  Score=48.49  Aligned_cols=91  Identities=22%  Similarity=0.202  Sum_probs=46.6

Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcC
Q 043490          320 LLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHG  396 (589)
Q Consensus       320 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g  396 (589)
                      +...+...|++++|...++...+.   .| +...+..+...+...|++++|.+.+++. ...| +..++..+...+...|
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           6 LGNLYYKLGDYDEALEYYEKALEL---DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHhcHHHHHHHHHHHHhc---CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            333444445555555555544322   12 1233444455555555555555555544 2222 2345556666666666


Q ss_pred             CHHHHHHHHHHHhhcCC
Q 043490          397 ETRLAELAATKLKQLEP  413 (589)
Q Consensus       397 ~~~~a~~~~~~~~~~~p  413 (589)
                      +.+.|...+++..+..|
T Consensus        83 ~~~~a~~~~~~~~~~~~   99 (100)
T cd00189          83 KYEEALEAYEKALELDP   99 (100)
T ss_pred             hHHHHHHHHHHHHccCC
Confidence            66666666666665554

>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=97.24  E-value=0.00059  Score=49.74  Aligned_cols=53  Identities=17%  Similarity=0.206  Sum_probs=43.2

Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          393 RKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       393 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      ...|++++|+..++++.+..|++..++..++.+|.+.|++++|.++++++...
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            45788888888888888888888888888888888888888888888877654

...

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.20  E-value=0.0039  Score=55.39  Aligned_cols=103  Identities=12%  Similarity=0.188  Sum_probs=83.3

Q ss_pred             HHHHHhhC--CCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCc----
Q 043490          156 AWKVFENM--EFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGL----  229 (589)
Q Consensus       156 A~~lf~~m--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~----  229 (589)
                      -...|+..  ..+|-.+|..++..|.+...        .+.|..+=....++.|.+-|+.-|..+|+.||+.+=+.    
T Consensus        33 ~~~~f~~~~~~~k~K~~F~~~V~~f~~~~~--------~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp  104 (228)
T PF06239_consen   33 HEELFERAPGQAKDKATFLEAVDIFKQRDV--------RRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVP  104 (228)
T ss_pred             hHHHHHHHhhccccHHHHHHHHHHHHhcCC--------CCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCccc
Confidence            34566665  46788889888888854432        56688888888999999999999999999999987432    


Q ss_pred             ------------CcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCC
Q 043490          230 ------------VTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGS  266 (589)
Q Consensus       230 ------------~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~  266 (589)
                                  .+-+.|.+++++|...|+-||..++..|++.+++.+.
T Consensus       105 ~n~fQ~~F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  105 RNFFQAEFMHYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             ccHHHHHhccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence                        3456789999999999999999999999998887664

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.19  E-value=0.028  Score=54.23  Aligned_cols=143  Identities=15%  Similarity=0.123  Sum_probs=77.5

Q ss_pred             HHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc-CcHHHHHHHHHHhHHhcCCccC----cchHHHHHHHHhhc
Q 043490          289 LKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHA-GLVQEGNKVFHSMLENHGVVPQ----LDHYACMVDLLGRV  363 (589)
Q Consensus       289 i~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~-g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~  363 (589)
                      +..|...|++..|-.++.+            +...|... |++++|.+.|+....-+.-...    ...+..+...+.+.
T Consensus       101 ~~~y~~~G~~~~aA~~~~~------------lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l  168 (282)
T PF14938_consen  101 IEIYREAGRFSQAAKCLKE------------LAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARL  168 (282)
T ss_dssp             HHHHHHCT-HHHHHHHHHH------------HHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHhcCcHHHHHHHHHH------------HHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHh
Confidence            4555556665555544444            34455555 6777777777665443221111    22455667778888


Q ss_pred             CCHHHHHHHHHhC---CC-----CCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC-----hhHHHHHHHHhhh-
Q 043490          364 GRILEAEKLIREM---PM-----EPDSV-IWSVLLGSCRKHGETRLAELAATKLKQLEPGD-----SLGFVQMSNIYCL-  428 (589)
Q Consensus       364 g~~~~A~~~~~~m---~~-----~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-----~~~~~~l~~~~~~-  428 (589)
                      |++++|.++|++.   ..     +.+.. .+-..+-.+...||+..|.+.+++....+|.-     ......|+.+|-. 
T Consensus       169 ~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~  248 (282)
T PF14938_consen  169 GRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEG  248 (282)
T ss_dssp             T-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhC
Confidence            8888888888776   11     11221 22233335566788888888888888877632     2223455666543 


Q ss_pred             -cCChHHHHHHHHHHh
Q 043490          429 -SGSFNKARLIRKEMK  443 (589)
Q Consensus       429 -~g~~~~a~~~~~~m~  443 (589)
                       ...++++..-|+.+.
T Consensus       249 D~e~f~~av~~~d~~~  264 (282)
T PF14938_consen  249 DVEAFTEAVAEYDSIS  264 (282)
T ss_dssp             -CCCHHHHCHHHTTSS
T ss_pred             CHHHHHHHHHHHcccC
Confidence             244555555555443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.15  E-value=0.0011  Score=50.75  Aligned_cols=79  Identities=20%  Similarity=0.209  Sum_probs=31.0

Q ss_pred             CcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHH
Q 043490          328 GLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPD-SVIWSVLLGSCRKHGETRLAELAAT  406 (589)
Q Consensus       328 g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~  406 (589)
                      |+++.|..+++.+.+.....|+...+-.+..+|.+.|++++|..++++.+..|+ ....-.+..+|.+.|++++|+.+++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~l~   82 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQKLKLDPSNPDIHYLLARCLLKLGKYEEAIKALE   82 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHCHTHHHCHHHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCHHHHHHHHh
Confidence            444444444444443311111222233344444455555555555444322222 1222233444455555555555444

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.13  E-value=0.25  Score=48.21  Aligned_cols=109  Identities=15%  Similarity=0.194  Sum_probs=65.1

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc
Q 043490          316 TFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKH  395 (589)
Q Consensus       316 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~  395 (589)
                      +.+..+.-|...|....|.++-.    ++.+ |+...|...+.+|+..++|++-.++...   +.++.-|..++.+|.+.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k----~Fkv-~dkrfw~lki~aLa~~~~w~eL~~fa~s---kKsPIGyepFv~~~~~~  250 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKK----EFKV-PDKRFWWLKIKALAENKDWDELEKFAKS---KKSPIGYEPFVEACLKY  250 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHH----HcCC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC---CCCCCChHHHHHHHHHC
Confidence            44445555556666666655543    3343 5666677777777777777766665443   22345666677777777


Q ss_pred             CCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHH
Q 043490          396 GETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKE  441 (589)
Q Consensus       396 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  441 (589)
                      |+..+|..+..++         .+..-+.+|.++|+|.+|.+.--+
T Consensus       251 ~~~~eA~~yI~k~---------~~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  251 GNKKEASKYIPKI---------PDEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             CCHHHHHHHHHhC---------ChHHHHHHHHHCCCHHHHHHHHHH
Confidence            7777666665551         124456667777777777665433

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

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.12  E-value=0.0019  Score=59.92  Aligned_cols=88  Identities=18%  Similarity=0.168  Sum_probs=79.2

Q ss_pred             HHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHH
Q 043490          358 DLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKA  435 (589)
Q Consensus       358 ~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  435 (589)
                      +-+.+.+++++|+..|.+. .+.| |.+-|..-..+|.+.|.++.|++-.+..+.++|....+|..|..+|...|++++|
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHH
Confidence            3456789999999999988 6676 5888888899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcC
Q 043490          436 RLIRKEMKGS  445 (589)
Q Consensus       436 ~~~~~~m~~~  445 (589)
                      ++.|++..+-
T Consensus       169 ~~aykKaLel  178 (304)
T KOG0553|consen  169 IEAYKKALEL  178 (304)
T ss_pred             HHHHHhhhcc
Confidence            9999877653

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.12  E-value=0.086  Score=54.10  Aligned_cols=193  Identities=15%  Similarity=0.144  Sum_probs=111.6

Q ss_pred             HHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHH
Q 043490          176 AAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIAN  255 (589)
Q Consensus       176 ~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~  255 (589)
                      ..++-.|.+.+|-++|.++|...+|+++|..|.--.          ...-+...|+.++-+.+.+.-.+-  ..++.--.
T Consensus       640 ~~~Ay~gKF~EAAklFk~~G~enRAlEmyTDlRMFD----------~aQE~~~~g~~~eKKmL~RKRA~W--Ar~~kePk  707 (1081)
T KOG1538|consen  640 DVFAYQGKFHEAAKLFKRSGHENRALEMYTDLRMFD----------YAQEFLGSGDPKEKKMLIRKRADW--ARNIKEPK  707 (1081)
T ss_pred             HHHHhhhhHHHHHHHHHHcCchhhHHHHHHHHHHHH----------HHHHHhhcCChHHHHHHHHHHHHH--hhhcCCcH
Confidence            345557889999999999999999999998875421          122334455555444443322111  01111112


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHH
Q 043490          256 ALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNK  335 (589)
Q Consensus       256 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~~  335 (589)
                      +-..++...|+.++|..+                  ...+|-.+-+.++-+++ -..+..+...+..-+-+...+..|-+
T Consensus       708 aAAEmLiSaGe~~KAi~i------------------~~d~gW~d~lidI~rkl-d~~ere~l~~~a~ylk~l~~~gLAae  768 (1081)
T KOG1538|consen  708 AAAEMLISAGEHVKAIEI------------------CGDHGWVDMLIDIARKL-DKAEREPLLLCATYLKKLDSPGLAAE  768 (1081)
T ss_pred             HHHHHhhcccchhhhhhh------------------hhcccHHHHHHHHHhhc-chhhhhHHHHHHHHHhhccccchHHH
Confidence            345566677777776554                  33455555566555555 11223344444444455667777888


Q ss_pred             HHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCHHH-H----------HHHHHHHHHcCCHHHHHH
Q 043490          336 VFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMP-MEPDSVI-W----------SVLLGSCRKHGETRLAEL  403 (589)
Q Consensus       336 ~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~-~----------~~ll~~~~~~g~~~~a~~  403 (589)
                      +|..|-.          ...++++....+++++|+.+-++.| ..||+.. |          ...-.||.+.|+-.+|.+
T Consensus       769 IF~k~gD----------~ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~  838 (1081)
T KOG1538|consen  769 IFLKMGD----------LKSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQ  838 (1081)
T ss_pred             HHHHhcc----------HHHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHH
Confidence            8877621          2357788888888999888888873 3444321 1          112244555566666666


Q ss_pred             HHHHHh
Q 043490          404 AATKLK  409 (589)
Q Consensus       404 ~~~~~~  409 (589)
                      +++++.
T Consensus       839 vLeQLt  844 (1081)
T KOG1538|consen  839 VLEQLT  844 (1081)
T ss_pred             HHHHhh
Confidence            666554

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.11  E-value=0.042  Score=47.41  Aligned_cols=133  Identities=12%  Similarity=0.127  Sum_probs=93.2

Q ss_pred             CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCc-cCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC---CHH
Q 043490          309 NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVV-PQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP---DSV  383 (589)
Q Consensus       309 ~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p---~~~  383 (589)
                      ...|+...-..|..+....|+..+|...|++...  |+- -|....-.+..+....+++.+|...+++. ...|   ++.
T Consensus        84 ~~ApTvqnr~rLa~al~elGr~~EA~~hy~qals--G~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd  161 (251)
T COG4700          84 AIAPTVQNRYRLANALAELGRYHEAVPHYQQALS--GIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD  161 (251)
T ss_pred             hhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhc--cccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC
Confidence            4456666666777777788888888888877643  443 35555566666677778888888877776 1112   233


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          384 IWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       384 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      +--.+...+...|+++.|+..|+.+..--| ++..-......+++.|+.+++..-+..+.+
T Consensus       162 ~~Ll~aR~laa~g~~a~Aesafe~a~~~yp-g~~ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         162 GHLLFARTLAAQGKYADAESAFEVAISYYP-GPQARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             chHHHHHHHHhcCCchhHHHHHHHHHHhCC-CHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            344567888889999999999999988777 556666677788899988888766655543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.09  E-value=0.0015  Score=48.31  Aligned_cols=58  Identities=12%  Similarity=0.029  Sum_probs=49.7

Q ss_pred             HHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          389 LGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       389 l~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      -..|.+.++++.|.++++++++++|.++..+...+.+|.+.|++++|.+.++...+.+
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            3567788899999999999999999888888899999999999999999998887644

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.08  E-value=0.02  Score=55.05  Aligned_cols=130  Identities=16%  Similarity=0.234  Sum_probs=90.7

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHH-HhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHH
Q 043490          284 SWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSA-CSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLL  360 (589)
Q Consensus       284 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a-~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~  360 (589)
                      +|-.++...-+.+..+.|..+|.+. ...+ +...|...... +...++.+.|.++|+..++.+  ..+...|..-++.+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f--~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKF--PSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHH--TT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHH
Confidence            5666666666666677777777777 2222 23333333332 333577777999999988765  34566788888999


Q ss_pred             hhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC
Q 043490          361 GRVGRILEAEKLIREM-PMEPD----SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGD  415 (589)
Q Consensus       361 ~~~g~~~~A~~~~~~m-~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  415 (589)
                      .+.|+.+.|..+|++. ..-|.    ...|...+.-=.+.|+.+....+.+++.+.-|.+
T Consensus        81 ~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~  140 (280)
T PF05843_consen   81 IKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPED  140 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS
T ss_pred             HHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhh
Confidence            9999999999999988 32333    3589999999999999999999999999887753

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.

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.06  E-value=0.0041  Score=59.95  Aligned_cols=252  Identities=12%  Similarity=0.060  Sum_probs=160.1

Q ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHhCcCcHHHHHHHHHHHH--Hh--CCC-CcHHHHHHHHHHH
Q 043490          191 FAKMKNEEEALFLFRQLQREGMAPDW----CTFSIVLKACAGLVTERHASAVHSLIA--KY--GFE-DDTVIANALIHAY  261 (589)
Q Consensus       191 ~~~~g~~~~A~~~~~~m~~~g~~p~~----~t~~~ll~a~~~~~~~~~a~~i~~~~~--~~--g~~-~~~~~~~~li~~~  261 (589)
                      ++++|+....+.+|+..++.|. -|.    ..|+.+-++|.-.+++++|.++|..=+  ..  |-+ -.......|.+.+
T Consensus        27 Lck~gdcraGv~ff~aA~qvGT-eDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtl  105 (639)
T KOG1130|consen   27 LCKMGDCRAGVDFFKAALQVGT-EDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTL  105 (639)
T ss_pred             HHhccchhhhHHHHHHHHHhcc-hHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchh
Confidence            4899999999999999998873 233    456677788888899999999875422  11  100 1112222344444


Q ss_pred             HhcCCHHHHHHHHhh-cC---C-----CChhHHHHHHHHHHHcCC--------------------HHHHHHHHHhC----
Q 043490          262 ARCGSISLSKQVFDK-MT---Y-----HDLVSWNSILKAYALHGQ--------------------AKEALQLFSNM----  308 (589)
Q Consensus       262 ~~~g~~~~A~~~~~~-~~---~-----~~~~~~~~li~~~~~~g~--------------------~~~A~~~~~~m----  308 (589)
                      --.|.+++|...-.+ +.   +     ....++..+...|...|+                    .+.|.++|.+-    
T Consensus       106 Kv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l~  185 (639)
T KOG1130|consen  106 KVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLELS  185 (639)
T ss_pred             hhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHHH
Confidence            455666666543222 11   0     112344445555544432                    22344444332    


Q ss_pred             ---CCC-CCHHHHHHHHHHHhccCcHHHHHHHHHH---hHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC----
Q 043490          309 ---NVQ-PDSATFVSLLSACSHAGLVQEGNKVFHS---MLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM----  376 (589)
Q Consensus       309 ---~~~-p~~~t~~~ll~a~~~~g~~~~a~~~~~~---~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m----  376 (589)
                         |-. .-...|..|.+.|.-.|+++.|+..++.   +.+.+|-+. .-..+..+..++.-.|+++.|.+.++..    
T Consensus       186 ~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LA  265 (639)
T KOG1130|consen  186 EKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLA  265 (639)
T ss_pred             HHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHH
Confidence               110 1123466666666677899999877653   223444433 2346778888899999999999998865    


Q ss_pred             ---C-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhh----cC--CCChhHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          377 ---P-MEPDSVIWSVLLGSCRKHGETRLAELAATKLKQ----LE--PGDSLGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       377 ---~-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~--p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                         + ......+.-+|..+|.-..+++.|+.++.+=+.    ++  .....++.+|.++|...|..+.|..+.+.-.
T Consensus       266 ielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  266 IELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence               2 122356667888889888899999988877443    22  2356789999999999999999988776544

>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=97.02  E-value=0.00092  Score=48.66  Aligned_cols=53  Identities=23%  Similarity=0.263  Sum_probs=25.2

Q ss_pred             cCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC
Q 043490          363 VGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGD  415 (589)
Q Consensus       363 ~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  415 (589)
                      .|++++|+++|+++ ...| +...+..+..+|.+.|++++|...++++...+|++
T Consensus         4 ~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~   58 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDN   58 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTH
T ss_pred             ccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCH
Confidence            44444444444444 2223 34444445555555555555555555555555543

...

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.02  E-value=0.016  Score=58.18  Aligned_cols=121  Identities=13%  Similarity=0.051  Sum_probs=95.9

Q ss_pred             CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhc-CCccCcchHHHHHHHHhhcCCHHHHHHHHHhC---CCCCCHHH
Q 043490          309 NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENH-GVVPQLDHYACMVDLLGRVGRILEAEKLIREM---PMEPDSVI  384 (589)
Q Consensus       309 ~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~-~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~p~~~~  384 (589)
                      +...+...+..+++.+....+++++..++....... ....-..+..++|..|...|..++++++++.=   |+-||..+
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            345577888889999999999999999888775431 11122345569999999999999999999765   89999999


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhhcC-CCChhHHHHHHHHhhhc
Q 043490          385 WSVLLGSCRKHGETRLAELAATKLKQLE-PGDSLGFVQMSNIYCLS  429 (589)
Q Consensus       385 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~  429 (589)
                      ++.|+..+.+.|++..|.+++..|...+ .+++.++..-+.+|.+.
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            9999999999999999999988876544 56677777666666655

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 [].

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.00  E-value=0.27  Score=45.03  Aligned_cols=229  Identities=12%  Similarity=0.045  Sum_probs=142.8

Q ss_pred             cchHHHHHHHHHhCCChhHHHHHHHHHHhccCCCcee--HHHH----HHHhchhhHHHHHHHHHHhcCCCchhHHHHHHH
Q 043490           73 VVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFS--LASV----LISCDYLHGKLVHALALKFSLDAHVYVANALIN  146 (589)
Q Consensus        73 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t--~~~~----l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~  146 (589)
                      ...|+.-+.++++....++|..-+....+--.||-+-  |..+    -.....-.-+.+|+.+.+.-    ..-+++|..
T Consensus        69 lq~wT~r~~~l~kLR~~~~a~~EL~~f~~lD~pdl~Yey~p~iyp~rrGSmVPFsmR~lhAe~~~~l----gnpqesLdR  144 (366)
T KOG2796|consen   69 LQLWTVRLALLVKLRLFQNAEMELEPFGNLDQPDLYYEYYPHVYPGRRGSMVPFSMRILHAELQQYL----GNPQESLDR  144 (366)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHhhhhhhccCCCcceeeeeccccCCCCcCccccHHHHHHHHHHHHhc----CCcHHHHHH
Confidence            4467888888888888888877666554322222210  0000    00000223455666655332    123466666


Q ss_pred             HHhc-CCHHHHHHHHhhCCC--CChhHH--------HHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC
Q 043490          147 MYSK-SCADEAWKVFENMEF--RNVISW--------NSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPD  215 (589)
Q Consensus       147 ~y~~-g~~~~A~~lf~~m~~--~~~~~~--------~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~  215 (589)
                      .|.- .-+++-...|+.-..  ..+..|        +.++..+             .-.|.+.-.+.++++.++...+.+
T Consensus       145 l~~L~~~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~l-------------lG~kEy~iS~d~~~~vi~~~~e~~  211 (366)
T KOG2796|consen  145 LHKLKTVVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCL-------------LGMKEYVLSVDAYHSVIKYYPEQE  211 (366)
T ss_pred             HHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHH-------------hcchhhhhhHHHHHHHHHhCCccc
Confidence            6655 445555555554332  222223        4445554             667788888888888888776778


Q ss_pred             HHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHH-----HHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHH
Q 043490          216 WCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIAN-----ALIHAYARCGSISLSKQVFDKMT---YHDLVSWNS  287 (589)
Q Consensus       216 ~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~-----~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~  287 (589)
                      +...+.+.+.-.+.||.+.|...++...+..-..|....+     .....|.-.+++..|...|++++   ..|++.-|.
T Consensus       212 p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~Nn  291 (366)
T KOG2796|consen  212 PQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNN  291 (366)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhch
Confidence            8888888888888999999999998776653333333333     33445666778888888888777   345666676


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHH
Q 043490          288 ILKAYALHGQAKEALQLFSNM-NVQPDSATFV  318 (589)
Q Consensus       288 li~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~  318 (589)
                      -.-+..-.|+..+|++..+.| ...|...+-+
T Consensus       292 KALcllYlg~l~DAiK~~e~~~~~~P~~~l~e  323 (366)
T KOG2796|consen  292 KALCLLYLGKLKDALKQLEAMVQQDPRHYLHE  323 (366)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccCCccchhh
Confidence            666666778888999999888 6777655444

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.00  E-value=0.018  Score=55.40  Aligned_cols=125  Identities=14%  Similarity=0.039  Sum_probs=86.3

Q ss_pred             HHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHh-cCCHHHHHHHHhhcC---CCChhHHHHHHHHH
Q 043490          217 CTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYAR-CGSISLSKQVFDKMT---YHDLVSWNSILKAY  292 (589)
Q Consensus       217 ~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~-~g~~~~A~~~~~~~~---~~~~~~~~~li~~~  292 (589)
                      .+|..+++.+-+.+..+.|+.+|..+.+.+ ..+..+|-....+-.. .++.+.|.++|+...   ..+...|...+.-+
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            467778888888888999999999988654 3334444444444333 466666999998876   45777888888888


Q ss_pred             HHcCCHHHHHHHHHhC-CCCCCHH----HHHHHHHHHhccCcHHHHHHHHHHhHH
Q 043490          293 ALHGQAKEALQLFSNM-NVQPDSA----TFVSLLSACSHAGLVQEGNKVFHSMLE  342 (589)
Q Consensus       293 ~~~g~~~~A~~~~~~m-~~~p~~~----t~~~ll~a~~~~g~~~~a~~~~~~~~~  342 (589)
                      ...|+.+.|..+|++. ..-|...    .|...+.-=.+.|+++...++.+.+.+
T Consensus        81 ~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   81 IKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            8888888888888888 4344433    677777766777888888877777754

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.00  E-value=0.066  Score=51.67  Aligned_cols=143  Identities=13%  Similarity=0.220  Sum_probs=66.8

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHc-CCHHHHHHHHHhC------CCCCC--HHHHHHHHHHHhcc
Q 043490          257 LIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALH-GQAKEALQLFSNM------NVQPD--SATFVSLLSACSHA  327 (589)
Q Consensus       257 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~-g~~~~A~~~~~~m------~~~p~--~~t~~~ll~a~~~~  327 (589)
                      .+..|...|++..|-+++..           +...|-.. |++++|++.|++.      .-.|.  ..++..+...+.+.
T Consensus       100 A~~~y~~~G~~~~aA~~~~~-----------lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l  168 (282)
T PF14938_consen  100 AIEIYREAGRFSQAAKCLKE-----------LAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARL  168 (282)
T ss_dssp             HHHHHHHCT-HHHHHHHHHH-----------HHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCcHHHHHHHHHH-----------HHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHh
Confidence            34455566666655544443           34444444 5666666666665      01111  23455566666777


Q ss_pred             CcHHHHHHHHHHhHHhcCCcc-----Ccc-hHHHHHHHHhhcCCHHHHHHHHHhC-CCCC----C--HHHHHHHHHHHHH
Q 043490          328 GLVQEGNKVFHSMLENHGVVP-----QLD-HYACMVDLLGRVGRILEAEKLIREM-PMEP----D--SVIWSVLLGSCRK  394 (589)
Q Consensus       328 g~~~~a~~~~~~~~~~~~~~p-----~~~-~~~~li~~~~~~g~~~~A~~~~~~m-~~~p----~--~~~~~~ll~~~~~  394 (589)
                      |++++|.++|+++.... ...     +.. .+-..+-.+...|+...|.+.+++. ...|    +  ......|+.+|-.
T Consensus       169 ~~y~~A~~~~e~~~~~~-l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~  247 (282)
T PF14938_consen  169 GRYEEAIEIYEEVAKKC-LENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEE  247 (282)
T ss_dssp             T-HHHHHHHHHHHHHTC-CCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHh-hcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHh
Confidence            77777777777664431 111     111 2223333455567777777777765 2222    1  3344555555543


Q ss_pred             c--CCHHHHHHHHHHHhhc
Q 043490          395 H--GETRLAELAATKLKQL  411 (589)
Q Consensus       395 ~--g~~~~a~~~~~~~~~~  411 (589)
                      .  ..++.+..-|+.+.++
T Consensus       248 ~D~e~f~~av~~~d~~~~l  266 (282)
T PF14938_consen  248 GDVEAFTEAVAEYDSISRL  266 (282)
T ss_dssp             T-CCCHHHHCHHHTTSS--
T ss_pred             CCHHHHHHHHHHHcccCcc
Confidence            2  2334444444433333

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.98  E-value=0.017  Score=49.03  Aligned_cols=91  Identities=9%  Similarity=0.059  Sum_probs=64.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccC
Q 043490          254 ANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAG  328 (589)
Q Consensus       254 ~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g  328 (589)
                      .-++...+...|++++|.++|+.+.   ..+..-|-.|..++-..|++++|+..|... .+.|| +..+-.+..++...|
T Consensus        38 lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L~lG  117 (157)
T PRK15363         38 LYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYLACD  117 (157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHcC
Confidence            3345555667788888888887765   234556777777777788888888888887 55564 456777777777888


Q ss_pred             cHHHHHHHHHHhHHhc
Q 043490          329 LVQEGNKVFHSMLENH  344 (589)
Q Consensus       329 ~~~~a~~~~~~~~~~~  344 (589)
                      +.+.|++.|+..+...
T Consensus       118 ~~~~A~~aF~~Ai~~~  133 (157)
T PRK15363        118 NVCYAIKALKAVVRIC  133 (157)
T ss_pred             CHHHHHHHHHHHHHHh
Confidence            8888888887766543

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.93  E-value=0.014  Score=58.66  Aligned_cols=119  Identities=13%  Similarity=0.134  Sum_probs=95.6

Q ss_pred             cCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCC-CC-----hhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHH
Q 043490          133 SLDAHVYVANALINMYSK-SCADEAWKVFENMEF-RN-----VISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFR  205 (589)
Q Consensus       133 g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~-~~-----~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~  205 (589)
                      +...+......+++.... .+++++..++-+... |+     ..|..+++..|             .+.|..++++.+++
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~-------------l~~~~~~~~l~~L~  127 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQC-------------LELGAEDELLELLK  127 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHH-------------HhcCCHHHHHHHHh
Confidence            344556666777888888 888888888877653 21     23556899999             99999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhc
Q 043490          206 QLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARC  264 (589)
Q Consensus       206 ~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~  264 (589)
                      .=...|+-||.+|++.+|..+.+.|++..|.++...|...+...+..++..-+..+.+.
T Consensus       128 n~~~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  128 NRLQYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             ChhhcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            98999999999999999999999999999999999998887777777776655555555

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 [].

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=96.93  E-value=0.0017  Score=47.36  Aligned_cols=63  Identities=17%  Similarity=0.175  Sum_probs=48.4

Q ss_pred             chHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcC-CHHHHHHHHHHHhhcCC
Q 043490          351 DHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHG-ETRLAELAATKLKQLEP  413 (589)
Q Consensus       351 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~~p  413 (589)
                      ..|..+...+.+.|++++|+..|++. ...|+ ...|..+..++...| ++++|++.++++++++|
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            45666667777777777777777766 44554 778888888888888 68999999999888877

...

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.91  E-value=0.041  Score=57.54  Aligned_cols=60  Identities=10%  Similarity=0.065  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 043490          314 SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM  376 (589)
Q Consensus       314 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  376 (589)
                      ...|..+.-.....|++++|...+++...   +.|+...|..+...+...|+.++|.+.+++.
T Consensus       420 ~~~~~ala~~~~~~g~~~~A~~~l~rAl~---L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A  479 (517)
T PRK10153        420 PRIYEILAVQALVKGKTDEAYQAINKAID---LEMSWLNYVLLGKVYELKGDNRLAADAYSTA  479 (517)
T ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHH---cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34454444444445666666666666542   3455556666666666666666666666655

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=96.86  E-value=0.0087  Score=53.24  Aligned_cols=86  Identities=17%  Similarity=0.343  Sum_probs=52.7

Q ss_pred             CCChhHHHHHHHHHHHc-----CCHHHHHHHHHhC---CCCCCHHHHHHHHHHHhcc----------------CcHHHHH
Q 043490          279 YHDLVSWNSILKAYALH-----GQAKEALQLFSNM---NVQPDSATFVSLLSACSHA----------------GLVQEGN  334 (589)
Q Consensus       279 ~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m---~~~p~~~t~~~ll~a~~~~----------------g~~~~a~  334 (589)
                      .+|-.+|..++..|.+.     |..+=....++.|   |+.-|..+|+.||+.+=+.                .+.+-|.
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            45555555555555533     4555444445555   7777777777777665431                2345567


Q ss_pred             HHHHHhHHhcCCccCcchHHHHHHHHhhcCC
Q 043490          335 KVFHSMLENHGVVPQLDHYACMVDLLGRVGR  365 (589)
Q Consensus       335 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  365 (589)
                      +++++| +.+|+.||.+++..|++.+++.+.
T Consensus       124 ~lL~qM-E~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  124 DLLEQM-ENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHH-HHcCCCCcHHHHHHHHHHhccccH
Confidence            777777 556777777777777777766554

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.82  E-value=0.035  Score=53.93  Aligned_cols=153  Identities=10%  Similarity=0.023  Sum_probs=106.5

Q ss_pred             HHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHH--HHhccCcHHHHHHHHHHhHHhcCCccCcchH-------------
Q 043490          290 KAYALHGQAKEALQLFSNM-NVQPDSATFVSLLS--ACSHAGLVQEGNKVFHSMLENHGVVPQLDHY-------------  353 (589)
Q Consensus       290 ~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~~ll~--a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~-------------  353 (589)
                      .++...|++++|...--.. .+.++. .+..+++  ++--.++.+.|...|++.+   .+.|+-..-             
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilkld~~n-~~al~vrg~~~yy~~~~~ka~~hf~qal---~ldpdh~~sk~~~~~~k~le~~  252 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILKLDATN-AEALYVRGLCLYYNDNADKAINHFQQAL---RLDPDHQKSKSASMMPKKLEVK  252 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHhcccch-hHHHHhcccccccccchHHHHHHHhhhh---ccChhhhhHHhHhhhHHHHHHH
Confidence            3456677777777665555 444332 1222222  3334567788888887654   334442211             


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhC-CCC-----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhh
Q 043490          354 ACMVDLLGRVGRILEAEKLIREM-PME-----PDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYC  427 (589)
Q Consensus       354 ~~li~~~~~~g~~~~A~~~~~~m-~~~-----p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  427 (589)
                      ..=.+...+.|++.+|.+.+.+. .+.     |+...|.....+..+.|+.++|+.--+.+.+++|.-...|..-++++.
T Consensus       253 k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~l  332 (486)
T KOG0550|consen  253 KERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCHL  332 (486)
T ss_pred             HhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHHH
Confidence            11123456789999999999887 444     456667777778889999999999999999999877888888899999


Q ss_pred             hcCChHHHHHHHHHHhcCC
Q 043490          428 LSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       428 ~~g~~~~a~~~~~~m~~~~  446 (589)
                      ..++|++|.+-+++..+..
T Consensus       333 ~le~~e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  333 ALEKWEEAVEDYEKAMQLE  351 (486)
T ss_pred             HHHHHHHHHHHHHHHHhhc
Confidence            9999999999998876543

>PRK15331 chaperone protein SicA; Provisional

Probab=96.82  E-value=0.0076  Score=51.34  Aligned_cols=86  Identities=17%  Similarity=0.013  Sum_probs=74.1

Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHH
Q 043490          359 LLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKAR  436 (589)
Q Consensus       359 ~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  436 (589)
                      -+-..|++++|..+|+-+ -..| +..-|..|..+|...++++.|...+.....++++|+..+......|...|+.+.|+
T Consensus        46 ~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~~~A~  125 (165)
T PRK15331         46 EFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAKAR  125 (165)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHHHH
Confidence            345688999999988877 2223 46678888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhc
Q 043490          437 LIRKEMKG  444 (589)
Q Consensus       437 ~~~~~m~~  444 (589)
                      ..|....+
T Consensus       126 ~~f~~a~~  133 (165)
T PRK15331        126 QCFELVNE  133 (165)
T ss_pred             HHHHHHHh
Confidence            99998776

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.80  E-value=0.027  Score=46.02  Aligned_cols=85  Identities=18%  Similarity=-0.013  Sum_probs=51.7

Q ss_pred             HHHhhcCCHHHHHHHHHhC---CCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC---ChhHHHHHHHHhhhc
Q 043490          358 DLLGRVGRILEAEKLIREM---PMEPD--SVIWSVLLGSCRKHGETRLAELAATKLKQLEPG---DSLGFVQMSNIYCLS  429 (589)
Q Consensus       358 ~~~~~~g~~~~A~~~~~~m---~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~~  429 (589)
                      .++-..|+.++|+.+|++.   +....  ...+-.+.+.+...|++++|..++++.....|+   +......+..++...
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~   88 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYNL   88 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHC
Confidence            3445556666666666655   22221  334555666777777777777777777766665   444555566667777


Q ss_pred             CChHHHHHHHHHH
Q 043490          430 GSFNKARLIRKEM  442 (589)
Q Consensus       430 g~~~~a~~~~~~m  442 (589)
                      |+.++|.+.+-..
T Consensus        89 gr~~eAl~~~l~~  101 (120)
T PF12688_consen   89 GRPKEALEWLLEA  101 (120)
T ss_pred             CCHHHHHHHHHHH
Confidence            7777777766443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.68  E-value=0.21  Score=45.74  Aligned_cols=102  Identities=13%  Similarity=0.126  Sum_probs=61.5

Q ss_pred             HHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCC
Q 043490          170 SWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFED  249 (589)
Q Consensus       170 ~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~  249 (589)
                      .|++++.-+.-...+++-+..+......+..+++|++=..       ....+++......+.+.-....+...++..-+.
T Consensus       138 pqesLdRl~~L~~~V~~ii~~~e~~~~~ESsv~lW~KRl~-------~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~  210 (366)
T KOG2796|consen  138 PQESLDRLHKLKTVVSKILANLEQGLAEESSIRLWRKRLG-------RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQ  210 (366)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHH-------HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcc
Confidence            4555555553333333333333343444455555544221       334455566666667777777777777766667


Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHhhcC
Q 043490          250 DTVIANALIHAYARCGSISLSKQVFDKMT  278 (589)
Q Consensus       250 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~  278 (589)
                      ++.....|+.+-.+.|+.+.|...|+...
T Consensus       211 ~p~L~s~Lgr~~MQ~GD~k~a~~yf~~ve  239 (366)
T KOG2796|consen  211 EPQLLSGLGRISMQIGDIKTAEKYFQDVE  239 (366)
T ss_pred             cHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            77777888888888888888888887654

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=96.65  E-value=0.002  Score=39.28  Aligned_cols=33  Identities=21%  Similarity=0.446  Sum_probs=30.5

Q ss_pred             HHHHhhcCCCChhHHHHHHHHhhhcCChHHHHH
Q 043490          405 ATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARL  437 (589)
Q Consensus       405 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  437 (589)
                      ++++++++|+++.+|..|+.+|...|++++|++
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            678899999999999999999999999999863

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.65  E-value=0.046  Score=48.15  Aligned_cols=81  Identities=9%  Similarity=-0.118  Sum_probs=51.9

Q ss_pred             hhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh
Q 043490          168 VISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAP--DWCTFSIVLKACAGLVTERHASAVHSLIAKY  245 (589)
Q Consensus       168 ~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p--~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~  245 (589)
                      ...|..+...+             ...|++++|+..|++.......|  ...++..+...+...|+.++|...+....+.
T Consensus        35 a~~~~~~g~~~-------------~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~  101 (168)
T CHL00033         35 AFTYYRDGMSA-------------QSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER  101 (168)
T ss_pred             HHHHHHHHHHH-------------HHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34556666666             77788888888888876543222  1246666777777778888888877777765


Q ss_pred             CCCCcHHHHHHHHHHHH
Q 043490          246 GFEDDTVIANALIHAYA  262 (589)
Q Consensus       246 g~~~~~~~~~~li~~~~  262 (589)
                      . +.....+..+...|.
T Consensus       102 ~-~~~~~~~~~la~i~~  117 (168)
T CHL00033        102 N-PFLPQALNNMAVICH  117 (168)
T ss_pred             C-cCcHHHHHHHHHHHH
Confidence            3 333444555555555

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.63  E-value=0.064  Score=43.80  Aligned_cols=101  Identities=17%  Similarity=0.124  Sum_probs=69.1

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCC---cHHHHHHHHHHHHhcCC
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPD--WCTFSIVLKACAGLVTERHASAVHSLIAKYGFED---DTVIANALIHAYARCGS  266 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~---~~~~~~~li~~~~~~g~  266 (589)
                      ...|+.++|+.+|++....|...+  ...+..+.+++...|+.++|..+++...... +.   +..+...+..++...|+
T Consensus        12 d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~-p~~~~~~~l~~f~Al~L~~~gr   90 (120)
T PF12688_consen   12 DSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF-PDDELNAALRVFLALALYNLGR   90 (120)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCccccHHHHHHHHHHHHHCCC
Confidence            778999999999999988886654  2456667777888899999999988887652 22   22333334446677788


Q ss_pred             HHHHHHHHhhcCCCChhHHHHHHHHHH
Q 043490          267 ISLSKQVFDKMTYHDLVSWNSILKAYA  293 (589)
Q Consensus       267 ~~~A~~~~~~~~~~~~~~~~~li~~~~  293 (589)
                      .++|.+.+-...-++...|.--|..|+
T Consensus        91 ~~eAl~~~l~~la~~~~~y~ra~~~ya  117 (120)
T PF12688_consen   91 PKEALEWLLEALAETLPRYRRAIRFYA  117 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888776655444445555454444

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.62  E-value=0.017  Score=54.68  Aligned_cols=88  Identities=15%  Similarity=0.072  Sum_probs=46.5

Q ss_pred             HHHHhhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC---hhHHHHHHHHhhh
Q 043490          357 VDLLGRVGRILEAEKLIREM-PMEPD----SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGD---SLGFVQMSNIYCL  428 (589)
Q Consensus       357 i~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~  428 (589)
                      +..+.+.|++++|...|+.+ ...|+    ...+--+..+|...|+++.|...|+.+.+..|++   +.++..++.+|..
T Consensus       150 ~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~  229 (263)
T PRK10803        150 IALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQD  229 (263)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHH
Confidence            33333445555555555444 11222    1234445556666666666666666666655543   3334444555666


Q ss_pred             cCChHHHHHHHHHHhc
Q 043490          429 SGSFNKARLIRKEMKG  444 (589)
Q Consensus       429 ~g~~~~a~~~~~~m~~  444 (589)
                      .|++++|.++++.+.+
T Consensus       230 ~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        230 KGDTAKAKAVYQQVIK  245 (263)
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            6666666666666554

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.61  E-value=0.86  Score=45.17  Aligned_cols=404  Identities=13%  Similarity=0.106  Sum_probs=216.1

Q ss_pred             HHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCc---chHHHHHHHHHhCCChhHHHHHHHHHHhc
Q 043490           26 QLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNV---VSWTALISGYAQHGNAEECFRLFCSLLQY  102 (589)
Q Consensus        26 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~  102 (589)
                      ++-+.+.. .|   .|..+|-.||.-|...|..++-++++++|..|-+   .+|..-|++=....+++....+|.+.+..
T Consensus        30 rLRerIkd-NP---tnI~S~fqLiq~~~tq~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k  105 (660)
T COG5107          30 RLRERIKD-NP---TNILSYFQLIQYLETQESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKK  105 (660)
T ss_pred             HHHHHhhc-Cc---hhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhh
Confidence            44444443 35   8899999999999999999999999999998754   47998898888888999999999988876


Q ss_pred             -cCCCcee-HHHHHHHhc---hhhHH----HHHHHHHH-hcCCCc-hhHHHHHHHHHhc----CC------HHHHHHHHh
Q 043490          103 -FFPNEFS-LASVLISCD---YLHGK----LVHALALK-FSLDAH-VYVANALINMYSK----SC------ADEAWKVFE  161 (589)
Q Consensus       103 -~~p~~~t-~~~~l~a~~---~~~~~----~~~~~~~~-~g~~~~-~~~~~~li~~y~~----g~------~~~A~~lf~  161 (589)
                       ...|-.+ |..-++...   ..+.+    +.+..++. .+++|- ...|+..+.....    |.      ++..++.+.
T Consensus       106 ~l~ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~  185 (660)
T COG5107         106 SLNLDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYM  185 (660)
T ss_pred             hccHhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHH
Confidence             4433332 222222222   11111    22222222 244442 3455555544322    33      345555666


Q ss_pred             hCCC-C--Ch-hHHH------HHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCC----CCHHHHHHHHH-
Q 043490          162 NMEF-R--NV-ISWN------SMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQR--EGMA----PDWCTFSIVLK-  224 (589)
Q Consensus       162 ~m~~-~--~~-~~~~------~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~--~g~~----p~~~t~~~ll~-  224 (589)
                      ++.. |  |. ..|+      .=++.....+-+.      ...--+..|.+.+++...  .|.+    .+..|++-+-+ 
T Consensus       186 ral~tP~~nleklW~dy~~fE~e~N~~TarKfvg------e~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~  259 (660)
T COG5107         186 RALQTPMGNLEKLWKDYENFELELNKITARKFVG------ETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAART  259 (660)
T ss_pred             HHHcCccccHHHHHHHHHHHHHHHHHHHHHHHhc------ccCHHHHHHHHHHHHHHHHhccccccCchhhhhhcccccc
Confidence            6543 1  11 1121      1111110000000      011123345555555432  2322    12223332111 


Q ss_pred             ----------HHhCc-----Cc--HHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC--CCChhHH
Q 043490          225 ----------ACAGL-----VT--ERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT--YHDLVSW  285 (589)
Q Consensus       225 ----------a~~~~-----~~--~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~  285 (589)
                                --...     ++  .....-+|.+.... +.-...+|----.-+...++-+.|++..++..  .|.... 
T Consensus       260 s~S~WlNwIkwE~en~l~L~~~~~~qRi~y~~~q~~~y-~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~spsL~~-  337 (660)
T COG5107         260 SDSNWLNWIKWEMENGLKLGGRPHEQRIHYIHNQILDY-FYYAEEVWFDYSEYLIGISDKQKALKTVERGIEMSPSLTM-  337 (660)
T ss_pred             ccchhhhHhhHhhcCCcccCCCcHHHHHHHHHHHHHHH-hhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccCCCchhe-
Confidence                      10000     00  11111122222221 12223333333333445567777777766543  222100 


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC-----------------CC---------------CCCHHHHHHHHHHHhccCcHHHH
Q 043490          286 NSILKAYALHGQAKEALQLFSNM-----------------NV---------------QPDSATFVSLLSACSHAGLVQEG  333 (589)
Q Consensus       286 ~~li~~~~~~g~~~~A~~~~~~m-----------------~~---------------~p~~~t~~~ll~a~~~~g~~~~a  333 (589)
                       -+-..|--..+.++....|+..                 +.               .--...|...+++-.+...++.|
T Consensus       338 -~lse~yel~nd~e~v~~~fdk~~q~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~~Gl~aa  416 (660)
T COG5107         338 -FLSEYYELVNDEEAVYGCFDKCTQDLKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRKRGLEAA  416 (660)
T ss_pred             -eHHHHHhhcccHHHHhhhHHHHHHHHHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHHhhHHHH
Confidence             0111111112222211111111                 11               11123456677777778889999


Q ss_pred             HHHHHHhHHhcC-CccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHH-HHHHHHHHHHcCCHHHHHHHHHHHhh
Q 043490          334 NKVFHSMLENHG-VVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPDSVI-WSVLLGSCRKHGETRLAELAATKLKQ  410 (589)
Q Consensus       334 ~~~~~~~~~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~-~~~ll~~~~~~g~~~~a~~~~~~~~~  410 (589)
                      +.+|-+..+. + +.+++.++++++.-++ .|+..-|..+|+-- ..-||... -.-.+.-+..-++-+.|..+|+...+
T Consensus       417 R~~F~k~rk~-~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fLi~inde~naraLFetsv~  494 (660)
T COG5107         417 RKLFIKLRKE-GIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKFPDSTLYKEKYLLFLIRINDEENARALFETSVE  494 (660)
T ss_pred             HHHHHHHhcc-CCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhCCCchHHHHHHHHHHHHhCcHHHHHHHHHHhHH
Confidence            9999998554 5 6778899999998765 57778889998765 33455433 34566667778888999999996554


Q ss_pred             cCC--CChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          411 LEP--GDSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       411 ~~p--~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      .-.  .-...|..++.--+.-|+...+..+=++|.+
T Consensus       495 r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         495 RLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            221  1245788888888888888888777776654

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=96.60  E-value=0.022  Score=44.92  Aligned_cols=75  Identities=15%  Similarity=0.409  Sum_probs=44.6

Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhcCC-ccCcchHHHHHHHHhhcC--------CHHHHHHHHHhC---CCCCCHHHHH
Q 043490          319 SLLSACSHAGLVQEGNKVFHSMLENHGV-VPQLDHYACMVDLLGRVG--------RILEAEKLIREM---PMEPDSVIWS  386 (589)
Q Consensus       319 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~-~p~~~~~~~li~~~~~~g--------~~~~A~~~~~~m---~~~p~~~~~~  386 (589)
                      ..|..|...+++.....+|+.+ ++.|+ .|++.+|+.++.+..+..        ++-+.+.+++.|   +++|+..+|+
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqsl-kRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSL-KRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHH-HhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            3444555556666666666666 34466 666666666666655432        233455556665   6677777777


Q ss_pred             HHHHHHHH
Q 043490          387 VLLGSCRK  394 (589)
Q Consensus       387 ~ll~~~~~  394 (589)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            77666543

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 [, , ].

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=96.58  E-value=0.025  Score=46.65  Aligned_cols=74  Identities=11%  Similarity=0.160  Sum_probs=35.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-CC-----------------CCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcC
Q 043490          284 SWNSILKAYALHGQAKEALQLFSNM-NV-----------------QPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHG  345 (589)
Q Consensus       284 ~~~~li~~~~~~g~~~~A~~~~~~m-~~-----------------~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  345 (589)
                      ++.++|.++++.|+.+....+.+.. |+                 .|+..+..+++.+++..|++..|.++.+...+.++
T Consensus         4 ~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~   83 (126)
T PF12921_consen    4 LLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYP   83 (126)
T ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcC
Confidence            4444555555555555555555444 33                 34445555555555555555555555555544444


Q ss_pred             CccCcchHHHHH
Q 043490          346 VVPQLDHYACMV  357 (589)
Q Consensus       346 ~~p~~~~~~~li  357 (589)
                      ++-+..+|..|+
T Consensus        84 I~i~~~~W~~Ll   95 (126)
T PF12921_consen   84 IPIPKEFWRRLL   95 (126)
T ss_pred             CCCCHHHHHHHH
Confidence            433333443333

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.51  E-value=0.33  Score=47.88  Aligned_cols=34  Identities=29%  Similarity=0.181  Sum_probs=24.0

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC
Q 043490          381 DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPG  414 (589)
Q Consensus       381 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  414 (589)
                      |--.+.+++.++.-.|+.+.|.+..+++.++.|+
T Consensus       304 dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~  337 (374)
T PF13281_consen  304 DYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPP  337 (374)
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCc
Confidence            3444466777777777888888888877777664

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.49  E-value=0.2  Score=46.99  Aligned_cols=176  Identities=11%  Similarity=0.038  Sum_probs=105.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHhhcCC--CCh-hH---HHHHHHHHHHcCCHHHHHHHHHhC-CCCCCH--HHHHHHH
Q 043490          251 TVIANALIHAYARCGSISLSKQVFDKMTY--HDL-VS---WNSILKAYALHGQAKEALQLFSNM-NVQPDS--ATFVSLL  321 (589)
Q Consensus       251 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~-~~---~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~--~t~~~ll  321 (589)
                      ....-.....+.+.|++++|.+.|+.+..  |+. ..   .-.++.+|.+.+++++|...|++. ...|+.  ..+...+
T Consensus        32 ~~~~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         32 PSEIYATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYM  111 (243)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHH
Confidence            33333445556778899999999888863  222 22   234566778888999999988888 555543  2333333


Q ss_pred             HHHhc--c---------------Cc---HHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCC
Q 043490          322 SACSH--A---------------GL---VQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPD  381 (589)
Q Consensus       322 ~a~~~--~---------------g~---~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~  381 (589)
                      .+.+.  .               .+   ..+|.+.|+.+++++   |+             ..-..+|...+..+...--
T Consensus       112 ~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~y---P~-------------S~ya~~A~~rl~~l~~~la  175 (243)
T PRK10866        112 RGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGY---PN-------------SQYTTDATKRLVFLKDRLA  175 (243)
T ss_pred             HHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHC---cC-------------ChhHHHHHHHHHHHHHHHH
Confidence            33321  1               11   223445555554442   32             2223344333333210000


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC---hhHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          382 SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGD---SLGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       382 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      ..- -.+..-|.+.|.+.-|..-++.+++.-|+.   ..+...+.++|.+.|..++|..+...+.
T Consensus       176 ~~e-~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        176 KYE-LSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHH-HHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            111 134556888899999999999999877654   4456688899999999999999887664

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.48  E-value=0.013  Score=43.28  Aligned_cols=62  Identities=16%  Similarity=0.179  Sum_probs=49.6

Q ss_pred             HHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHH
Q 043490          358 DLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGF  419 (589)
Q Consensus       358 ~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  419 (589)
                      ..|.+.+++++|.+.++.+ ...|+ ...|......+...|+++.|...+++..+..|+++...
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~   66 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDAR   66 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHH
Confidence            4677888888888888887 55554 67777788888999999999999999999988765543

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.48  E-value=1.5  Score=46.39  Aligned_cols=117  Identities=13%  Similarity=0.161  Sum_probs=87.8

Q ss_pred             CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHH
Q 043490          309 NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVL  388 (589)
Q Consensus       309 ~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~l  388 (589)
                      +..-...|.+-.+.-+...|...+|.++-.+..     -||...|-.=+.+++..+++++-+++-+.+.   .+.-|.-+
T Consensus       679 ~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekfAkskk---sPIGy~PF  750 (829)
T KOG2280|consen  679 GGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKFAKSKK---SPIGYLPF  750 (829)
T ss_pred             ccccccCcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC---CCCCchhH
Confidence            333444566666777777888888888866552     5788888888999999999999888887763   24556678


Q ss_pred             HHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHH
Q 043490          389 LGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKE  441 (589)
Q Consensus       389 l~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  441 (589)
                      ..+|.+.|+.++|.+.+-+...+        .-...+|.+.|++.+|.++--+
T Consensus       751 Ve~c~~~~n~~EA~KYiprv~~l--------~ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  751 VEACLKQGNKDEAKKYIPRVGGL--------QEKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HHHHHhcccHHHHhhhhhccCCh--------HHHHHHHHHhccHHHHHHHHHH
Confidence            88999999999998887665332        1577889999999998876544

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.48  E-value=0.36  Score=41.91  Aligned_cols=124  Identities=15%  Similarity=0.101  Sum_probs=73.0

Q ss_pred             CCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CChhHHH
Q 043490          212 MAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY-----HDLVSWN  286 (589)
Q Consensus       212 ~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~  286 (589)
                      +.|+...-..+..+....|+..+|...|.+...--+..|..+.-.+.++....++...|...++.+-+     +++.+--
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~L  164 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHL  164 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchH
Confidence            34666656666677777777777777777766555566666666777777777777777776666542     1222333


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHH
Q 043490          287 SILKAYALHGQAKEALQLFSNM-NVQPDSATFVSLLSACSHAGLVQEGNK  335 (589)
Q Consensus       287 ~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~~g~~~~a~~  335 (589)
                      .+...|...|.+.+|..-|+.. ..-|+...-.....-+.+.|+.+++..
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~Y~e~La~qgr~~ea~a  214 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISYYPGPQARIYYAEMLAKQGRLREANA  214 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHhCCCHHHHHHHHHHHHHhcchhHHHH
Confidence            4455666666666666666666 444544333223333344555544443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.46  E-value=0.014  Score=58.14  Aligned_cols=63  Identities=13%  Similarity=-0.084  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChh---HHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          382 SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSL---GFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       382 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      ...|+.+..+|...|++++|+..+++.++++|++..   +|..+..+|.+.|+.++|...+++..+
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            455555555555555555555555555555555442   255555555555555555555555544

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.39  E-value=0.0078  Score=39.26  Aligned_cols=42  Identities=21%  Similarity=0.385  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHH
Q 043490          383 VIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSN  424 (589)
Q Consensus       383 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  424 (589)
                      .+|..+..+|...|++++|+++++++++..|+|+..+..|+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            367788999999999999999999999999999988877753

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=96.31  E-value=0.64  Score=51.63  Aligned_cols=142  Identities=21%  Similarity=0.222  Sum_probs=94.5

Q ss_pred             cHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHH
Q 043490          183 LEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYA  262 (589)
Q Consensus       183 ~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~  262 (589)
                      -+++.+++..+.|.+.+|+.++        +|+...+.-+..+|+.            .+.+..      .|+--.-+|.
T Consensus       910 ~~~e~~n~I~kh~Ly~~aL~ly--------~~~~e~~k~i~~~ya~------------hL~~~~------~~~~Aal~Ye  963 (1265)
T KOG1920|consen  910 YFPECKNYIKKHGLYDEALALY--------KPDSEKQKVIYEAYAD------------HLREEL------MSDEAALMYE  963 (1265)
T ss_pred             ccHHHHHHHHhcccchhhhhee--------ccCHHHHHHHHHHHHH------------HHHHhc------cccHHHHHHH
Confidence            4566666667777777776664        5777777666655542            222221      1233345788


Q ss_pred             hcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHH--HHHHHHHHHhccCcHHHHHHHHHHh
Q 043490          263 RCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSA--TFVSLLSACSHAGLVQEGNKVFHSM  340 (589)
Q Consensus       263 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~~  340 (589)
                      ++|+.++|.+.                  |...|++.+|+.+-.++...-|..  +-..|..-+...+++-+|-++..+.
T Consensus       964 ~~GklekAl~a------------------~~~~~dWr~~l~~a~ql~~~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~ 1025 (1265)
T KOG1920|consen  964 RCGKLEKALKA------------------YKECGDWREALSLAAQLSEGKDELVILAEELVSRLVEQRKHYEAAKILLEY 1025 (1265)
T ss_pred             HhccHHHHHHH------------------HHHhccHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHcccchhHHHHHHHH
Confidence            99999998655                  455789999999999883333333  2356777788888888888887655


Q ss_pred             HHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCC
Q 043490          341 LENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMP  377 (589)
Q Consensus       341 ~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  377 (589)
                      ..    .     +.-.+..|+++..+++|..+....+
T Consensus      1026 ~s----d-----~~~av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1026 LS----D-----PEEAVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             hc----C-----HHHHHHHHhhHhHHHHHHHHHHhcc
Confidence            33    2     3355677888889999998877663

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.30  E-value=0.089  Score=49.81  Aligned_cols=100  Identities=12%  Similarity=0.112  Sum_probs=62.0

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC----CCCCC-HHHHHHHHH
Q 043490          317 FVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM----PMEPD-SVIWSVLLG  390 (589)
Q Consensus       317 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~-~~~~~~ll~  390 (589)
                      |...+......|++++|...|+.+++.+.-.+ ....+-.+...|...|++++|...|+.+    |..|. ...+-.+..
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~  225 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGV  225 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHH
Confidence            44444333445667777777766665432111 0124555666677777777777777666    22221 445555666


Q ss_pred             HHHHcCCHHHHHHHHHHHhhcCCCCh
Q 043490          391 SCRKHGETRLAELAATKLKQLEPGDS  416 (589)
Q Consensus       391 ~~~~~g~~~~a~~~~~~~~~~~p~~~  416 (589)
                      .+...|+.+.|...++++++..|++.
T Consensus       226 ~~~~~g~~~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        226 IMQDKGDTAKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence            77788899999999999888888654

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=96.18  E-value=0.025  Score=48.48  Aligned_cols=68  Identities=12%  Similarity=0.062  Sum_probs=54.7

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHh-----cCCCccC
Q 043490          383 VIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMK-----GSRVRKY  450 (589)
Q Consensus       383 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-----~~~~~~~  450 (589)
                      .....++..+...|+++.|....+++...+|.+...|..++.+|...|+..+|.++|+++.     +.|+.|.
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps  135 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPS  135 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcC
Confidence            4556677888899999999999999999999999999999999999999999999999875     3466543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.14  E-value=0.29  Score=45.85  Aligned_cols=51  Identities=16%  Similarity=0.178  Sum_probs=27.0

Q ss_pred             HHHHHHcCCHHHHHHHHHhC-----CCCCCHHHHHHHHHHHhccCcHHHHHHHHHH
Q 043490          289 LKAYALHGQAKEALQLFSNM-----NVQPDSATFVSLLSACSHAGLVQEGNKVFHS  339 (589)
Q Consensus       289 i~~~~~~g~~~~A~~~~~~m-----~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~  339 (589)
                      ..-|.+.|.+..|+.-|+.+     +.+........+..++...|..++|..+...
T Consensus       182 a~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~  237 (243)
T PRK10866        182 AEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKI  237 (243)
T ss_pred             HHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            33455566666666555555     2222334455555566666666665555443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.11  E-value=0.49  Score=46.36  Aligned_cols=84  Identities=21%  Similarity=0.170  Sum_probs=43.9

Q ss_pred             ccCcHHHHHHHHHHhHHhcCCcc-----CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHHHHHH--HHHHHHcCC
Q 043490          326 HAGLVQEGNKVFHSMLENHGVVP-----QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPDSVIWSVL--LGSCRKHGE  397 (589)
Q Consensus       326 ~~g~~~~a~~~~~~~~~~~~~~p-----~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~l--l~~~~~~g~  397 (589)
                      +.|.+..|.+.+.+.+   ++.|     +...|........+.|++++|+.--+.. .+.| ..++..+  ..++...++
T Consensus       261 k~G~y~~A~E~Yteal---~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~-syikall~ra~c~l~le~  336 (486)
T KOG0550|consen  261 KNGNYRKAYECYTEAL---NIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDS-SYIKALLRRANCHLALEK  336 (486)
T ss_pred             hccchhHHHHHHHHhh---cCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCH-HHHHHHHHHHHHHHHHHH
Confidence            3455555555555443   3333     3334555555556667777776665554 3222 2222222  233444566


Q ss_pred             HHHHHHHHHHHhhcCC
Q 043490          398 TRLAELAATKLKQLEP  413 (589)
Q Consensus       398 ~~~a~~~~~~~~~~~p  413 (589)
                      ++.|.+-+++..+...
T Consensus       337 ~e~AV~d~~~a~q~~~  352 (486)
T KOG0550|consen  337 WEEAVEDYEKAMQLEK  352 (486)
T ss_pred             HHHHHHHHHHHHhhcc
Confidence            7777777777766554

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=96.11  E-value=2.7  Score=45.55  Aligned_cols=185  Identities=17%  Similarity=0.171  Sum_probs=113.0

Q ss_pred             HHHHHHHHHH--ccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--CCcchHHHHHHH
Q 043490            7 IYATLFHACA--LHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--RNVVSWTALISG   82 (589)
Q Consensus         7 ~~~~ll~~~~--~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~~~~~~~~li~~   82 (589)
                      .|..++.++.  +.|..++|..+++......+   .|..+...+...|-..|+.++|..++++..+  |+......+..+
T Consensus        43 ~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~---~D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~~P~eell~~lFma  119 (932)
T KOG2053|consen   43 LYAKVLKALSLFRLGKGDEALKLLEALYGLKG---TDDLTLQFLQNVYRDLGKLDEAVHLYERANQKYPSEELLYHLFMA  119 (932)
T ss_pred             HHHHHHHHHHHHHhcCchhHHHHHhhhccCCC---CchHHHHHHHHHHHHHhhhhHHHHHHHHHHhhCCcHHHHHHHHHH
Confidence            3455555554  77889999977776654333   5888999999999999999999999999876  565556667778


Q ss_pred             HHhCCChhH----HHHHHHHHHhccCCCceeHHHHHHHhc--------------hhhHHHHHHHHHHhc-CCCchhHHHH
Q 043490           83 YAQHGNAEE----CFRLFCSLLQYFFPNEFSLASVLISCD--------------YLHGKLVHALALKFS-LDAHVYVANA  143 (589)
Q Consensus        83 ~~~~g~~~~----A~~~~~~m~~~~~p~~~t~~~~l~a~~--------------~~~~~~~~~~~~~~g-~~~~~~~~~~  143 (589)
                      |++.+++.+    |+++|+    ...-+.+.|-+++....              +..+....+.+++.+ -..+..-.--
T Consensus       120 yvR~~~yk~qQkaa~~LyK----~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~L  195 (932)
T KOG2053|consen  120 YVREKSYKKQQKAALQLYK----NFPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIIL  195 (932)
T ss_pred             HHHHHHHHHHHHHHHHHHH----hCCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHH
Confidence            888887754    555554    33445566666655443              233444444444333 1111111111


Q ss_pred             HHHHHhc-CCHHHHHHHHhh-----CCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Q 043490          144 LINMYSK-SCADEAWKVFEN-----MEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREG  211 (589)
Q Consensus       144 li~~y~~-g~~~~A~~lf~~-----m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g  211 (589)
                      -...... |..++|..++..     ...-+...-|--+.-+             ...+++.+-.++-.++...|
T Consensus       196 yl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dll-------------k~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  196 YLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLL-------------KLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHH-------------HHhcChHHHHHHHHHHHHhC
Confidence            2223344 888888888732     2223334444445555             55566666666666665554

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.00  E-value=2.7  Score=44.61  Aligned_cols=102  Identities=21%  Similarity=0.219  Sum_probs=59.7

Q ss_pred             HHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHH
Q 043490          259 HAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFH  338 (589)
Q Consensus       259 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  338 (589)
                      .-+...|+..+|.++-.+..-||-..|-.-+.+++..+++++-+++-+.+  + .+.-|.-...+|.+.|+.++|.+++.
T Consensus       692 ~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAksk--k-sPIGy~PFVe~c~~~~n~~EA~KYip  768 (829)
T KOG2280|consen  692 TTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSK--K-SPIGYLPFVEACLKQGNKDEAKKYIP  768 (829)
T ss_pred             HHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhcc--C-CCCCchhHHHHHHhcccHHHHhhhhh
Confidence            33445566666666666666666666666666666666666665555554  1 13344445666666666666666664


Q ss_pred             HhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHH
Q 043490          339 SMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLI  373 (589)
Q Consensus       339 ~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  373 (589)
                      ...   |.       .-.+.+|.+.|++.+|.++-
T Consensus       769 rv~---~l-------~ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  769 RVG---GL-------QEKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             ccC---Ch-------HHHHHHHHHhccHHHHHHHH
Confidence            331   11       13556666666666666554

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.82  E-value=0.29  Score=39.85  Aligned_cols=85  Identities=18%  Similarity=0.130  Sum_probs=58.9

Q ss_pred             hcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHH
Q 043490          362 RVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKE  441 (589)
Q Consensus       362 ~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  441 (589)
                      .+|++.....-+-.++  .+.......+.+....|+-+.-.++...+.+.+..++....-++++|.+.|+..++..++.+
T Consensus        68 ~C~NlKrVi~C~~~~n--~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~  145 (161)
T PF09205_consen   68 KCGNLKRVIECYAKRN--KLSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKE  145 (161)
T ss_dssp             G-S-THHHHHHHHHTT-----HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             hhcchHHHHHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHH
Confidence            3555555555555543  24555667788899999999999999998876656888999999999999999999999999


Q ss_pred             HhcCCCc
Q 043490          442 MKGSRVR  448 (589)
Q Consensus       442 m~~~~~~  448 (589)
                      .-++|++
T Consensus       146 ACekG~k  152 (161)
T PF09205_consen  146 ACEKGLK  152 (161)
T ss_dssp             HHHTT-H
T ss_pred             HHHhchH
Confidence            9999974

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=95.79  E-value=0.012  Score=44.08  Aligned_cols=62  Identities=13%  Similarity=0.073  Sum_probs=46.1

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhc----CCC---ChhHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          382 SVIWSVLLGSCRKHGETRLAELAATKLKQL----EPG---DSLGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       382 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      ..+++.+...|...|++++|+..+++++++    ++.   -..++..++.+|...|++++|.+.+++..
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            456777888888888888888888887653    221   24567788889999999999999888754

...

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=95.66  E-value=0.22  Score=48.56  Aligned_cols=125  Identities=14%  Similarity=0.064  Sum_probs=89.4

Q ss_pred             HHHHHHHHHHhCcCcHHHHHHHHHHHHH----hCC-CCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC-------CCC--h
Q 043490          217 CTFSIVLKACAGLVTERHASAVHSLIAK----YGF-EDDTVIANALIHAYARCGSISLSKQVFDKMT-------YHD--L  282 (589)
Q Consensus       217 ~t~~~ll~a~~~~~~~~~a~~i~~~~~~----~g~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~~--~  282 (589)
                      ..|..+-+.|.-.|+++.|...|+.-+.    .|- ......+..|.+.|.-.|+++.|.+.|....       .+.  .
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            4566666777778889999888875433    231 1234567788888889999999988887643       232  3


Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHhC--------CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhH
Q 043490          283 VSWNSILKAYALHGQAKEALQLFSNM--------NVQPDSATFVSLLSACSHAGLVQEGNKVFHSML  341 (589)
Q Consensus       283 ~~~~~li~~~~~~g~~~~A~~~~~~m--------~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  341 (589)
                      .+..+|...|.-..++++|+.++.+-        ...-...++-+|..++...|..++|..+.+...
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            46667888888888899999888765        222345678889999999999999887765543

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.59  E-value=1.1  Score=40.72  Aligned_cols=163  Identities=15%  Similarity=0.145  Sum_probs=82.2

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCC--CC----hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCH--HHHHHHHHHHhcc
Q 043490          257 LIHAYARCGSISLSKQVFDKMTY--HD----LVSWNSILKAYALHGQAKEALQLFSNM-NVQPDS--ATFVSLLSACSHA  327 (589)
Q Consensus       257 li~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~--~t~~~ll~a~~~~  327 (589)
                      ....+...|++++|.+.|+.+..  |+    ..+.-.++.++-+.|++++|...|++. ..-|+.  ..+...+.+.+.-
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~   90 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYY   90 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHH
Confidence            34445566777777777776652  21    124445566666777777777777776 333322  1222222222111


Q ss_pred             Cc-------------HHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Q 043490          328 GL-------------VQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRK  394 (589)
Q Consensus       328 g~-------------~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~  394 (589)
                      ..             ..+|...|+.+                +.-|=......+|...+..+.-.--..- -.+..-|.+
T Consensus        91 ~~~~~~~~~~~D~~~~~~A~~~~~~l----------------i~~yP~S~y~~~A~~~l~~l~~~la~~e-~~ia~~Y~~  153 (203)
T PF13525_consen   91 KQIPGILRSDRDQTSTRKAIEEFEEL----------------IKRYPNSEYAEEAKKRLAELRNRLAEHE-LYIARFYYK  153 (203)
T ss_dssp             HHHHHHH-TT---HHHHHHHHHHHHH----------------HHH-TTSTTHHHHHHHHHHHHHHHHHHH-HHHHHHHHC
T ss_pred             HhCccchhcccChHHHHHHHHHHHHH----------------HHHCcCchHHHHHHHHHHHHHHHHHHHH-HHHHHHHHH
Confidence            11             11222333332                2223333333344333333210000001 124466888


Q ss_pred             cCCHHHHHHHHHHHhhcCCCChh---HHHHHHHHhhhcCChHHHH
Q 043490          395 HGETRLAELAATKLKQLEPGDSL---GFVQMSNIYCLSGSFNKAR  436 (589)
Q Consensus       395 ~g~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~a~  436 (589)
                      .|.+..|..-++.+++.-|+...   +...++.+|.+.|..+.+.
T Consensus       154 ~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  154 RGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             TT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             cccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            99999999999999998886543   3567888999999888544

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=95.56  E-value=0.021  Score=42.74  Aligned_cols=29  Identities=14%  Similarity=-0.090  Sum_probs=20.8

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 043490          382 SVIWSVLLGSCRKHGETRLAELAATKLKQ  410 (589)
Q Consensus       382 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  410 (589)
                      ..++..+...+...|++++|++.+++..+
T Consensus        46 a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen   46 ANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            45666777777777777777777777654

...

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=95.51  E-value=0.092  Score=43.34  Aligned_cols=95  Identities=14%  Similarity=0.112  Sum_probs=62.6

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHHHHHHHHH
Q 043490          313 DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPDSVIWSVLLGS  391 (589)
Q Consensus       313 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~~  391 (589)
                      |..++..++.++++.|+++....+.+..   +|+.++...-         .+.       +..- +..|+..+..+++.+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~---WgI~~~~~~~---------~~~-------~~~~spl~Pt~~lL~AIv~s   61 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSV---WGIDVNGKKK---------EGD-------YPPSSPLYPTSRLLIAIVHS   61 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHh---cCCCCCCccc---------cCc-------cCCCCCCCCCHHHHHHHHHH
Confidence            5678888999999999999988887643   4665543210         000       1111 567788888888888


Q ss_pred             HHHcCCHHHHHHHHHHHhhcC--CCChhHHHHHHHHh
Q 043490          392 CRKHGETRLAELAATKLKQLE--PGDSLGFVQMSNIY  426 (589)
Q Consensus       392 ~~~~g~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~  426 (589)
                      |..+|++..|.++.+...+.-  |-+...|..|++-.
T Consensus        62 f~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   62 FGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             HHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            888888888888777776543  23355666666543

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=95.41  E-value=0.17  Score=47.53  Aligned_cols=108  Identities=14%  Similarity=0.069  Sum_probs=84.7

Q ss_pred             CChhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcC---ChHHHHHHHhcCCC--C-CcchH
Q 043490            3 HSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFG---YLDDARHLFDEMPK--R-NVVSW   76 (589)
Q Consensus         3 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~f~~m~~--~-~~~~~   76 (589)
                      -|...|-.|-+.+...|++..|...|....+..+   +++..+..+...+....   ...++..+|+++..  | |+.+.
T Consensus       154 ~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g---~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral  230 (287)
T COG4235         154 GDAEGWDLLGRAYMALGRASDALLAYRNALRLAG---DNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRAL  230 (287)
T ss_pred             CCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHH
Confidence            3667889999999999999999999999998866   78887777777655443   35678999998874  3 56677


Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHH
Q 043490           77 TALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVL  114 (589)
Q Consensus        77 ~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l  114 (589)
                      .-|...+...|++.+|...++.|.+...|| ..+..++
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~-~~rr~~i  267 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLPAD-DPRRSLI  267 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCCCC-CchHHHH
Confidence            778888999999999999999999874333 3343333

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=95.20  E-value=0.075  Score=45.50  Aligned_cols=55  Identities=18%  Similarity=0.314  Sum_probs=29.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 043490          254 ANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM  308 (589)
Q Consensus       254 ~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  308 (589)
                      ...++..+...|+++.|....+.+.   +-|...|..+|.+|...|+..+|++.|+++
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            3445555555666666666655554   223445556666666666666666555554

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.18  E-value=0.22  Score=46.04  Aligned_cols=105  Identities=19%  Similarity=0.183  Sum_probs=80.6

Q ss_pred             HHHHHHhhCC--CCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCc---
Q 043490          155 EAWKVFENME--FRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGL---  229 (589)
Q Consensus       155 ~A~~lf~~m~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~---  229 (589)
                      ..++.|...+  ++|-.+|-+++..+..        .-..+.+..+-....++.|.+-|+.-|..+|..||+.+-+.   
T Consensus        52 ~~e~~F~aa~~~~RdK~sfl~~V~~F~E--------~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfi  123 (406)
T KOG3941|consen   52 HVEKQFEAAEPEKRDKDSFLAAVATFKE--------KSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFI  123 (406)
T ss_pred             chhhhhhccCcccccHHHHHHHHHHHHH--------hhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccc
Confidence            4456777776  6888889888887711        11134466777777889999999999999999999887543   


Q ss_pred             -------------CcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCH
Q 043490          230 -------------VTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSI  267 (589)
Q Consensus       230 -------------~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~  267 (589)
                                   ..-+-+..++++|...|+.||..+-..|++++++.+-.
T Consensus       124 P~nvfQ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  124 PQNVFQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             cHHHHHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence                         23455788899999999999999999999998887653

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=95.04  E-value=2.6  Score=41.76  Aligned_cols=111  Identities=17%  Similarity=0.106  Sum_probs=66.1

Q ss_pred             HHHHHHhc-CCHHHHHHHHhhCCCC-Ch-hHHHHHH---HHHHcCCcHHHHHHHHHH---cCCHHHHHHHHHHHHHcCCC
Q 043490          143 ALINMYSK-SCADEAWKVFENMEFR-NV-ISWNSMI---AAFRACKLEAQAIELFAK---MKNEEEALFLFRQLQREGMA  213 (589)
Q Consensus       143 ~li~~y~~-g~~~~A~~lf~~m~~~-~~-~~~~~li---~~~~~~g~~~~a~~~~~~---~g~~~~A~~~~~~m~~~g~~  213 (589)
                      .++-.|-. .+++...++.+.++.. +. +.-+..+   .+++           +.+   .|+.++|++++..+....-.
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafA-----------LnRrn~~gdre~Al~il~~~l~~~~~  214 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFA-----------LNRRNKPGDREKALQILLPVLESDEN  214 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHH-----------HhhcccCCCHHHHHHHHHHHHhccCC
Confidence            33445777 8999999999998753 21 1111111   1110           144   79999999999997666677


Q ss_pred             CCHHHHHHHHHHHhC---------cCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCC
Q 043490          214 PDWCTFSIVLKACAG---------LVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGS  266 (589)
Q Consensus       214 p~~~t~~~ll~a~~~---------~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~  266 (589)
                      +++.||..+...|-.         ...++.|...|.+.-+.  .||....-.++..+.-.|.
T Consensus       215 ~~~d~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~  274 (374)
T PF13281_consen  215 PDPDTLGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGH  274 (374)
T ss_pred             CChHHHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCC
Confidence            888899888776631         22355666666544433  3444444344444444443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.03  E-value=2.7  Score=38.24  Aligned_cols=212  Identities=18%  Similarity=0.133  Sum_probs=140.6

Q ss_pred             cHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHHHhcCCHHHHHHHHhhcC-----CCChhHHHHHHHHHHHcCCHHHHHHH
Q 043490          231 TERHASAVHSLIAKYGFE-DDTVIANALIHAYARCGSISLSKQVFDKMT-----YHDLVSWNSILKAYALHGQAKEALQL  304 (589)
Q Consensus       231 ~~~~a~~i~~~~~~~g~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~A~~~  304 (589)
                      ....+...+......... ............+...+.+..+...+....     ......+......+...+...++.+.
T Consensus        38 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (291)
T COG0457          38 ELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALEL  117 (291)
T ss_pred             hHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHH
Confidence            344444444444443311 135666677777778888887777777653     23445666666777777888888888


Q ss_pred             HHhC-CCCCCH-HHHHHHHH-HHhccCcHHHHHHHHHHhHHhcCCcc----CcchHHHHHHHHhhcCCHHHHHHHHHhC-
Q 043490          305 FSNM-NVQPDS-ATFVSLLS-ACSHAGLVQEGNKVFHSMLENHGVVP----QLDHYACMVDLLGRVGRILEAEKLIREM-  376 (589)
Q Consensus       305 ~~~m-~~~p~~-~t~~~ll~-a~~~~g~~~~a~~~~~~~~~~~~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m-  376 (589)
                      +... ...++. ........ ++...|+++.+...+.....   ..|    ....+......+...++.++|...+.+. 
T Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  194 (291)
T COG0457         118 LEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALE---LDPELNELAEALLALGALLEALGRYEEALELLEKAL  194 (291)
T ss_pred             HHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHH
Confidence            8887 444433 22222223 67788888888888887743   222    2223334444466778888888888877 


Q ss_pred             CCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          377 PMEPD--SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       377 ~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      ...|+  ...+..+...+...++.+.+...+.......|.....+..+...+...|.++++...+......
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         195 KLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             hhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            33333  6777788888888888999999999998888865566666777666777788888888777654

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.00  E-value=0.21  Score=48.84  Aligned_cols=64  Identities=16%  Similarity=0.071  Sum_probs=57.8

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          382 SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       382 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      ..++..|..+|.+.+++..|++...++++++|+|.-....-..+|...|.++.|+..|+++.+.
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~  320 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKL  320 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            3456777888899999999999999999999999999999999999999999999999999864

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.00  E-value=2.2  Score=38.97  Aligned_cols=84  Identities=13%  Similarity=0.092  Sum_probs=48.5

Q ss_pred             HHHHHhhcCCHHHHHHHHHhCC-------CCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhc----CCCChhHHHHHH
Q 043490          356 MVDLLGRVGRILEAEKLIREMP-------MEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQL----EPGDSLGFVQMS  423 (589)
Q Consensus       356 li~~~~~~g~~~~A~~~~~~m~-------~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~p~~~~~~~~l~  423 (589)
                      .-..|.+..++++|-..|.+-+       --|+ -..+-+.|-.+....++..|++.++.--++    +|.+..+...|+
T Consensus       156 ~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL  235 (308)
T KOG1585|consen  156 CSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLL  235 (308)
T ss_pred             hhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHH
Confidence            3445666666666655554431       1122 123344444555556777888877775443    356667777777


Q ss_pred             HHhhhcCChHHHHHHHH
Q 043490          424 NIYCLSGSFNKARLIRK  440 (589)
Q Consensus       424 ~~~~~~g~~~~a~~~~~  440 (589)
                      .+|- .|+.+++.++..
T Consensus       236 ~ayd-~gD~E~~~kvl~  251 (308)
T KOG1585|consen  236 TAYD-EGDIEEIKKVLS  251 (308)
T ss_pred             HHhc-cCCHHHHHHHHc
Confidence            7774 567776666543

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=94.85  E-value=0.89  Score=41.38  Aligned_cols=141  Identities=17%  Similarity=0.152  Sum_probs=69.2

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHH
Q 043490          285 WNSILKAYALHGQAKEALQLFSNM-NVQPD----SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDL  359 (589)
Q Consensus       285 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~  359 (589)
                      +-.....+.+.|++.+|.+.|+++ ..-|+    ......++.++.+.|++++|...++..++.+.-.|.. .+...+.+
T Consensus         8 lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~-~~A~Y~~g   86 (203)
T PF13525_consen    8 LYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKA-DYALYMLG   86 (203)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTH-HHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcch-hhHHHHHH
Confidence            333445556667777777777776 22221    2344555666666777777777777666554333322 11111111


Q ss_pred             HhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChh-----------------HHHHH
Q 043490          360 LGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSL-----------------GFVQM  422 (589)
Q Consensus       360 ~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~-----------------~~~~l  422 (589)
                      .+.........      ..             ....+....|...|+.+++.-|++..                 .-..+
T Consensus        87 ~~~~~~~~~~~------~~-------------~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~~i  147 (203)
T PF13525_consen   87 LSYYKQIPGIL------RS-------------DRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHELYI  147 (203)
T ss_dssp             HHHHHHHHHHH-------T-------------T---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCccch------hc-------------ccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            11111110000      00             11112234555555555555554322                 12356


Q ss_pred             HHHhhhcCChHHHHHHHHHHhcC
Q 043490          423 SNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       423 ~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      +..|.+.|.+..|..-++.+.+.
T Consensus       148 a~~Y~~~~~y~aA~~r~~~v~~~  170 (203)
T PF13525_consen  148 ARFYYKRGKYKAAIIRFQYVIEN  170 (203)
T ss_dssp             HHHHHCTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHH
Confidence            78899999999999999998764

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=94.82  E-value=0.26  Score=40.02  Aligned_cols=89  Identities=20%  Similarity=0.177  Sum_probs=65.4

Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCh----hHHHHHHHHhhhcCCh
Q 043490          359 LLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDS----LGFVQMSNIYCLSGSF  432 (589)
Q Consensus       359 ~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~----~~~~~l~~~~~~~g~~  432 (589)
                      +++..|+++.|++.|.+. .+-| ....||.-..+++-.|+.++|..-+++.+++.-+..    .+|+.-...|-..|+-
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~d  131 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGND  131 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCch
Confidence            466778888888888776 3344 477788888888888888888888888887653222    2366667778888888


Q ss_pred             HHHHHHHHHHhcCCC
Q 043490          433 NKARLIRKEMKGSRV  447 (589)
Q Consensus       433 ~~a~~~~~~m~~~~~  447 (589)
                      +.|+.=|+..-+.|-
T Consensus       132 d~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  132 DAARADFEAAAQLGS  146 (175)
T ss_pred             HHHHHhHHHHHHhCC
Confidence            888888887776664

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.72  E-value=7.7  Score=43.65  Aligned_cols=124  Identities=15%  Similarity=0.106  Sum_probs=55.2

Q ss_pred             CCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHH----hccCcHHHHHHHHHHh
Q 043490          265 GSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSAC----SHAGLVQEGNKVFHSM  340 (589)
Q Consensus       265 g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~----~~~g~~~~a~~~~~~~  340 (589)
                      ++++.|+.-+..+.   ...|.-.+.---++|.+.+|+.++     .|+...+..+..+|    ...+.+++|--.|+..
T Consensus       894 ~ry~~AL~hLs~~~---~~~~~e~~n~I~kh~Ly~~aL~ly-----~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~  965 (1265)
T KOG1920|consen  894 KRYEDALSHLSECG---ETYFPECKNYIKKHGLYDEALALY-----KPDSEKQKVIYEAYADHLREELMSDEAALMYERC  965 (1265)
T ss_pred             HHHHHHHHHHHHcC---ccccHHHHHHHHhcccchhhhhee-----ccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHh
Confidence            44555555554443   222333333334455555555544     35554444333333    3344455554444332


Q ss_pred             HHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHH--HHHHHHHHHHcCCHHHHHHHHH
Q 043490          341 LENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVI--WSVLLGSCRKHGETRLAELAAT  406 (589)
Q Consensus       341 ~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~--~~~ll~~~~~~g~~~~a~~~~~  406 (589)
                      -+          ..--+.+|..+|++.+|+.+..++....|...  -..|.+-+...+++-+|-++..
T Consensus       966 Gk----------lekAl~a~~~~~dWr~~l~~a~ql~~~~de~~~~a~~L~s~L~e~~kh~eAa~il~ 1023 (1265)
T KOG1920|consen  966 GK----------LEKALKAYKECGDWREALSLAAQLSEGKDELVILAEELVSRLVEQRKHYEAAKILL 1023 (1265)
T ss_pred             cc----------HHHHHHHHHHhccHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHcccchhHHHHHH
Confidence            10          11234555556666666666655532223221  1344555555555544444433

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.58  E-value=0.7  Score=45.36  Aligned_cols=93  Identities=13%  Similarity=0.076  Sum_probs=75.5

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhc
Q 043490          352 HYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLS  429 (589)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  429 (589)
                      ++..|.-.|.+.+++.+|++.-++. ...| |+...-.=..+|...|+++.|+..|+++++++|.|-.+-..|+.+-.+.
T Consensus       259 ~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~  338 (397)
T KOG0543|consen  259 CHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQKI  338 (397)
T ss_pred             HhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence            5667778888999999998888776 3344 5666666678999999999999999999999999988888888887777


Q ss_pred             CChHHH-HHHHHHHhc
Q 043490          430 GSFNKA-RLIRKEMKG  444 (589)
Q Consensus       430 g~~~~a-~~~~~~m~~  444 (589)
                      ....+. .++|..|-.
T Consensus       339 ~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  339 REYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            666555 778888864

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=94.57  E-value=1.7  Score=41.99  Aligned_cols=121  Identities=15%  Similarity=0.102  Sum_probs=61.4

Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhcCC--cc--CcchHHHHHHHHhhcCCHHHHHHHHHhC-------CCCCCHHHHH--
Q 043490          320 LLSACSHAGLVQEGNKVFHSMLENHGV--VP--QLDHYACMVDLLGRVGRILEAEKLIREM-------PMEPDSVIWS--  386 (589)
Q Consensus       320 ll~a~~~~g~~~~a~~~~~~~~~~~~~--~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~~~~~~--  386 (589)
                      +..+....+.++++.+.|+...+-..-  .|  ...+|..|...|++..++++|.-+..+.       +++--..-|.  
T Consensus       128 ~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~  207 (518)
T KOG1941|consen  128 MGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAM  207 (518)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHH
Confidence            444555555666666666655332111  11  2335666666777766666665544433       2111111122  


Q ss_pred             ---HHHHHHHHcCCHHHHHHHHHHHhhcC--CCChh----HHHHHHHHhhhcCChHHHHHHHH
Q 043490          387 ---VLLGSCRKHGETRLAELAATKLKQLE--PGDSL----GFVQMSNIYCLSGSFNKARLIRK  440 (589)
Q Consensus       387 ---~ll~~~~~~g~~~~a~~~~~~~~~~~--p~~~~----~~~~l~~~~~~~g~~~~a~~~~~  440 (589)
                         -+.-+++..|....|.+.-++..++-  ..|..    ....+.++|-..|+.+.|..-++
T Consensus       208 ~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe  270 (518)
T KOG1941|consen  208 SLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYE  270 (518)
T ss_pred             HHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHH
Confidence               23345666666666666666654421  22322    23456666777777666655554

>PRK11906 transcriptional regulator; Provisional

Probab=94.56  E-value=2.2  Score=43.13  Aligned_cols=154  Identities=12%  Similarity=0.122  Sum_probs=96.2

Q ss_pred             hHH--HHHHHHHHHc-----CCHHHHHHHHHhC----CCCCCHH-HHHHHHHHHhc---------cCcHHHHHHHHHHhH
Q 043490          283 VSW--NSILKAYALH-----GQAKEALQLFSNM----NVQPDSA-TFVSLLSACSH---------AGLVQEGNKVFHSML  341 (589)
Q Consensus       283 ~~~--~~li~~~~~~-----g~~~~A~~~~~~m----~~~p~~~-t~~~ll~a~~~---------~g~~~~a~~~~~~~~  341 (589)
                      ..|  ..++.|....     ...+.|+.+|.+.    .+.|+.. .|..+..++..         .....+|.+.-+..+
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            455  5555554441     1345677788877    4556543 33333322211         223445555555554


Q ss_pred             HhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhH
Q 043490          342 ENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLG  418 (589)
Q Consensus       342 ~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  418 (589)
                      +   +.| |......+..++.-.|+++.|..+|++. .+.|| ..+|......+.-.|+.++|.+.+++..+++|.-..+
T Consensus       332 e---ld~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~  408 (458)
T PRK11906        332 D---ITTVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKA  408 (458)
T ss_pred             h---cCCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHH
Confidence            3   334 5555666666667778899999999888 66777 6677777777778899999999999999999854433


Q ss_pred             --HHHHHHHhhhcCChHHHHHHHH
Q 043490          419 --FVQMSNIYCLSGSFNKARLIRK  440 (589)
Q Consensus       419 --~~~l~~~~~~~g~~~~a~~~~~  440 (589)
                        ....++.|...+ .++|++++-
T Consensus       409 ~~~~~~~~~~~~~~-~~~~~~~~~  431 (458)
T PRK11906        409 VVIKECVDMYVPNP-LKNNIKLYY  431 (458)
T ss_pred             HHHHHHHHHHcCCc-hhhhHHHHh
Confidence              334445666554 566666654

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.39  E-value=0.59  Score=47.13  Aligned_cols=154  Identities=12%  Similarity=0.055  Sum_probs=92.1

Q ss_pred             HHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHH
Q 043490          293 ALHGQAKEALQLFSNM-NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEK  371 (589)
Q Consensus       293 ~~~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  371 (589)
                      -+..+.+.-++.-++. .+.||..+.-.++. --.+....++.+++++.++...     ..+..- ......|.   ..+
T Consensus       179 WRERnp~aRIkaA~eALei~pdCAdAYILLA-EEeA~Ti~Eae~l~rqAvkAgE-----~~lg~s-~~~~~~g~---~~e  248 (539)
T PF04184_consen  179 WRERNPQARIKAAKEALEINPDCADAYILLA-EEEASTIVEAEELLRQAVKAGE-----ASLGKS-QFLQHHGH---FWE  248 (539)
T ss_pred             HhcCCHHHHHHHHHHHHHhhhhhhHHHhhcc-cccccCHHHHHHHHHHHHHHHH-----Hhhchh-hhhhcccc---hhh
Confidence            3445555555555555 67787655444432 2234567888888887754310     000000 00000111   111


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC--ChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCCcc
Q 043490          372 LIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPG--DSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRK  449 (589)
Q Consensus       372 ~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  449 (589)
                      .+..-..+|-..+-..|..++.+.|+.++|++.++.+.+..|.  +..+...|++++...+.+.++..++.+-.+-..++
T Consensus       249 ~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpk  328 (539)
T PF04184_consen  249 AWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPK  328 (539)
T ss_pred             hhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCc
Confidence            1111122233444466777888999999999999999887764  45678899999999999999999999876655555


Q ss_pred             CCceeeE
Q 043490          450 YPGLSWI  456 (589)
Q Consensus       450 ~~~~s~~  456 (589)
                      ....+|.
T Consensus       329 SAti~YT  335 (539)
T PF04184_consen  329 SATICYT  335 (539)
T ss_pred             hHHHHHH
Confidence            5555543

The molecular function of this protein is uncertain.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.31  E-value=0.33  Score=45.09  Aligned_cols=57  Identities=12%  Similarity=0.047  Sum_probs=26.9

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhcCCC---ChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          388 LLGSCRKHGETRLAELAATKLKQLEPG---DSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       388 ll~~~~~~g~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      |..++...|+++.|...|..+.+-.|.   -+..+.-|.....+.|+.++|..+|+++.+
T Consensus       184 LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         184 LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            344444555555555555554443332   223344444445555555555555555443

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.30  E-value=4.9  Score=38.00  Aligned_cols=136  Identities=8%  Similarity=0.090  Sum_probs=79.6

Q ss_pred             HHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCC-hhHHH---HHHHHHHHcCCHHH
Q 043490          225 ACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHD-LVSWN---SILKAYALHGQAKE  300 (589)
Q Consensus       225 a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~---~li~~~~~~g~~~~  300 (589)
                      .....|+...+..+++...... +-+...--.|...|...|+.+.|..++..++... ...|.   +-|..+.+.....+
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            3467788888988888887765 4455667778889999999999999999988321 11121   22333333333333


Q ss_pred             HHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHh
Q 043490          301 ALQLFSNMNVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLG  361 (589)
Q Consensus       301 A~~~~~~m~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~  361 (589)
                      ...+-++..-.| |...-..+...+...|+.++|.+.+-.++++..-.-|...-..|++.+.
T Consensus       222 ~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~  283 (304)
T COG3118         222 IQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFE  283 (304)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHH
Confidence            333333332345 4445555666777778888777766555444222223334444444433

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.27  E-value=0.66  Score=47.55  Aligned_cols=106  Identities=20%  Similarity=0.183  Sum_probs=61.6

Q ss_pred             HhcCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHh
Q 043490           53 AKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKF  132 (589)
Q Consensus        53 ~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~  132 (589)
                      .++|+++.|.++-++..  +...|..|.....++|+++-|.+.|.+...                               
T Consensus       329 l~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d-------------------------------  375 (443)
T PF04053_consen  329 LQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD-------------------------------  375 (443)
T ss_dssp             HHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT--------------------------------
T ss_pred             HhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC-------------------------------
Confidence            34444555544444333  566888888888888888888888876643                               


Q ss_pred             cCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHH
Q 043490          133 SLDAHVYVANALINMYSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEAL  201 (589)
Q Consensus       133 g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~  201 (589)
                              +..|+-.|.- |+.+.-.++-+....++  -+|....++.-.|+.++..+++.+.|++.+|.
T Consensus       376 --------~~~L~lLy~~~g~~~~L~kl~~~a~~~~--~~n~af~~~~~lgd~~~cv~lL~~~~~~~~A~  435 (443)
T PF04053_consen  376 --------FSGLLLLYSSTGDREKLSKLAKIAEERG--DINIAFQAALLLGDVEECVDLLIETGRLPEAA  435 (443)
T ss_dssp             --------HHHHHHHHHHCT-HHHHHHHHHHHHHTT---HHHHHHHHHHHT-HHHHHHHHHHTT-HHHHH
T ss_pred             --------ccccHHHHHHhCCHHHHHHHHHHHHHcc--CHHHHHHHHHHcCCHHHHHHHHHHcCCchHHH
Confidence                    3455555666 77666655554433221  24555555555567777777777777766653

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.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=94.27  E-value=0.24  Score=49.60  Aligned_cols=60  Identities=12%  Similarity=-0.007  Sum_probs=32.8

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Q 043490          352 HYACMVDLLGRVGRILEAEKLIREM-PMEPDS----VIWSVLLGSCRKHGETRLAELAATKLKQL  411 (589)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  411 (589)
                      .++.+..+|.+.|++++|+..|++. .+.|+.    .+|..+..+|...|+.++|+..+++++++
T Consensus        77 a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         77 DAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4455555555555555555555553 444442    23555666666666666666666665554

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=94.13  E-value=16  Score=44.59  Aligned_cols=275  Identities=16%  Similarity=0.092  Sum_probs=149.6

Q ss_pred             HHHHHHHHhc-CCHHHHHHHHh-hCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-HH
Q 043490          141 ANALINMYSK-SCADEAWKVFE-NMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPD-WC  217 (589)
Q Consensus       141 ~~~li~~y~~-g~~~~A~~lf~-~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~  217 (589)
                      +-.+...|+. +++|....+.. ....++..  + -|.-.             ...|++..|...|+++.+.+  |+ ..
T Consensus      1423 ~fllq~lY~~i~dpDgV~Gv~~~r~a~~sl~--~-qil~~-------------e~~g~~~da~~Cye~~~q~~--p~~~~ 1484 (2382)
T KOG0890|consen 1423 YFLLQNLYGSIHDPDGVEGVSARRFADPSLY--Q-QILEH-------------EASGNWADAAACYERLIQKD--PDKEK 1484 (2382)
T ss_pred             HHHHHHHHHhcCCcchhhhHHHHhhcCccHH--H-HHHHH-------------HhhccHHHHHHHHHHhhcCC--Ccccc
Confidence            3344457777 77776666555 23333321  1 22222             67799999999999998764  44 66


Q ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHH-HHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHH-HH-HHHH
Q 043490          218 TFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIAN-ALIHAYARCGSISLSKQVFDKMTYHDLVSWNSI-LK-AYAL  294 (589)
Q Consensus       218 t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~-~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l-i~-~~~~  294 (589)
                      +++-++......+.++...-..+-.... ..+...-++ .=+.+--+.++++.......   ..+..+|.+. +. ...+
T Consensus      1485 ~~~g~l~sml~~~~l~t~i~~~dg~~~~-~se~~~~~~s~~~eaaW~l~qwD~~e~~l~---~~n~e~w~~~~~g~~ll~ 1560 (2382)
T KOG0890|consen 1485 HHSGVLKSMLAIQHLSTEILHLDGLIIN-RSEEVDELNSLGVEAAWRLSQWDLLESYLS---DRNIEYWSVESIGKLLLR 1560 (2382)
T ss_pred             chhhHHHhhhcccchhHHHhhhcchhhc-cCHHHHHHHHHHHHHHhhhcchhhhhhhhh---cccccchhHHHHHHHHHh
Confidence            7887777777777777666544433322 233333333 33445567788877776665   5566666665 22 2222


Q ss_pred             cC--CHH---HHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHH----H------HHhHHhcCCccCcch------H
Q 043490          295 HG--QAK---EALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKV----F------HSMLENHGVVPQLDH------Y  353 (589)
Q Consensus       295 ~g--~~~---~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~~~----~------~~~~~~~~~~p~~~~------~  353 (589)
                      ..  +.-   +.++..++.-+.        =+.+|+..|.+..+.++    +      .......++.++..+      |
T Consensus      1561 ~~~kD~~~~~~~i~~~r~~~i~--------~lsa~s~~~Sy~~~Y~~~~kLH~l~el~~~~~~l~~~s~~~~s~~~sd~W 1632 (2382)
T KOG0890|consen 1561 NKKKDEIATLDLIENSRELVIE--------NLSACSIEGSYVRSYEILMKLHLLLELENSIEELKKVSYDEDSANNSDNW 1632 (2382)
T ss_pred             hcccchhhHHHHHHHHHHHhhh--------hHHHhhccchHHHHHHHHHHHHHHHHHHHHHHHhhccCccccccccchhH
Confidence            11  111   122222222111        11222222222122111    1      111111233343221      2


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhC----CCCC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHH
Q 043490          354 ACMVDLLGRVGRILEAEKLIREM----PMEP-----DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSN  424 (589)
Q Consensus       354 ~~li~~~~~~g~~~~A~~~~~~m----~~~p-----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  424 (589)
                      ..-+..-....+..+-+--+++.    ..+|     -..+|-...+.++.+|.++.|....-.+.+..+  +..+.-.+.
T Consensus      1633 ~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~nall~A~e~r~--~~i~~E~AK 1710 (2382)
T KOG0890|consen 1633 KNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQNALLNAKESRL--PEIVLERAK 1710 (2382)
T ss_pred             HHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHHHHHHhhhhccc--chHHHHHHH
Confidence            11121111111122222222221    1122     267899999999999999999998888877774  467889999


Q ss_pred             HhhhcCChHHHHHHHHHHhcCCC
Q 043490          425 IYCLSGSFNKARLIRKEMKGSRV  447 (589)
Q Consensus       425 ~~~~~g~~~~a~~~~~~m~~~~~  447 (589)
                      .....|+-..|+.++++..+...
T Consensus      1711 ~lW~~gd~~~Al~~Lq~~l~~~~ 1733 (2382)
T KOG0890|consen 1711 LLWQTGDELNALSVLQEILSKNF 1733 (2382)
T ss_pred             HHHhhccHHHHHHHHHHHHHhhc
Confidence            99999999999999998875544

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.03  E-value=3.1  Score=35.05  Aligned_cols=87  Identities=14%  Similarity=0.123  Sum_probs=63.4

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHHHHHHHHhCC
Q 043490            8 YATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHG   87 (589)
Q Consensus         8 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g   87 (589)
                      ...++..+...+........++.+.+..+   .++..+|.++..|++.+ ..+....+..  ..+.......++.|.+.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~~---~~~~~~~~li~ly~~~~-~~~ll~~l~~--~~~~yd~~~~~~~c~~~~   83 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLNS---ENPALQTKLIELYAKYD-PQKEIERLDN--KSNHYDIEKVGKLCEKAK   83 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccCc---cchhHHHHHHHHHHHHC-HHHHHHHHHh--ccccCCHHHHHHHHHHcC
Confidence            45677777778888888998888887633   67788999999998764 4455555552  234555666788888888


Q ss_pred             ChhHHHHHHHHHH
Q 043490           88 NAEECFRLFCSLL  100 (589)
Q Consensus        88 ~~~~A~~~~~~m~  100 (589)
                      .++++.-++.++.
T Consensus        84 l~~~~~~l~~k~~   96 (140)
T smart00299       84 LYEEAVELYKKDG   96 (140)
T ss_pred             cHHHHHHHHHhhc
Confidence            8888888887764

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.02  E-value=0.36  Score=44.74  Aligned_cols=96  Identities=20%  Similarity=0.255  Sum_probs=72.2

Q ss_pred             HHHHHhhcC--CCChhHHHHHHHHHHHc-----CCHHHHHHHHHhC---CCCCCHHHHHHHHHHHhccC-----------
Q 043490          270 SKQVFDKMT--YHDLVSWNSILKAYALH-----GQAKEALQLFSNM---NVQPDSATFVSLLSACSHAG-----------  328 (589)
Q Consensus       270 A~~~~~~~~--~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m---~~~p~~~t~~~ll~a~~~~g-----------  328 (589)
                      .++.|....  ++|-.+|-+++..+..+     ++.+-....++.|   |+.-|..+|..||+.+-+..           
T Consensus        53 ~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F  132 (406)
T KOG3941|consen   53 VEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVF  132 (406)
T ss_pred             hhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHH
Confidence            455666666  67888888888887654     4555444555555   99999999999998765532           


Q ss_pred             -----cHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCH
Q 043490          329 -----LVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRI  366 (589)
Q Consensus       329 -----~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  366 (589)
                           .-+=+.+++++| +.+|+.||.++-..|++++++.+-.
T Consensus       133 ~HYP~QQ~C~I~vLeqM-E~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQM-EWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             hhCchhhhHHHHHHHHH-HHcCCCCchHHHHHHHHHhcccccc
Confidence                 234578899999 7789999999999999999998853

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=93.92  E-value=7.7  Score=38.91  Aligned_cols=72  Identities=15%  Similarity=0.230  Sum_probs=57.2

Q ss_pred             HHHHhCCCCC----CHHHHHHHHHH--HHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          371 KLIREMPMEP----DSVIWSVLLGS--CRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       371 ~~~~~m~~~p----~~~~~~~ll~~--~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      .++++.++.|    +...-|.|..|  +..+|++.++...-.-+.+..| ++.+|..++-......++++|..++..+.
T Consensus       445 ~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~LP  522 (549)
T PF07079_consen  445 DFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKLP  522 (549)
T ss_pred             HHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhCC
Confidence            3444455555    34556666654  5788999999988888899999 99999999999999999999999998754

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.83  E-value=2  Score=35.95  Aligned_cols=17  Identities=24%  Similarity=0.112  Sum_probs=9.6

Q ss_pred             HHHHHHHHHHhhcCCCC
Q 043490          399 RLAELAATKLKQLEPGD  415 (589)
Q Consensus       399 ~~a~~~~~~~~~~~p~~  415 (589)
                      ..|...|+++++.-|++
T Consensus       116 ~~A~~~f~~lv~~yP~S  132 (142)
T PF13512_consen  116 RQAFRDFEQLVRRYPNS  132 (142)
T ss_pred             HHHHHHHHHHHHHCcCC
Confidence            45555566666655643

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.60  E-value=0.99  Score=42.02  Aligned_cols=102  Identities=17%  Similarity=0.182  Sum_probs=63.7

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC----CCCCC-HHHHHHHH
Q 043490          316 TFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM----PMEPD-SVIWSVLL  389 (589)
Q Consensus       316 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~-~~~~~~ll  389 (589)
                      .|+.-+..+ ..|++..|...|...++++.-.+ ....+--|...+...|++++|..+|..+    |-.|- +...--|.
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 LYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            455555443 34667777777777766542211 2234445677777777777777777666    32332 45555666


Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCCCChhH
Q 043490          390 GSCRKHGETRLAELAATKLKQLEPGDSLG  418 (589)
Q Consensus       390 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  418 (589)
                      ....+.|+.+.|...++++.+.-|..+.+
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            67777888888888888888877765443

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.58  E-value=0.71  Score=38.63  Aligned_cols=56  Identities=21%  Similarity=0.175  Sum_probs=33.1

Q ss_pred             hhcCCHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCh
Q 043490          361 GRVGRILEAEKLIREM----PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDS  416 (589)
Q Consensus       361 ~~~g~~~~A~~~~~~m----~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  416 (589)
                      .+.|++++|.+.|+.+    |..| ....---|+.+|.+.++++.|...+++.++++|.++
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp   81 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHP   81 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCC
Confidence            3455555665555555    2222 133444566677777777777777777777776543

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=93.38  E-value=1.4  Score=45.31  Aligned_cols=130  Identities=20%  Similarity=0.238  Sum_probs=78.0

Q ss_pred             HHHcCCHHHHHHHHH--hC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHH
Q 043490          292 YALHGQAKEALQLFS--NM-NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILE  368 (589)
Q Consensus       292 ~~~~g~~~~A~~~~~--~m-~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  368 (589)
                      ....|+++++.++.+  ++ .--| ..-...++.-+.+.|-.+.|.++-..-..             -.+...++|+++.
T Consensus       271 av~~~d~~~v~~~i~~~~ll~~i~-~~~~~~i~~fL~~~G~~e~AL~~~~D~~~-------------rFeLAl~lg~L~~  336 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLLPNIP-KDQGQSIARFLEKKGYPELALQFVTDPDH-------------RFELALQLGNLDI  336 (443)
T ss_dssp             HHHTT-HHH-----HHHHTGGG---HHHHHHHHHHHHHTT-HHHHHHHSS-HHH-------------HHHHHHHCT-HHH
T ss_pred             HHHcCChhhhhhhhhhhhhcccCC-hhHHHHHHHHHHHCCCHHHHHhhcCChHH-------------HhHHHHhcCCHHH
Confidence            345666777665554  22 1112 33456666666777777777776544322             2355667888888


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          369 AEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       369 A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      |.++.++..   +...|..|......+|+++.|++.+++..        -+..|+-.|.-.|+.+.-.++.+....+|
T Consensus       337 A~~~a~~~~---~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~--------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~  403 (443)
T PF04053_consen  337 ALEIAKELD---DPEKWKQLGDEALRQGNIELAEECYQKAK--------DFSGLLLLYSSTGDREKLSKLAKIAEERG  403 (443)
T ss_dssp             HHHHCCCCS---THHHHHHHHHHHHHTTBHHHHHHHHHHCT---------HHHHHHHHHHCT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHhcC---cHHHHHHHHHHHHHcCCHHHHHHHHHhhc--------CccccHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            888776643   67788888888888888888888887663        34567777777888777777666665554

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.

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=93.36  E-value=5.5  Score=35.77  Aligned_cols=159  Identities=13%  Similarity=0.118  Sum_probs=87.0

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHH
Q 043490          283 VSWNSILKAYALHGQAKEALQLFSNM-NVQPDS-ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLL  360 (589)
Q Consensus       283 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~  360 (589)
                      ..||-+.--+...|+++.|.+.|+.. .+.|.. .+...-.-++--.|++..|.+-|...-+.   .|+. .|.+|---+
T Consensus       100 ~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ~---D~~D-PfR~LWLYl  175 (297)
T COG4785         100 EVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQDDLLAFYQD---DPND-PFRSLWLYL  175 (297)
T ss_pred             HHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHhhHHHHHHHHhc---CCCC-hHHHHHHHH
Confidence            46666666677777888888877777 666642 23322222333457777776655443322   2321 222222111


Q ss_pred             -hhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC-------hhHHHHHHHHhhhcCCh
Q 043490          361 -GRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGD-------SLGFVQMSNIYCLSGSF  432 (589)
Q Consensus       361 -~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g~~  432 (589)
                       -+.-+..+|..-+.+--...|..-|...|-.+.--+=.+  +.+++++.+...++       ..+|.-|..-|...|+.
T Consensus       176 ~E~k~dP~~A~tnL~qR~~~~d~e~WG~~iV~~yLgkiS~--e~l~~~~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~G~~  253 (297)
T COG4785         176 NEQKLDPKQAKTNLKQRAEKSDKEQWGWNIVEFYLGKISE--ETLMERLKADATDNTSLAEHLTETYFYLGKYYLSLGDL  253 (297)
T ss_pred             HHhhCCHHHHHHHHHHHHHhccHhhhhHHHHHHHHhhccH--HHHHHHHHhhccchHHHHHHHHHHHHHHHHHHhccccH
Confidence             123345555544332211345566665554443222111  22334443322222       46788899999999999


Q ss_pred             HHHHHHHHHHhcCCC
Q 043490          433 NKARLIRKEMKGSRV  447 (589)
Q Consensus       433 ~~a~~~~~~m~~~~~  447 (589)
                      ++|..+|+-....++
T Consensus       254 ~~A~~LfKLaiannV  268 (297)
T COG4785         254 DEATALFKLAVANNV  268 (297)
T ss_pred             HHHHHHHHHHHHHhH
Confidence            999999998776554

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=93.14  E-value=0.68  Score=37.64  Aligned_cols=88  Identities=18%  Similarity=0.095  Sum_probs=48.9

Q ss_pred             HHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC----CCCC--CHHHHHHHHHHHHHc
Q 043490          323 ACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM----PMEP--DSVIWSVLLGSCRKH  395 (589)
Q Consensus       323 a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p--~~~~~~~ll~~~~~~  395 (589)
                      +.+..|+++.|.+.|.+.+   .+-| ....||.-..+|.-.|+.++|++-+++.    +-+-  --..|..-...|+..
T Consensus        52 alaE~g~Ld~AlE~F~qal---~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQAL---CLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHhccchHHHHHHHHHHH---HhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHh
Confidence            3445566666666665554   2233 4556666666666666666666655554    1110  012233333456677


Q ss_pred             CCHHHHHHHHHHHhhcCC
Q 043490          396 GETRLAELAATKLKQLEP  413 (589)
Q Consensus       396 g~~~~a~~~~~~~~~~~p  413 (589)
                      |+.+.|..-|+..-+++.
T Consensus       129 g~dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLGS  146 (175)
T ss_pred             CchHHHHHhHHHHHHhCC
Confidence            777777777777766654

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.09  E-value=0.2  Score=30.17  Aligned_cols=32  Identities=16%  Similarity=0.077  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC
Q 043490          383 VIWSVLLGSCRKHGETRLAELAATKLKQLEPG  414 (589)
Q Consensus       383 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  414 (589)
                      .+|..+...+...|++++|+..++++++++|+
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            46777888888888888888888888888874

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 ....

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=93.06  E-value=4.8  Score=33.90  Aligned_cols=99  Identities=18%  Similarity=0.233  Sum_probs=62.6

Q ss_pred             cchHHHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhcCC
Q 043490           73 VVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSKSC  152 (589)
Q Consensus        73 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~g~  152 (589)
                      ...-..++..+.+.+.+......++.+...                              + ..+....|.++..|++-+
T Consensus         7 ~~~~~~vv~~~~~~~~~~~l~~yLe~~~~~------------------------------~-~~~~~~~~~li~ly~~~~   55 (140)
T smart00299        7 PIDVSEVVELFEKRNLLEELIPYLESALKL------------------------------N-SENPALQTKLIELYAKYD   55 (140)
T ss_pred             cCCHHHHHHHHHhCCcHHHHHHHHHHHHcc------------------------------C-ccchhHHHHHHHHHHHHC
Confidence            344556777777777788888877776543                              2 245567788888888833


Q ss_pred             HHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHH
Q 043490          153 ADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLF  204 (589)
Q Consensus       153 ~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~  204 (589)
                      .++....+..  ..+.......+..|.+.+.++++.-++.+.|++++|+++.
T Consensus        56 ~~~ll~~l~~--~~~~yd~~~~~~~c~~~~l~~~~~~l~~k~~~~~~Al~~~  105 (140)
T smart00299       56 PQKEIERLDN--KSNHYDIEKVGKLCEKAKLYEEAVELYKKDGNFKDAIVTL  105 (140)
T ss_pred             HHHHHHHHHh--ccccCCHHHHHHHHHHcCcHHHHHHHHHhhcCHHHHHHHH
Confidence            4444555552  2333444556667766666666666677777766666554

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=92.94  E-value=6.9  Score=35.40  Aligned_cols=218  Identities=16%  Similarity=0.072  Sum_probs=155.3

Q ss_pred             CCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHHHhcCCHHHHHH
Q 043490          195 KNEEEALFLFRQLQREGMA-PDWCTFSIVLKACAGLVTERHASAVHSLIAKY-GFEDDTVIANALIHAYARCGSISLSKQ  272 (589)
Q Consensus       195 g~~~~A~~~~~~m~~~g~~-p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~-g~~~~~~~~~~li~~~~~~g~~~~A~~  272 (589)
                      +....+...+......... .....+......+...+++..+...+...... ........+..+...+...++++.+.+
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            4455555555555543322 13566777777778888888888888777653 335566777778888888888999999


Q ss_pred             HHhhcCC--CCh-hHHHHHHH-HHHHcCCHHHHHHHHHhC-CCCC----CHHHHHHHHHHHhccCcHHHHHHHHHHhHHh
Q 043490          273 VFDKMTY--HDL-VSWNSILK-AYALHGQAKEALQLFSNM-NVQP----DSATFVSLLSACSHAGLVQEGNKVFHSMLEN  343 (589)
Q Consensus       273 ~~~~~~~--~~~-~~~~~li~-~~~~~g~~~~A~~~~~~m-~~~p----~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  343 (589)
                      .+.....  ++. ........ .+...|+.++|...|.+. ...|    ....+......+...++.+.+...+....+.
T Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  196 (291)
T COG0457         117 LLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKL  196 (291)
T ss_pred             HHHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhh
Confidence            9988774  222 33333444 788999999999999998 5444    2334444445567788999999999888643


Q ss_pred             cCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC
Q 043490          344 HGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPG  414 (589)
Q Consensus       344 ~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  414 (589)
                      .  .. ....+..+...+...+.+++|...+... ...|+ ...+..+...+...+..+.+...+.+..+..|.
T Consensus       197 ~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         197 N--PDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             C--cccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            1  22 3567888888899999999999999888 44555 455555666666777899999999999998885

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.92  E-value=0.31  Score=29.23  Aligned_cols=33  Identities=21%  Similarity=0.199  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC
Q 043490          383 VIWSVLLGSCRKHGETRLAELAATKLKQLEPGD  415 (589)
Q Consensus       383 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  415 (589)
                      ..|..+...+...|++++|++.++++++++|+|
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            356667777788888888888888888887753

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 ....

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=92.87  E-value=3  Score=43.44  Aligned_cols=25  Identities=8%  Similarity=-0.219  Sum_probs=14.4

Q ss_pred             HHHHHHHhCcCcHHHHHHHHHHHHH
Q 043490          220 SIVLKACAGLVTERHASAVHSLIAK  244 (589)
Q Consensus       220 ~~ll~a~~~~~~~~~a~~i~~~~~~  244 (589)
                      ..+++...-.||-+.|.+.+....+
T Consensus       192 ~kll~~vGF~gdR~~GL~~L~~~~~  216 (468)
T PF10300_consen  192 LKLLSFVGFSGDRELGLRLLWEASK  216 (468)
T ss_pred             HHHHhhcCcCCcHHHHHHHHHHHhc
Confidence            3444455555666666666665544

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=92.78  E-value=5.8  Score=37.52  Aligned_cols=19  Identities=21%  Similarity=0.253  Sum_probs=7.9

Q ss_pred             HHHHHhccCcHHHHHHHHH
Q 043490          320 LLSACSHAGLVQEGNKVFH  338 (589)
Q Consensus       320 ll~a~~~~g~~~~a~~~~~  338 (589)
                      +..++...|+.+.|..++.
T Consensus       174 la~~~l~~g~~e~A~~iL~  192 (304)
T COG3118         174 LAECLLAAGDVEAAQAILA  192 (304)
T ss_pred             HHHHHHHcCChHHHHHHHH
Confidence            3334444444444444443

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.76  E-value=16  Score=39.25  Aligned_cols=77  Identities=16%  Similarity=0.162  Sum_probs=55.0

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHhCCCCCC---ChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCC
Q 043490           12 FHACALHGNIKQAMQLHEHMINNFPNEPQ---DLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGN   88 (589)
Q Consensus        12 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~   88 (589)
                      ++++.+.+.+++|+.+-+....    ..+   -..++...|..|.-.|++++|-.+.-.|...+..-|-.-+.-++..++
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~----~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~  438 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIG----NEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQ  438 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccC----CccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccc
Confidence            4556667777777775554432    223   345677888888888999999888888888888888887777777776


Q ss_pred             hhHH
Q 043490           89 AEEC   92 (589)
Q Consensus        89 ~~~A   92 (589)
                      ....
T Consensus       439 l~~I  442 (846)
T KOG2066|consen  439 LTDI  442 (846)
T ss_pred             cchh
Confidence            6543

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.59  E-value=2.8  Score=40.11  Aligned_cols=150  Identities=15%  Similarity=0.097  Sum_probs=90.5

Q ss_pred             hcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHHHHHHH----HHHHhccCcHHHH
Q 043490          263 RCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM--NVQPDSATFVSL----LSACSHAGLVQEG  333 (589)
Q Consensus       263 ~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~t~~~l----l~a~~~~g~~~~a  333 (589)
                      -.|+..+|-..++++.   ..|..+|+-.=.+|..+|+...-...++++  ...||...|.-+    .-++...|-+++|
T Consensus       115 ~~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  115 GRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             ccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            4566666666666665   457778887778888888888888888887  445665433322    2233467788888


Q ss_pred             HHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCC-------HHHHHHHHHHHHHcCCHHHHHHHH
Q 043490          334 NKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREMPMEPD-------SVIWSVLLGSCRKHGETRLAELAA  405 (589)
Q Consensus       334 ~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~-------~~~~~~ll~~~~~~g~~~~a~~~~  405 (589)
                      ++.-++..   .+.| |.-.-.++...+--.|++.++.+++.+-.-.-+       -.-|... -.+...+.++.|+.+|
T Consensus       195 Ek~A~ral---qiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~A-l~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  195 EKQADRAL---QINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTA-LFHIEGAEYEKALEIY  270 (491)
T ss_pred             HHHHHhhc---cCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHH-HhhhcccchhHHHHHH
Confidence            77766543   3333 333445666667777888888888776521100       1112221 2234447788888887


Q ss_pred             HHH--hhcCCCCh
Q 043490          406 TKL--KQLEPGDS  416 (589)
Q Consensus       406 ~~~--~~~~p~~~  416 (589)
                      ++=  .+++.+|.
T Consensus       271 D~ei~k~l~k~Da  283 (491)
T KOG2610|consen  271 DREIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHHhhccch
Confidence            653  34555554

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=92.53  E-value=0.62  Score=44.02  Aligned_cols=63  Identities=16%  Similarity=0.204  Sum_probs=54.4

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          382 SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       382 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      ..++..++..+...|+.+.+...++++...+|-+...|..++.+|.+.|+...|+..++.+.+
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            345566777888888999999999999999999999999999999999999999999988765

>PRK11906 transcriptional regulator; Provisional

Probab=92.46  E-value=2.4  Score=42.82  Aligned_cols=128  Identities=9%  Similarity=0.067  Sum_probs=92.0

Q ss_pred             HHHHHHHhc-----cCcHHHHHHHHHHhHHhcCCccCc-chHHHHHHHHhh---------cCCHHHHHHHHHhC-CCCC-
Q 043490          318 VSLLSACSH-----AGLVQEGNKVFHSMLENHGVVPQL-DHYACMVDLLGR---------VGRILEAEKLIREM-PMEP-  380 (589)
Q Consensus       318 ~~ll~a~~~-----~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~---------~g~~~~A~~~~~~m-~~~p-  380 (589)
                      ..++.+..+     ....+.|..+|.+.+....+.|+- ..|..+...+..         .....+|.++.++. .+.| 
T Consensus       257 d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~~  336 (458)
T PRK11906        257 DEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITTV  336 (458)
T ss_pred             HHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCCC
Confidence            445555443     124667888898887555667753 344433332221         23455666766666 4444 


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          381 DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       381 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      |......+..+....++++.|...|+++..++|+.+.+|........-+|+.++|.+.+++..+.
T Consensus       337 Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL  401 (458)
T PRK11906        337 DGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQL  401 (458)
T ss_pred             CHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Confidence            57777777777788888999999999999999999999999999999999999999999985543

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=92.42  E-value=7.3  Score=39.68  Aligned_cols=97  Identities=16%  Similarity=0.268  Sum_probs=69.0

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCC-C-CCC--HHHHHHHHHHHH
Q 043490          318 VSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMP-M-EPD--SVIWSVLLGSCR  393 (589)
Q Consensus       318 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~-~p~--~~~~~~ll~~~~  393 (589)
                      ..+..++-+.|+.++|.+.+.+|.+.+.......+...|+..|...+.+.++..++.+-. + -|.  ...|+..+-..+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaR  342 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKAR  342 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHH
Confidence            346666678999999999999998765433345577889999999999999999998873 2 243  456666554444


Q ss_pred             HcCCH---------------HHHHHHHHHHhhcCCC
Q 043490          394 KHGET---------------RLAELAATKLKQLEPG  414 (589)
Q Consensus       394 ~~g~~---------------~~a~~~~~~~~~~~p~  414 (589)
                      ..++-               ..|.++..++.+.+|.
T Consensus       343 av~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPH  378 (539)
T PF04184_consen  343 AVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPH  378 (539)
T ss_pred             hhccccCchhhhhcCCChhHHHHHHHHHHHHHhCCC
Confidence            44431               2355777888777764

The molecular function of this protein is uncertain.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=92.33  E-value=0.51  Score=30.54  Aligned_cols=41  Identities=20%  Similarity=0.120  Sum_probs=30.7

Q ss_pred             hHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHH
Q 043490            6 QIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLI   49 (589)
Q Consensus         6 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li   49 (589)
                      .++..+...+.+.|++++|.++++.+++..|   .|+..+..|.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P---~~~~a~~~La   42 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDP---DDPEAWRALA   42 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc---CCHHHHHHhh
Confidence            4566778888888888888888888888766   6666665543

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=92.29  E-value=9.5  Score=35.40  Aligned_cols=58  Identities=16%  Similarity=0.138  Sum_probs=45.9

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhcCCCChh---HHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          388 LLGSCRKHGETRLAELAATKLKQLEPGDSL---GFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       388 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      +..-|.+.|.+..|..-++.+++.-|..+.   .+..|.++|.+.|..++|.+.-+-+...
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            456688999999999999999987664433   4567788999999999999987766543

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=92.28  E-value=19  Score=39.11  Aligned_cols=83  Identities=17%  Similarity=0.062  Sum_probs=36.3

Q ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHHHh---cCC
Q 043490          191 FAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYG-FEDDTVIANALIHAYAR---CGS  266 (589)
Q Consensus       191 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g-~~~~~~~~~~li~~~~~---~g~  266 (589)
                      +.-.|+++.|++.+.+  ..+...|.+.+...+.-+.-..-.+...   ..+.... -.|...-+..||..|.+   ..+
T Consensus       268 LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F~~td  342 (613)
T PF04097_consen  268 LLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSFEITD  342 (613)
T ss_dssp             HHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTTTTT-
T ss_pred             HHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHHhccC
Confidence            3566777777777665  2334566777777666654332222211   1111111 01111345667777765   356


Q ss_pred             HHHHHHHHhhcC
Q 043490          267 ISLSKQVFDKMT  278 (589)
Q Consensus       267 ~~~A~~~~~~~~  278 (589)
                      ..+|.++|--+.
T Consensus       343 ~~~Al~Y~~li~  354 (613)
T PF04097_consen  343 PREALQYLYLIC  354 (613)
T ss_dssp             HHHHHHHHHGGG
T ss_pred             HHHHHHHHHHHH
Confidence            677777776655

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.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=92.04  E-value=17  Score=37.87  Aligned_cols=177  Identities=11%  Similarity=0.112  Sum_probs=121.0

Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCC---hhHHHHHHHHHHHcCCHHHHHHHHHhC-----CCCCCHHHHHHH
Q 043490          249 DDTVIANALIHAYARCGSISLSKQVFDKMTYHD---LVSWNSILKAYALHGQAKEALQLFSNM-----NVQPDSATFVSL  320 (589)
Q Consensus       249 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m-----~~~p~~~t~~~l  320 (589)
                      ++..+|..-++--.+.|+.+.+.-.|++...|-   ...|--.+.-....|+.+-|..++...     .-.|....+.+.
T Consensus       295 aql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~  374 (577)
T KOG1258|consen  295 AQLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEAR  374 (577)
T ss_pred             HHHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHH
Confidence            456778888888889999999999999887442   245655555555568888888877776     233333333333


Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhcCCccCc-chHHHHHHHHhhcCCHHHHH---HHHHhC-CCCCCHHHHHHHHHH----
Q 043490          321 LSACSHAGLVQEGNKVFHSMLENHGVVPQL-DHYACMVDLLGRVGRILEAE---KLIREM-PMEPDSVIWSVLLGS----  391 (589)
Q Consensus       321 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~---~~~~~m-~~~p~~~~~~~ll~~----  391 (589)
                      +  +-..|+.+.|..+++.+....   |+. ..-..-+....+.|..+.+.   +++... +.+-+..+...+.--    
T Consensus       375 f--~e~~~n~~~A~~~lq~i~~e~---pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~  449 (577)
T KOG1258|consen  375 F--EESNGNFDDAKVILQRIESEY---PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARL  449 (577)
T ss_pred             H--HHhhccHHHHHHHHHHHHhhC---CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHH
Confidence            3  345689999999999987643   543 23333456677888888888   555544 222233333333322    


Q ss_pred             -HHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcC
Q 043490          392 -CRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSG  430 (589)
Q Consensus       392 -~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  430 (589)
                       +...++.+.|..++.++.+..|++...|..+++.....+
T Consensus       450 ~~~i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  450 RYKIREDADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHHHhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence             344578999999999999999999999999998877665

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=91.85  E-value=7  Score=40.73  Aligned_cols=115  Identities=11%  Similarity=0.032  Sum_probs=75.1

Q ss_pred             cCcHHHHHHHHHHhHHhcCCccCcchHHHH-HHHHhhcCCHHHHHHHHHhCC-CC-----CCHHHHHHHHHHHHHcCCHH
Q 043490          327 AGLVQEGNKVFHSMLENHGVVPQLDHYACM-VDLLGRVGRILEAEKLIREMP-ME-----PDSVIWSVLLGSCRKHGETR  399 (589)
Q Consensus       327 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l-i~~~~~~g~~~~A~~~~~~m~-~~-----p~~~~~~~ll~~~~~~g~~~  399 (589)
                      ....+.+.+++..+.++   -|+...|... ...+...|++++|.+.|++.- .+     .....+--+.-.+....+++
T Consensus       246 ~~~~~~a~~lL~~~~~~---yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~  322 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKR---YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWE  322 (468)
T ss_pred             CCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHH
Confidence            45667778888777655   3665554433 244556788888888888651 11     12233334556677788999


Q ss_pred             HHHHHHHHHhhcCCCChhHHH-HHHHHhhhcCCh-------HHHHHHHHHHhc
Q 043490          400 LAELAATKLKQLEPGDSLGFV-QMSNIYCLSGSF-------NKARLIRKEMKG  444 (589)
Q Consensus       400 ~a~~~~~~~~~~~p~~~~~~~-~l~~~~~~~g~~-------~~a~~~~~~m~~  444 (589)
                      +|...|.++.+...-+...|. ..+-+|...|+.       ++|.+++.+...
T Consensus       323 ~A~~~f~~L~~~s~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  323 EAAEYFLRLLKESKWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            999999999887665555555 444456677888       888888877654

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.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=91.80  E-value=16  Score=36.86  Aligned_cols=45  Identities=9%  Similarity=0.101  Sum_probs=26.6

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHh-CC-CCCCChhHHHHHHHHHHhc
Q 043490           11 LFHACALHGNIKQAMQLHEHMINN-FP-NEPQDLFVTNHLINMYAKF   55 (589)
Q Consensus        11 ll~~~~~~g~~~~a~~~~~~~~~~-~~-~~~~~~~~~~~li~~~~~~   55 (589)
                      .++.+...|++.+|+.+++++... ++ ....++.+||.++-++++.
T Consensus       134 ~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrS  180 (549)
T PF07079_consen  134 EAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRS  180 (549)
T ss_pred             HHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHH
Confidence            345555667777777777666665 22 2224666666666666554

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK15331 chaperone protein SicA; Provisional

Probab=91.27  E-value=1.7  Score=37.30  Aligned_cols=85  Identities=12%  Similarity=-0.050  Sum_probs=45.5

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSK  271 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~  271 (589)
                      -+.|++++|..+|+-+...+. -+..-+..|..++-..+.++.|...|......+ ..|....--....|...|+.+.|+
T Consensus        48 y~~Gk~~eA~~~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~~~~A~  125 (165)
T PRK15331         48 YNQGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKAAKAR  125 (165)
T ss_pred             HHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCHHHHH
Confidence            466777777777776655321 122223333333445566677776666655444 223333333455566666666666


Q ss_pred             HHHhhcC
Q 043490          272 QVFDKMT  278 (589)
Q Consensus       272 ~~~~~~~  278 (589)
                      ..|....
T Consensus       126 ~~f~~a~  132 (165)
T PRK15331        126 QCFELVN  132 (165)
T ss_pred             HHHHHHH
Confidence            6665554

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=91.04  E-value=28  Score=38.28  Aligned_cols=191  Identities=16%  Similarity=0.166  Sum_probs=105.1

Q ss_pred             HhcCCHHHHHHHHhhcC----CCCh-------hHHHHHHHHH-HHcCCHHHHHHHHHhC--CC-----CCCHHHHHHHHH
Q 043490          262 ARCGSISLSKQVFDKMT----YHDL-------VSWNSILKAY-ALHGQAKEALQLFSNM--NV-----QPDSATFVSLLS  322 (589)
Q Consensus       262 ~~~g~~~~A~~~~~~~~----~~~~-------~~~~~li~~~-~~~g~~~~A~~~~~~m--~~-----~p~~~t~~~ll~  322 (589)
                      ....++++|..++.+..    .++.       ..|+++-... ...|++++|+++-+..  .+     .+..+.+..+..
T Consensus       426 ~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~  505 (894)
T COG2909         426 ASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGE  505 (894)
T ss_pred             HHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhH
Confidence            34577778877776654    2222       2566554333 3568888888888777  22     234456666677


Q ss_pred             HHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHH-----HHHhhcCCH--HHHHHHHHhC-----CCCC----CHHHHH
Q 043490          323 ACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMV-----DLLGRVGRI--LEAEKLIREM-----PMEP----DSVIWS  386 (589)
Q Consensus       323 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li-----~~~~~~g~~--~~A~~~~~~m-----~~~p----~~~~~~  386 (589)
                      +..-.|++++|..+.+...+. .-.-+..++....     ..+-..|+.  ++.+..|...     +-+|    -..+..
T Consensus       506 a~~~~G~~~~Al~~~~~a~~~-a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~  584 (894)
T COG2909         506 AAHIRGELTQALALMQQAEQM-ARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRA  584 (894)
T ss_pred             HHHHhchHHHHHHHHHHHHHH-HHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHH
Confidence            777789999998877655322 1122333333222     224455632  2223333322     1122    233444


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHhhcC----CCChh---HHHHHHHHhhhcCChHHHHHHHHHHhcCCCccCCceeeE
Q 043490          387 VLLGSCRKHGETRLAELAATKLKQLE----PGDSL---GFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWI  456 (589)
Q Consensus       387 ~ll~~~~~~g~~~~a~~~~~~~~~~~----p~~~~---~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~  456 (589)
                      .++.++.+   .+.+..-.....+..    |....   .+..|+..+...|+.++|...++++........+.+.|.
T Consensus       585 ~ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~  658 (894)
T COG2909         585 QLLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYL  658 (894)
T ss_pred             HHHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHH
Confidence            55555554   455554444443322    32211   233788889999999999999998876544433444443

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=90.75  E-value=1.5  Score=41.51  Aligned_cols=73  Identities=14%  Similarity=0.290  Sum_probs=59.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCCHHHHHHHHHhC--------CCCCCHHHHHH
Q 043490          251 TVIANALIHAYARCGSISLSKQVFDKMTY---HDLVSWNSILKAYALHGQAKEALQLFSNM--------NVQPDSATFVS  319 (589)
Q Consensus       251 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m--------~~~p~~~t~~~  319 (589)
                      ..++..++..+..+|+.+.+...+++...   -|...|..++.+|.+.|+...|+..|+++        |+.|...+...
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            45677888999999999999988888773   46678999999999999999999998887        78887766665


Q ss_pred             HHHH
Q 043490          320 LLSA  323 (589)
Q Consensus       320 ll~a  323 (589)
                      ...+
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            5554

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.74  E-value=2.9  Score=40.01  Aligned_cols=157  Identities=14%  Similarity=0.052  Sum_probs=115.3

Q ss_pred             HcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHH----HhhcCCHH
Q 043490          294 LHGQAKEALQLFSNM--NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDL----LGRVGRIL  367 (589)
Q Consensus       294 ~~g~~~~A~~~~~~m--~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~----~~~~g~~~  367 (589)
                      -+|+..+|-..++++  ..+.|..++...=.+|...|+.+.-...++++..  ...||...|..+=.+    +..+|-++
T Consensus       115 ~~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip--~wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIP--KWNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             ccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhcc--ccCCCCcHHHHHHHHHHhhHHHhccch
Confidence            478888888888888  5555777888888999999999999999988764  346676655555444    45789999


Q ss_pred             HHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC----ChhHHHHHHHHhhhcCChHHHHHHHHH
Q 043490          368 EAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPG----DSLGFVQMSNIYCLSGSFNKARLIRKE  441 (589)
Q Consensus       368 ~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~a~~~~~~  441 (589)
                      +|++.-++. .+.| |.-.-.++....--+|+.+++.++..+-...-..    -.-.|...+-.|...+.++.|..+|+.
T Consensus       193 dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  193 DAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             hHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            999999888 5555 4556667777778889999999887765442221    123466777778888999999999987


Q ss_pred             HhcCCCccCCc
Q 043490          442 MKGSRVRKYPG  452 (589)
Q Consensus       442 m~~~~~~~~~~  452 (589)
                      =.-+.+.++.+
T Consensus       273 ei~k~l~k~Da  283 (491)
T KOG2610|consen  273 EIWKRLEKDDA  283 (491)
T ss_pred             HHHHHhhccch
Confidence            55444544443

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=90.67  E-value=18  Score=36.02  Aligned_cols=66  Identities=23%  Similarity=0.225  Sum_probs=55.4

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCC----CChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          380 PDSVIWSVLLGSCRKHGETRLAELAATKLKQLEP----GDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       380 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p----~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      ....+|..+...++++|+++.|...+.++.+.++    ..+.....-+......|+..+|...++...+.
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~  213 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC  213 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3477899999999999999999999999988652    24566777788999999999999999888763

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.58  E-value=29  Score=37.78  Aligned_cols=75  Identities=11%  Similarity=0.126  Sum_probs=37.8

Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhh-cCCCChhHHHHHHHHhhhcCC
Q 043490          356 MVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQ-LEPGDSLGFVQMSNIYCLSGS  431 (589)
Q Consensus       356 li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-~~p~~~~~~~~l~~~~~~~g~  431 (589)
                      ++..+.+..+.+.+..+.+..+ +-++..|..++..+.+.+..+.-.+...++++ ....+...-..+++++++.+.
T Consensus       711 l~~~~~q~~d~E~~it~~~~~g-~~~p~l~~~~L~yF~~~~~i~~~~~~v~~vl~~I~~~~~ippl~VL~~Lakn~~  786 (933)
T KOG2114|consen  711 LMLYFQQISDPETVITLCERLG-KEDPSLWLHALKYFVSEESIEDCYEIVYKVLEAIEMQERIPPLHVLQILAKNGT  786 (933)
T ss_pred             HHHHHHHhhChHHHHHHHHHhC-ccChHHHHHHHHHHhhhcchhhHHHHHHHHHHHHHhcccCCHHHHHHHHhcCCc
Confidence            3444555556666666666654 22566677777777766655544444444332 111122222345555555544

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=90.47  E-value=9.4  Score=37.13  Aligned_cols=218  Identities=12%  Similarity=0.011  Sum_probs=120.8

Q ss_pred             HcCCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh--CCCCc---HHHHHHHHHHHHhcC
Q 043490          193 KMKNEEEALFLFRQLQREG--MAPDWCTFSIVLKACAGLVTERHASAVHSLIAKY--GFEDD---TVIANALIHAYARCG  265 (589)
Q Consensus       193 ~~g~~~~A~~~~~~m~~~g--~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~--g~~~~---~~~~~~li~~~~~~g  265 (589)
                      +..+.++|+..+.+-...-  ..--..+|..+..+.++.|..+++...--.-+..  .....   -..|..|..++-+.-
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            3445666666665544320  1112245666666777777766654432211111  01111   123334444444444


Q ss_pred             CHHHHHHHHhhcC------C-C-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CC-----CC--CHHHHHHHHHHHhccCc
Q 043490          266 SISLSKQVFDKMT------Y-H-DLVSWNSILKAYALHGQAKEALQLFSNM-NV-----QP--DSATFVSLLSACSHAGL  329 (589)
Q Consensus       266 ~~~~A~~~~~~~~------~-~-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-----~p--~~~t~~~ll~a~~~~g~  329 (589)
                      ++.+++.+=..-.      . . .-...-+|..++.-.+.++++++.|+.. .+     .|  .-..+..|-+.+.+..+
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            4444444432211      1 1 1123344667777788899999999987 21     12  23578888888999999


Q ss_pred             HHHHHHHHHHh---HHhcCCccCcchHHHHH-----HHHhhcCCHHHHHHHHHhC-------CCCCC-HHHHHHHHHHHH
Q 043490          330 VQEGNKVFHSM---LENHGVVPQLDHYACMV-----DLLGRVGRILEAEKLIREM-------PMEPD-SVIWSVLLGSCR  393 (589)
Q Consensus       330 ~~~a~~~~~~~---~~~~~~~p~~~~~~~li-----~~~~~~g~~~~A~~~~~~m-------~~~p~-~~~~~~ll~~~~  393 (589)
                      +++|.-+....   +..+++..-..-|.+++     -+|-..|++-+|.+.-++.       |-+|- ......+...|+
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            99887655432   23444433223344332     3455566665555555443       53443 556677888999


Q ss_pred             HcCCHHHHHHHHHHHhh
Q 043490          394 KHGETRLAELAATKLKQ  410 (589)
Q Consensus       394 ~~g~~~~a~~~~~~~~~  410 (589)
                      ..|+.|.|..-++.+..
T Consensus       258 ~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  258 SRGDLERAFRRYEQAMG  274 (518)
T ss_pred             hcccHhHHHHHHHHHHH
Confidence            99999999888777643

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=90.29  E-value=9.9  Score=32.93  Aligned_cols=18  Identities=17%  Similarity=0.272  Sum_probs=9.2

Q ss_pred             HHcCCHHHHHHHHHHHHH
Q 043490          192 AKMKNEEEALFLFRQLQR  209 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~  209 (589)
                      .+.|+...|...|.+.-.
T Consensus       105 a~kgdta~AV~aFdeia~  122 (221)
T COG4649         105 AQKGDTAAAVAAFDEIAA  122 (221)
T ss_pred             hhcccHHHHHHHHHHHhc
Confidence            444555555555555443

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=90.25  E-value=0.37  Score=29.17  Aligned_cols=32  Identities=25%  Similarity=0.315  Sum_probs=24.2

Q ss_pred             HHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHH
Q 043490           28 HEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDAR   62 (589)
Q Consensus        28 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~   62 (589)
                      |.+.++..|   .++.+|+.|...|...|++++|+
T Consensus         2 y~kAie~~P---~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELNP---NNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHCC---CCHHHHHHHHHHHHHCcCHHhhc
Confidence            445555556   78888888888888888888876

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=90.04  E-value=11  Score=32.23  Aligned_cols=91  Identities=16%  Similarity=0.073  Sum_probs=56.7

Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhcCCccCcc-hHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHcCC
Q 043490          320 LLSACSHAGLVQEGNKVFHSMLENHGVVPQLD-HYACMVDLLGRVGRILEAEKLIREM-PMEPDSVIWSVLLGSCRKHGE  397 (589)
Q Consensus       320 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~~~~~~g~  397 (589)
                      +++.-...++.+++..++..+.   -+.|... .-..-.-.+.+.|++.+|..+|+++ .-.|....-.+|+..|....+
T Consensus        16 ~~~~al~~~~~~D~e~lL~ALr---vLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~   92 (160)
T PF09613_consen   16 VLSVALRLGDPDDAEALLDALR---VLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALG   92 (160)
T ss_pred             HHHHHHccCChHHHHHHHHHHH---HhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcC
Confidence            3344456778888888888774   4456433 2223344567888899999998888 333455555667777766655


Q ss_pred             HHHHHHHHHHHhhcCC
Q 043490          398 TRLAELAATKLKQLEP  413 (589)
Q Consensus       398 ~~~a~~~~~~~~~~~p  413 (589)
                      -..=....+++.+.++
T Consensus        93 D~~Wr~~A~evle~~~  108 (160)
T PF09613_consen   93 DPSWRRYADEVLESGA  108 (160)
T ss_pred             ChHHHHHHHHHHhcCC
Confidence            4445555566666655

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=90.02  E-value=0.075  Score=45.30  Aligned_cols=71  Identities=15%  Similarity=0.263  Sum_probs=54.4

Q ss_pred             cCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHH
Q 043490          133 SLDAHVYVANALINMYSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQ  206 (589)
Q Consensus       133 g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~  206 (589)
                      +...+....+.++..|++ ++.+...+.++....   .-...++..+-+.|.+++|.-+|.+.|++++|+++...
T Consensus        37 ~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~a~~Ly~~~~~~~~al~i~~~  108 (143)
T PF00637_consen   37 NKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEEAVYLYSKLGNHDEALEILHK  108 (143)
T ss_dssp             STC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHHHHHHHHCCTTHTTCSSTSSS
T ss_pred             ccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHHHHHHHHHcccHHHHHHHHHH
Confidence            335667888999999999 887888888874433   44456778888888999999999999999988875433

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.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=89.66  E-value=0.55  Score=28.81  Aligned_cols=26  Identities=19%  Similarity=0.307  Sum_probs=21.7

Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          418 GFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       418 ~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      +|..|.++|.+.|+|++|++++++..
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            46789999999999999999998844

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=89.61  E-value=17  Score=33.72  Aligned_cols=53  Identities=25%  Similarity=0.347  Sum_probs=32.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHhccCcHHHHHHHHHHh
Q 043490          288 ILKAYALHGQAKEALQLFSNM-NVQPD----SATFVSLLSACSHAGLVQEGNKVFHSM  340 (589)
Q Consensus       288 li~~~~~~g~~~~A~~~~~~m-~~~p~----~~t~~~ll~a~~~~g~~~~a~~~~~~~  340 (589)
                      +..-|.+.|.+..|..-+++| .--|+    ...+-.+..+|...|..++|.+.-.-+
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl  230 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVL  230 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHH
Confidence            344567777777777777777 22222    234555666777777777776665544

>PRK09687 putative lyase; Provisional

Probab=89.43  E-value=21  Score=34.32  Aligned_cols=60  Identities=17%  Similarity=0.131  Sum_probs=34.1

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCCh----hHHHHHHHHH
Q 043490           40 QDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNA----EECFRLFCSL   99 (589)
Q Consensus        40 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~----~~A~~~~~~m   99 (589)
                      +|..+....+..+...|..+-...+..-+..+|...-...+.++.+.|+.    .+++.++..+
T Consensus        35 ~d~~vR~~A~~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l   98 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNL   98 (280)
T ss_pred             CCHHHHHHHHHHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHH
Confidence            56666666666666666544433333333445666666666666666653    3455555555

>PRK12798 chemotaxis protein; Reviewed

Probab=89.33  E-value=25  Score=35.19  Aligned_cols=180  Identities=16%  Similarity=0.183  Sum_probs=117.4

Q ss_pred             cCCHHHHHHHHhhcCC----CChhHHHHHHHHHH-HcCCHHHHHHHHHhC-CCCC----CHHHHHHHHHHHhccCcHHHH
Q 043490          264 CGSISLSKQVFDKMTY----HDLVSWNSILKAYA-LHGQAKEALQLFSNM-NVQP----DSATFVSLLSACSHAGLVQEG  333 (589)
Q Consensus       264 ~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~-~~g~~~~A~~~~~~m-~~~p----~~~t~~~ll~a~~~~g~~~~a  333 (589)
                      .|+.++|.+.+..+..    +....+-.|+.+-. ...+..+|+++|+.. =.-|    .......-+-...+.|+.+++
T Consensus       125 ~Gr~~~a~~~La~i~~~~l~~~lg~~laLv~a~l~~~~dP~~Al~~lD~aRLlaPGTLvEEAALRRsi~la~~~g~~~rf  204 (421)
T PRK12798        125 SGRGREARKLLAGVAPEYLPAELGAYLALVQGNLMVATDPATALKLLDQARLLAPGTLVEEAALRRSLFIAAQLGDADKF  204 (421)
T ss_pred             cCCHHHHHHHhhcCChhhcCchhhhHHHHHHHHHhcccCHHHHHHHHHHHHHhCCchHHHHHHHHHhhHHHHhcCcHHHH
Confidence            5888888888888862    34456666666544 456789999999988 3334    344555556667788999998


Q ss_pred             HHHHHHhHHhcCCccCcchHHH-HHHHHhhc---CCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Q 043490          334 NKVFHSMLENHGVVPQLDHYAC-MVDLLGRV---GRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLK  409 (589)
Q Consensus       334 ~~~~~~~~~~~~~~p~~~~~~~-li~~~~~~---g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  409 (589)
                      ..+-.....++.-.|-...|.. ++..+.+.   ...+.-..++..|.-.--...|..+...-...|+.+.|....++..
T Consensus       205 ~~la~~Y~rRF~~S~YA~~F~~~F~~~~~~~~d~~~~~~l~~~ls~~d~~~q~~lYL~iAR~Ali~Gk~~lA~~As~~A~  284 (421)
T PRK12798        205 EALARNYLRRFRHSPYASQFAQRFVDLVVRLDDEIRDARLVEILSFMDPERQRELYLRIARAALIDGKTELARFASERAL  284 (421)
T ss_pred             HHHHHHHHHHhccCchHHHHHHHHHHHHHhccccccHHHHHHHHHhcCchhHHHHHHHHHHHHHHcCcHHHHHHHHHHHH
Confidence            8887777777766665443332 33333333   3455566666666312226788899999999999999999999998


Q ss_pred             hcCCCChhHHHHHHHHhh-----hcCChHHHHHHHHHHhc
Q 043490          410 QLEPGDSLGFVQMSNIYC-----LSGSFNKARLIRKEMKG  444 (589)
Q Consensus       410 ~~~p~~~~~~~~l~~~~~-----~~g~~~~a~~~~~~m~~  444 (589)
                      .+... ...-...+..|.     -..+.+++.+.+..+..
T Consensus       285 ~L~~~-~~~~~~ra~LY~aaa~v~s~~~~~al~~L~~I~~  323 (421)
T PRK12798        285 KLADP-DSADAARARLYRGAALVASDDAESALEELSQIDR  323 (421)
T ss_pred             HhccC-CCcchHHHHHHHHHHccCcccHHHHHHHHhcCCh
Confidence            87632 222333344443     23446666666655443

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=89.10  E-value=2.5  Score=37.35  Aligned_cols=89  Identities=19%  Similarity=0.100  Sum_probs=69.7

Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCCC------HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCC
Q 043490          359 LLGRVGRILEAEKLIREM-PMEPD------SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGS  431 (589)
Q Consensus       359 ~~~~~g~~~~A~~~~~~m-~~~p~------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  431 (589)
                      -+.+.|++++|..-|... ..-|.      .+.|..-..+..+.+..+.|+.-..+.++++|....+...-+.+|.+..+
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~ek  183 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKMEK  183 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhh
Confidence            456678888888877766 11221      34455556777888999999999999999999888888888899999999


Q ss_pred             hHHHHHHHHHHhcCCC
Q 043490          432 FNKARLIRKEMKGSRV  447 (589)
Q Consensus       432 ~~~a~~~~~~m~~~~~  447 (589)
                      +++|+.=++++.+...
T Consensus       184 ~eealeDyKki~E~dP  199 (271)
T KOG4234|consen  184 YEEALEDYKKILESDP  199 (271)
T ss_pred             HHHHHHHHHHHHHhCc
Confidence            9999999999887654

>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=88.30  E-value=13  Score=30.62  Aligned_cols=56  Identities=16%  Similarity=0.297  Sum_probs=30.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 043490          287 SILKAYALHGQAKEALQLFSNM--NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLE  342 (589)
Q Consensus       287 ~li~~~~~~g~~~~A~~~~~~m--~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  342 (589)
                      .-+..+...|+-++-.+++.++  .-+|++.....+..||.+.|+..++.+++.+.-+
T Consensus        91 ~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACe  148 (161)
T PF09205_consen   91 LALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACE  148 (161)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence            3445555666666666666665  3455666666666666666666666666665544

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>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=87.82  E-value=1.1  Score=26.76  Aligned_cols=30  Identities=20%  Similarity=0.077  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCC
Q 043490          384 IWSVLLGSCRKHGETRLAELAATKLKQLEP  413 (589)
Q Consensus       384 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  413 (589)
                      +|..+...+...|++++|...+++..+++|
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            456666677777777777777777777666

...

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.80  E-value=19  Score=32.96  Aligned_cols=23  Identities=4%  Similarity=-0.130  Sum_probs=16.3

Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCC
Q 043490          393 RKHGETRLAELAATKLKQLEPGD  415 (589)
Q Consensus       393 ~~~g~~~~a~~~~~~~~~~~p~~  415 (589)
                      ...+++.+|+.+|+++....-++
T Consensus       165 a~leqY~~Ai~iyeqva~~s~~n  187 (288)
T KOG1586|consen  165 AQLEQYSKAIDIYEQVARSSLDN  187 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccc
Confidence            45577888888888887654433

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.75  E-value=2.9  Score=39.65  Aligned_cols=98  Identities=14%  Similarity=0.267  Sum_probs=72.7

Q ss_pred             hcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCC-C--------ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHH
Q 043490          132 FSLDAHVYVANALINMYSK-SCADEAWKVFENMEF-R--------NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEAL  201 (589)
Q Consensus       132 ~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~-~--------~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~  201 (589)
                      .|......+...++..-.. .+++++...+-++.. |        ..++|--++..|                 ++++++
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlllky-----------------~pq~~i  120 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLLKY-----------------DPQKAI  120 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHHcc-----------------ChHHHH
Confidence            3555556666677777776 888888887776653 2        234444444444                 677888


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhC
Q 043490          202 FLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYG  246 (589)
Q Consensus       202 ~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g  246 (589)
                      .++..=++-|+-||.+|++.+|+.+.+.++...|.++...|....
T Consensus       121 ~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  121 YTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             HHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            888888888999999999999999999999999888888777665

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=87.41  E-value=4.2  Score=34.83  Aligned_cols=53  Identities=17%  Similarity=0.139  Sum_probs=29.9

Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          393 RKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       393 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      ...++.++++.++..+.-+.|..+..-..-...+...|+|.+|.++++.+.+.
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            34455555555555555555555555555555555666666666666555443

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=87.29  E-value=1.1  Score=27.43  Aligned_cols=27  Identities=15%  Similarity=-0.034  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 043490          384 IWSVLLGSCRKHGETRLAELAATKLKQ  410 (589)
Q Consensus       384 ~~~~ll~~~~~~g~~~~a~~~~~~~~~  410 (589)
                      +|..|...|.+.|++++|+.++++.+.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            467778888888888888888888554

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=86.99  E-value=31  Score=33.43  Aligned_cols=126  Identities=11%  Similarity=0.067  Sum_probs=73.7

Q ss_pred             HHHHHHHhcCCCchhHHHHHHHHHhc---C----CHHHHHHHHhhCCC-------CChhHHHHHHHHHHcCCcHHHHHHH
Q 043490          125 VHALALKFSLDAHVYVANALINMYSK---S----CADEAWKVFENMEF-------RNVISWNSMIAAFRACKLEAQAIEL  190 (589)
Q Consensus       125 ~~~~~~~~g~~~~~~~~~~li~~y~~---g----~~~~A~~lf~~m~~-------~~~~~~~~li~~~~~~g~~~~a~~~  190 (589)
                      ++..+.+.|+..+.+++-+..-+...   .    ....|..+|+.|.+       ++-.++.+|+..-  ..+.+     
T Consensus        84 ~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~~--~~~~e-----  156 (297)
T PF13170_consen   84 IYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAMT--SEDVE-----  156 (297)
T ss_pred             HHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhcc--cccHH-----
Confidence            34445555666665555442222222   2    24678899999974       3556666666531  11111     


Q ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhCcCc--HHHHHHHHHHHHHhCCCCcHHHHHHHHHHH
Q 043490          191 FAKMKNEEEALFLFRQLQREGMAPDW--CTFSIVLKACAGLVT--ERHASAVHSLIAKYGFEDDTVIANALIHAY  261 (589)
Q Consensus       191 ~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~~~--~~~a~~i~~~~~~~g~~~~~~~~~~li~~~  261 (589)
                          .-.+++..+|+.+...|+..+.  ...+.+|..+.....  ...+.++++.+.+.|+++....|..+.-.-
T Consensus       157 ----~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLa  227 (297)
T PF13170_consen  157 ----ELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLA  227 (297)
T ss_pred             ----HHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHH
Confidence                1135677788888888876543  344444444433322  447788889999999888877777665433

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=86.31  E-value=4.5  Score=34.04  Aligned_cols=53  Identities=17%  Similarity=0.141  Sum_probs=37.8

Q ss_pred             HcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          394 KHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       394 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      ..++.++++.++..+.-+.|..+..-..-...+...|+|++|.++++.+.+.+
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            36677777777777777777766666666667777777777777777776554

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.03  E-value=28  Score=32.09  Aligned_cols=52  Identities=21%  Similarity=0.262  Sum_probs=29.6

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC---C--CCC-CHHHHHHHHHHHHHcCCHHHHHHHH
Q 043490          353 YACMVDLLGRVGRILEAEKLIREM---P--MEP-DSVIWSVLLGSCRKHGETRLAELAA  405 (589)
Q Consensus       353 ~~~li~~~~~~g~~~~A~~~~~~m---~--~~p-~~~~~~~ll~~~~~~g~~~~a~~~~  405 (589)
                      |-..|-.|.-..++..|...++.-   |  ..| +..+...|+.+|- .|+.++...++
T Consensus       193 ~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd-~gD~E~~~kvl  250 (308)
T KOG1585|consen  193 YVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYD-EGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhc-cCCHHHHHHHH
Confidence            445555556666777777777663   1  112 3566666776664 45666555544

>PF04190 DUF410: Protein of unknown function (DUF410) ; InterPro: IPR007317 This is a family of conserved eukaryotic proteins with undetermined function

Probab=85.19  E-value=35  Score=32.37  Aligned_cols=151  Identities=17%  Similarity=0.148  Sum_probs=77.1

Q ss_pred             cCCcHHHHHHH-------HHHcCCHHHHHHHHHHH----HHcCCCCCHHHHHHHHHHHhCcC-----cHHHHHHHHHHHH
Q 043490          180 ACKLEAQAIEL-------FAKMKNEEEALFLFRQL----QREGMAPDWCTFSIVLKACAGLV-----TERHASAVHSLIA  243 (589)
Q Consensus       180 ~~g~~~~a~~~-------~~~~g~~~~A~~~~~~m----~~~g~~p~~~t~~~ll~a~~~~~-----~~~~a~~i~~~~~  243 (589)
                      +++++++|+++       +.+.|+...|-++-.-|    .+.+.++|.....-++..+....     ..+-..+....- 
T Consensus         2 ~~kky~eAidLL~~Ga~~ll~~~Q~~sg~DL~~lliev~~~~~~~~~~~~~~rl~~l~~~~~~~~p~r~~fi~~ai~WS-   80 (260)
T PF04190_consen    2 KQKKYDEAIDLLYSGALILLKHGQYGSGADLALLLIEVYEKSEDPVDEESIARLIELISLFPPEEPERKKFIKAAIKWS-   80 (260)
T ss_dssp             HTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT---SHHHHHHHHHHHHHS-TT-TTHHHHHHHHHHHH-
T ss_pred             ccccHHHHHHHHHHHHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHH-
Confidence            45666666666       36677776665544333    44567777766555555443322     222222333333 


Q ss_pred             HhC--CCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHH
Q 043490          244 KYG--FEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLL  321 (589)
Q Consensus       244 ~~g--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll  321 (589)
                      +.|  -.-|+.....+...|.+.|++.+|+..|-.-..++...+..++.-....|...++           |...-.+++
T Consensus        81 ~~~~~~~Gdp~LH~~~a~~~~~e~~~~~A~~Hfl~~~~~~~~~~~~ll~~~~~~~~~~e~-----------dlfi~RaVL  149 (260)
T PF04190_consen   81 KFGSYKFGDPELHHLLAEKLWKEGNYYEAERHFLLGTDPSAFAYVMLLEEWSTKGYPSEA-----------DLFIARAVL  149 (260)
T ss_dssp             HTSS-TT--HHHHHHHHHHHHHTT-HHHHHHHHHTS-HHHHHHHHHHHHHHHHHTSS--H-----------HHHHHHHHH
T ss_pred             ccCCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHhcCChhHHHHHHHHHHHHHhcCCcch-----------hHHHHHHHH
Confidence            222  1246778888889999999999998888766555544443344333333333222           222333344


Q ss_pred             HHHhccCcHHHHHHHHHHhHHh
Q 043490          322 SACSHAGLVQEGNKVFHSMLEN  343 (589)
Q Consensus       322 ~a~~~~g~~~~a~~~~~~~~~~  343 (589)
                      . |...++...|...+....+.
T Consensus       150 ~-yL~l~n~~~A~~~~~~f~~~  170 (260)
T PF04190_consen  150 Q-YLCLGNLRDANELFDTFTSK  170 (260)
T ss_dssp             H-HHHTTBHHHHHHHHHHHHHH
T ss_pred             H-HHHhcCHHHHHHHHHHHHHH
Confidence            3 33457788888777666543

; PDB: 3LKU_E 2WPV_G.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.94  E-value=65  Score=35.31  Aligned_cols=193  Identities=15%  Similarity=0.098  Sum_probs=104.7

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHh-CC-C------------CCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCc
Q 043490            8 YATLFHACALHGNIKQAMQLHEHMINN-FP-N------------EPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNV   73 (589)
Q Consensus         8 ~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~-~------------~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~   73 (589)
                      .+.++.++...+.+-.-.-+++.+.+. .. +            ..........-+.++.+...++-|..+-..-.. |.
T Consensus       286 ~~~i~~~~d~~n~~v~ys~vl~~l~d~l~~w~~~~~vltsdg~~~~L~ek~le~kL~iL~kK~ly~~Ai~LAk~~~~-d~  364 (933)
T KOG2114|consen  286 SNRIFKAYDLRNRYVLYSSVLEDLSDNLIEWSFDCLVLTSDGVVHELIEKDLETKLDILFKKNLYKVAINLAKSQHL-DE  364 (933)
T ss_pred             hhheeehhhhcCcccchHHhHHHHHHHHHhcCCcEEEEecCCceeeeeeccHHHHHHHHHHhhhHHHHHHHHHhcCC-CH
Confidence            455566666666554444444444433 11 1            001112334556777777778888877765432 33


Q ss_pred             chHHHHHH----HHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhc----hhhHHHHHHHHHHhcCCCchhHHHHHH
Q 043490           74 VSWTALIS----GYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCD----YLHGKLVHALALKFSLDAHVYVANALI  145 (589)
Q Consensus        74 ~~~~~li~----~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~----~~~~~~~~~~~~~~g~~~~~~~~~~li  145 (589)
                      ..-..+..    -+-+.|++++|...|-+-...+.|..     +++-+.    ...--.....+.+.|+.... .-+.|+
T Consensus       365 d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~le~s~-----Vi~kfLdaq~IknLt~YLe~L~~~gla~~d-httlLL  438 (933)
T KOG2114|consen  365 DTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFLEPSE-----VIKKFLDAQRIKNLTSYLEALHKKGLANSD-HTTLLL  438 (933)
T ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccCChHH-----HHHHhcCHHHHHHHHHHHHHHHHcccccch-hHHHHH
Confidence            33333333    34567999999999877665433322     222222    22222344445566765443 346789


Q ss_pred             HHHhc-CCHHHHHHHHhhCCCCChh-HHHHHHHHHHcCCcHHHHHHH--------------HHHcCCHHHHHHHHHHH
Q 043490          146 NMYSK-SCADEAWKVFENMEFRNVI-SWNSMIAAFRACKLEAQAIEL--------------FAKMKNEEEALFLFRQL  207 (589)
Q Consensus       146 ~~y~~-g~~~~A~~lf~~m~~~~~~-~~~~li~~~~~~g~~~~a~~~--------------~~~~g~~~~A~~~~~~m  207 (589)
                      ++|.+ ++.+.-.+..+....-... -....+..+.+.+-.++|.-+              +...+++++|++.+..|
T Consensus       439 ncYiKlkd~~kL~efI~~~~~g~~~fd~e~al~Ilr~snyl~~a~~LA~k~~~he~vl~ille~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  439 NCYIKLKDVEKLTEFISKCDKGEWFFDVETALEILRKSNYLDEAELLATKFKKHEWVLDILLEDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHHhcchHHHHHHHhcCCCcceeeeHHHHHHHHHHhChHHHHHHHHHHhccCHHHHHHHHHHhcCHHHHHHHHhcC
Confidence            99999 9998888877776621111 122333444444444444333              34556677777777665

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=84.70  E-value=33  Score=33.18  Aligned_cols=58  Identities=12%  Similarity=0.236  Sum_probs=31.9

Q ss_pred             HHHHHHHHhC---CCCCC-H-HHHHHHHHHHhccCc--HHHHHHHHHHhHHhcCCccCcchHHHHH
Q 043490          299 KEALQLFSNM---NVQPD-S-ATFVSLLSACSHAGL--VQEGNKVFHSMLENHGVVPQLDHYACMV  357 (589)
Q Consensus       299 ~~A~~~~~~m---~~~p~-~-~t~~~ll~a~~~~g~--~~~a~~~~~~~~~~~~~~p~~~~~~~li  357 (589)
                      +.+..+|+.+   |...+ . .....+|..+.....  ...+.++++.+.+ .|+++...+|..+.
T Consensus       160 ~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~-~~~kik~~~yp~lG  224 (297)
T PF13170_consen  160 ERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKK-NGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHH-cCCccccccccHHH
Confidence            3445555555   44442 2 344444444433222  4467778888744 48888877776553

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=84.59  E-value=17  Score=28.28  Aligned_cols=57  Identities=12%  Similarity=0.182  Sum_probs=41.5

Q ss_pred             HHhc-CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 043490          147 MYSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTF  219 (589)
Q Consensus       147 ~y~~-g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  219 (589)
                      .+.. |++++|..+.+.+..||...|-++-.               -+.|..++...-+.+|...| .|...+|
T Consensus        48 SLmNrG~Yq~Al~l~~~~~~pdlepw~ALce---------------~rlGl~s~l~~rl~rla~sg-~p~lq~F  105 (115)
T TIGR02508        48 SLMNRGDYQSALQLGNKLCYPDLEPWLALCE---------------WRLGLGSALESRLNRLAASG-DPRLQTF  105 (115)
T ss_pred             HHHccchHHHHHHhcCCCCCchHHHHHHHHH---------------HhhccHHHHHHHHHHHHhCC-CHHHHHH
Confidence            3445 99999999999999999999988866               45666666666666676665 3444444

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.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=84.43  E-value=1.2  Score=26.63  Aligned_cols=24  Identities=25%  Similarity=0.422  Sum_probs=10.3

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC
Q 043490          285 WNSILKAYALHGQAKEALQLFSNM  308 (589)
Q Consensus       285 ~~~li~~~~~~g~~~~A~~~~~~m  308 (589)
                      |..+...|...|++++|+..|++.
T Consensus         4 ~~~~g~~~~~~~~~~~A~~~~~~a   27 (34)
T PF00515_consen    4 YYNLGNAYFQLGDYEEALEYYQRA   27 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHH
Confidence            344444444444444444444443

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 ....

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=84.27  E-value=3.5  Score=38.74  Aligned_cols=60  Identities=10%  Similarity=-0.024  Sum_probs=53.6

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          384 IWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       384 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      +++....+|..+|.+.+|.++.++++.++|-+...+..|+..++..|+--++.+-++++.
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            344556789999999999999999999999999999999999999999888888888775

>PRK11619 lytic murein transglycosylase; Provisional

Probab=84.11  E-value=69  Score=34.94  Aligned_cols=95  Identities=11%  Similarity=-0.107  Sum_probs=57.4

Q ss_pred             HHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC---CCChhHHHHHHHHhhhcCChH
Q 043490          357 VDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLE---PGDSLGFVQMSNIYCLSGSFN  433 (589)
Q Consensus       357 i~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~  433 (589)
                      +..+...|+..+|...+..+-...+......+.......|..+.+..........+   -.-+..|...+..+++.-.++
T Consensus       414 a~~L~~~g~~~~a~~ew~~~~~~~~~~~~~~la~~A~~~g~~~~ai~~~~~~~~~~~~~~rfp~~~~~~~~~~a~~~~v~  493 (644)
T PRK11619        414 VRELMYWNMDNTARSEWANLVASRSKTEQAQLARYAFNQQWWDLSVQATIAGKLWDHLEERFPLAWNDEFRRYTSGKGIP  493 (644)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCHHHHHHHHhhchhHHHHHHhCCcchHHHHHHHHHHcCCC
Confidence            44566778888888877766223455555666666677888888887765543321   012345666777777666666


Q ss_pred             HHHHHHHHHhcCCCccCC
Q 043490          434 KARLIRKEMKGSRVRKYP  451 (589)
Q Consensus       434 ~a~~~~~~m~~~~~~~~~  451 (589)
                      .+.-.--...+.+..|..
T Consensus       494 ~~lv~ai~rqES~f~p~a  511 (644)
T PRK11619        494 QSYAMAIARQESAWNPKA  511 (644)
T ss_pred             HHHHHHHHHHhcCCCCCC
Confidence            655433333466665543

>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=83.83  E-value=8.3  Score=34.07  Aligned_cols=57  Identities=7%  Similarity=0.163  Sum_probs=40.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHhhcCCCC------hhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 043490          252 VIANALIHAYARCGSISLSKQVFDKMTYHD------LVSWNSILKAYALHGQAKEALQLFSNM  308 (589)
Q Consensus       252 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m  308 (589)
                      ..+..+.+.|.+.|+.+.|.+.|.++.+..      +..+-.+|......|++..+.....+.
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka   99 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKA   99 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            456677888888888888888888876432      235566677777777777777776666

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.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=83.38  E-value=25  Score=29.76  Aligned_cols=69  Identities=9%  Similarity=-0.003  Sum_probs=45.3

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCC-cchHHHHHHHH
Q 043490           12 FHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRN-VVSWTALISGY   83 (589)
Q Consensus        12 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~-~~~~~~li~~~   83 (589)
                      +..-....+++++..++..+.-.-|   .....-.--.-.+...|++++|.++|+++.+.. ...|..-+.++
T Consensus        17 ~~~aL~~~d~~D~e~lLdALrvLrP---~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~~p~~kAL~A~   86 (153)
T TIGR02561        17 LMYALRSADPYDAQAMLDALRVLRP---NLKELDMFDGWLLIARGNYDEAARILRELLSSAGAPPYGKALLAL   86 (153)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHhCC---CccccchhHHHHHHHcCCHHHHHHHHHhhhccCCCchHHHHHHHH
Confidence            3444468899999999988865533   333333334455678999999999999998643 22444333333

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=82.25  E-value=65  Score=33.23  Aligned_cols=168  Identities=9%  Similarity=0.083  Sum_probs=74.2

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHhhcC--CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhc
Q 043490          250 DTVIANALIHAYARCGSISLSKQVFDKMT--YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDSATFVSLLSACSH  326 (589)
Q Consensus       250 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~  326 (589)
                      |....-++++.++..-...-.+.+-.+|.  ..+-..+-.++..|..+ ..++-..+++++ ...-|.+.+..-+..+..
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfnDvv~~ReLa~~yE  143 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFNDVVIGRELADKYE  143 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcchhHHHHHHHHHHHH
Confidence            33444445555555544444444444444  23344555555555555 344455555544 333344444433333333


Q ss_pred             cCcHHHHHHHHHHhHHhcCCccC------cchHHHHHHHHhhcCCHHHHHHHHHhC----CCCCCHHHHHHHHHHHHHcC
Q 043490          327 AGLVQEGNKVFHSMLENHGVVPQ------LDHYACMVDLLGRVGRILEAEKLIREM----PMEPDSVIWSVLLGSCRKHG  396 (589)
Q Consensus       327 ~g~~~~a~~~~~~~~~~~~~~p~------~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~~~~~~~ll~~~~~~g  396 (589)
                      .++.+.+..+|..+..+  +.|.      .++|..|+...  ..+.+..+.+..+.    +...-.+.+.-+-.-|....
T Consensus       144 kik~sk~a~~f~Ka~yr--fI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~e  219 (711)
T COG1747         144 KIKKSKAAEFFGKALYR--FIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSENE  219 (711)
T ss_pred             HhchhhHHHHHHHHHHH--hcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhcccc
Confidence            35555555555554332  1221      11233333211  12333333333333    22222333444444555566


Q ss_pred             CHHHHHHHHHHHhhcCCCChhHHHHH
Q 043490          397 ETRLAELAATKLKQLEPGDSLGFVQM  422 (589)
Q Consensus       397 ~~~~a~~~~~~~~~~~p~~~~~~~~l  422 (589)
                      ++.+|++++..+++.+..|..+-..+
T Consensus       220 N~~eai~Ilk~il~~d~k~~~ar~~~  245 (711)
T COG1747         220 NWTEAIRILKHILEHDEKDVWARKEI  245 (711)
T ss_pred             CHHHHHHHHHHHhhhcchhhhHHHHH
Confidence            66666666666655554444333333

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=82.09  E-value=3  Score=40.01  Aligned_cols=111  Identities=12%  Similarity=0.075  Sum_probs=78.8

Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHHcCC
Q 043490          321 LSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PME-PDSVIWSVLLGSCRKHGE  397 (589)
Q Consensus       321 l~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~ll~~~~~~g~  397 (589)
                      .+-|.++|.+++|...|...+   .+.| +..++..-..+|.+..++..|+.-.... .+. .-...|..-+.+-...|+
T Consensus       104 GN~yFKQgKy~EAIDCYs~~i---a~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~  180 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAI---AVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGN  180 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhh---ccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhh
Confidence            356889999999999998654   5567 8888888899999999998877755544 211 114456666666666788


Q ss_pred             HHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHH
Q 043490          398 TRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLI  438 (589)
Q Consensus       398 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  438 (589)
                      .++|.+-++.+++++|.+..    |=..|++.....++.-+
T Consensus       181 ~~EAKkD~E~vL~LEP~~~E----LkK~~a~i~Sl~E~~I~  217 (536)
T KOG4648|consen  181 NMEAKKDCETVLALEPKNIE----LKKSLARINSLRERKIA  217 (536)
T ss_pred             HHHHHHhHHHHHhhCcccHH----HHHHHHHhcchHhhhHH
Confidence            99999999999999997543    33444444444444433

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=81.86  E-value=13  Score=38.72  Aligned_cols=100  Identities=15%  Similarity=0.114  Sum_probs=57.3

Q ss_pred             Hhc-CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 043490          148 YSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKAC  226 (589)
Q Consensus       148 y~~-g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  226 (589)
                      ..+ |+++.|.++..+.  .+..-|..|..+.             .+.|++..|.+.|.....         |.+|+-.+
T Consensus       647 al~lgrl~iA~~la~e~--~s~~Kw~~Lg~~a-------------l~~~~l~lA~EC~~~a~d---------~~~LlLl~  702 (794)
T KOG0276|consen  647 ALKLGRLDIAFDLAVEA--NSEVKWRQLGDAA-------------LSAGELPLASECFLRARD---------LGSLLLLY  702 (794)
T ss_pred             hhhcCcHHHHHHHHHhh--cchHHHHHHHHHH-------------hhcccchhHHHHHHhhcc---------hhhhhhhh
Confidence            345 7777777665443  3456677777777             555666666555554332         44555566


Q ss_pred             hCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhc
Q 043490          227 AGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKM  277 (589)
Q Consensus       227 ~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  277 (589)
                      ...|+.+....+-....+.| ..|     .-..+|...|+++++.+++.+-
T Consensus       703 t~~g~~~~l~~la~~~~~~g-~~N-----~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  703 TSSGNAEGLAVLASLAKKQG-KNN-----LAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             hhcCChhHHHHHHHHHHhhc-ccc-----hHHHHHHHcCCHHHHHHHHHhc
Confidence            66666665555555555555 222     2223455567777666666543

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=81.80  E-value=14  Score=28.71  Aligned_cols=85  Identities=14%  Similarity=0.062  Sum_probs=58.0

Q ss_pred             CHHHHHHHHHHHHHhCCCCCCChhHHHHHH--HHHHhcCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCChhHHHHHHH
Q 043490           20 NIKQAMQLHEHMINNFPNEPQDLFVTNHLI--NMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFC   97 (589)
Q Consensus        20 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~li--~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~   97 (589)
                      .-++|..+-+++...     ++..-.-.||  ..+...|++++|..+.+.++-||...|-+|-..  +.|--+++..-+.
T Consensus        20 cHqEA~tIAdwL~~~-----~~~~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce~--rlGl~s~l~~rl~   92 (115)
T TIGR02508        20 CHQEANTIADWLHLK-----GESEEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCEW--RLGLGSALESRLN   92 (115)
T ss_pred             HHHHHHHHHHHHhcC-----CchHHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHHH--hhccHHHHHHHHH
Confidence            467777777777654     2212223333  456788999999999999999999999988663  5566666666666


Q ss_pred             HHHhccCCCceeHH
Q 043490           98 SLLQYFFPNEFSLA  111 (589)
Q Consensus        98 ~m~~~~~p~~~t~~  111 (589)
                      +|..+..|...+|.
T Consensus        93 rla~sg~p~lq~Fa  106 (115)
T TIGR02508        93 RLAASGDPRLQTFV  106 (115)
T ss_pred             HHHhCCCHHHHHHH
Confidence            66665555444443

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=81.32  E-value=7.7  Score=37.34  Aligned_cols=84  Identities=19%  Similarity=0.240  Sum_probs=60.9

Q ss_pred             HHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhc---
Q 043490          289 LKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRV---  363 (589)
Q Consensus       289 i~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~---  363 (589)
                      ..-|.+.|.+++|++.|.+- .+.| |.+++..-..+|.+...+..|..-....+.-         -...+.+|.|.   
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaL---------d~~Y~KAYSRR~~A  174 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIAVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIAL---------DKLYVKAYSRRMQA  174 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHh---------hHHHHHHHHHHHHH
Confidence            45689999999999999998 8888 9999999999999999988887665554321         12345566655   


Q ss_pred             ----CCHHHHHHHHHhC-CCCCC
Q 043490          364 ----GRILEAEKLIREM-PMEPD  381 (589)
Q Consensus       364 ----g~~~~A~~~~~~m-~~~p~  381 (589)
                          |...+|.+-++.. .++|+
T Consensus       175 R~~Lg~~~EAKkD~E~vL~LEP~  197 (536)
T KOG4648|consen  175 RESLGNNMEAKKDCETVLALEPK  197 (536)
T ss_pred             HHHHhhHHHHHHhHHHHHhhCcc
Confidence                4555555554444 56676

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=80.75  E-value=11  Score=29.00  Aligned_cols=48  Identities=15%  Similarity=0.194  Sum_probs=35.9

Q ss_pred             hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHH
Q 043490          375 EMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQM  422 (589)
Q Consensus       375 ~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  422 (589)
                      .+.+-|++.+..+.+.||++.+++..|.++++-+...-..+...|-.+
T Consensus        35 ~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~~~~~y~~~   82 (103)
T cd00923          35 GYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGAHKEIYPYI   82 (103)
T ss_pred             ccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCchhhHHHH
Confidence            346789999999999999999999999999998774322233344444

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.

>PRK09687 putative lyase; Provisional

Probab=80.62  E-value=56  Score=31.40  Aligned_cols=61  Identities=8%  Similarity=-0.023  Sum_probs=30.1

Q ss_pred             cCcchHHHHHHHHhhcCCHHHHHHH-HHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCC
Q 043490          348 PQLDHYACMVDLLGRVGRILEAEKL-IREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEP  413 (589)
Q Consensus       348 p~~~~~~~li~~~~~~g~~~~A~~~-~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  413 (589)
                      ++..+-...+.++++.|.. +|... ++.+. .++  .....+.++...|+. +|...+..+.+.+|
T Consensus       204 ~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~-~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~~~  265 (280)
T PRK09687        204 KNEEIRIEAIIGLALRKDK-RVLSVLIKELK-KGT--VGDLIIEAAGELGDK-TLLPVLDTLLYKFD  265 (280)
T ss_pred             CChHHHHHHHHHHHccCCh-hHHHHHHHHHc-CCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhhCC
Confidence            3445555555666666553 33333 23322 122  223455566666653 46666666665555

>KOG4279 consensus Serine/threonine protein kinase [Signal transduction mechanisms]

Probab=80.57  E-value=36  Score=36.58  Aligned_cols=193  Identities=13%  Similarity=0.139  Sum_probs=116.6

Q ss_pred             HHHHHHHHHHHHcCCCCC---HHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCC------Cc-HHHHHHHHHHHHhcCCH
Q 043490          198 EEALFLFRQLQREGMAPD---WCTFSIVLKACAGLVTERHASAVHSLIAKYGFE------DD-TVIANALIHAYARCGSI  267 (589)
Q Consensus       198 ~~A~~~~~~m~~~g~~p~---~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~------~~-~~~~~~li~~~~~~g~~  267 (589)
                      ++--..+.+|...--.|+   ..+...++-.|-...+++...++.+.+.+..-.      ++ .+.|.--++---+-|+-
T Consensus       180 ~~l~~~L~~mR~RlDnp~VL~~d~V~nlmlSyRDvQdY~amirLVe~Lk~iP~t~~vve~~nv~f~YaFALNRRNr~GDR  259 (1226)
T KOG4279|consen  180 DQLNDYLDKMRTRLDNPDVLHPDTVSNLMLSYRDVQDYDAMIRLVEDLKRIPDTLKVVETHNVRFHYAFALNRRNRPGDR  259 (1226)
T ss_pred             HHHHHHHHHHHhhcCCccccCHHHHHHHHhhhccccchHHHHHHHHHHHhCcchhhhhccCceEEEeeehhcccCCCccH
Confidence            344556778876533343   456677777888888899888888888764200      01 11222223333455777


Q ss_pred             HHHHHHHhhcC------CCChh-----HHHHH--HHHHHHcCCHHHHHHHHHhC-CCCCCHHH---HHHHHHHHhccCcH
Q 043490          268 SLSKQVFDKMT------YHDLV-----SWNSI--LKAYALHGQAKEALQLFSNM-NVQPDSAT---FVSLLSACSHAGLV  330 (589)
Q Consensus       268 ~~A~~~~~~~~------~~~~~-----~~~~l--i~~~~~~g~~~~A~~~~~~m-~~~p~~~t---~~~ll~a~~~~g~~  330 (589)
                      ++|+.+.-.+.      .||..     .|--|  -+.|-..+..+.|.+.|++. .++|+..+   +..|+.+-.+  .+
T Consensus       260 akAL~~~l~lve~eg~vapDm~Cl~GRIYKDmF~~S~ytDa~s~~~a~~WyrkaFeveP~~~sGIN~atLL~aaG~--~F  337 (1226)
T KOG4279|consen  260 AKALNTVLPLVEKEGPVAPDMYCLCGRIYKDMFIASNYTDAESLNHAIEWYRKAFEVEPLEYSGINLATLLRAAGE--HF  337 (1226)
T ss_pred             HHHHHHHHHHHHhcCCCCCceeeeechhhhhhhhccCCcchhhHHHHHHHHHHHhccCchhhccccHHHHHHHhhh--hc
Confidence            88877766554      24442     23322  23466667788899999999 88887653   4445544322  12


Q ss_pred             HHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 043490          331 QEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQ  410 (589)
Q Consensus       331 ~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  410 (589)
                      +...++ +.+    |+        .|-..++|.|.+++..+.++-.          ..+.+-.-..++.+|.++.+.|.+
T Consensus       338 ens~El-q~I----gm--------kLn~LlgrKG~leklq~YWdV~----------~y~~asVLAnd~~kaiqAae~mfK  394 (1226)
T KOG4279|consen  338 ENSLEL-QQI----GM--------KLNSLLGRKGALEKLQEYWDVA----------TYFEASVLANDYQKAIQAAEMMFK  394 (1226)
T ss_pred             cchHHH-HHH----HH--------HHHHHhhccchHHHHHHHHhHH----------HhhhhhhhccCHHHHHHHHHHHhc
Confidence            222221 111    21        2345677888888777766532          334555667889999999999999


Q ss_pred             cCCCC
Q 043490          411 LEPGD  415 (589)
Q Consensus       411 ~~p~~  415 (589)
                      ++|+.
T Consensus       395 Lk~P~  399 (1226)
T KOG4279|consen  395 LKPPV  399 (1226)
T ss_pred             cCCce
Confidence            98864

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=80.50  E-value=12  Score=29.28  Aligned_cols=49  Identities=16%  Similarity=0.177  Sum_probs=33.4

Q ss_pred             hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHH
Q 043490          375 EMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMS  423 (589)
Q Consensus       375 ~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  423 (589)
                      .+.+-|++.+..+.+.||++.+++..|.++++-+...-.+....|-.++
T Consensus        38 ~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~~Y~~~l   86 (108)
T PF02284_consen   38 GYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKEIYPYIL   86 (108)
T ss_dssp             TSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TTHHHHHH
T ss_pred             ccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHHHHHHHH
Confidence            3467899999999999999999999999999988754332333555443

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 ....

>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=80.15  E-value=2.5  Score=23.61  Aligned_cols=24  Identities=8%  Similarity=0.116  Sum_probs=17.5

Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHH
Q 043490          417 LGFVQMSNIYCLSGSFNKARLIRK  440 (589)
Q Consensus       417 ~~~~~l~~~~~~~g~~~~a~~~~~  440 (589)
                      .+...+..++...|++++|..+++
T Consensus         2 ~a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    2 RARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHh
Confidence            345667778888888888877764

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

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.02  E-value=22  Score=37.17  Aligned_cols=149  Identities=13%  Similarity=0.088  Sum_probs=104.4

Q ss_pred             hcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhH
Q 043490          263 RCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSA-TFVSLLSACSHAGLVQEGNKVFHSML  341 (589)
Q Consensus       263 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~  341 (589)
                      -.|+++.|..++..++++   .-+.++.-+-..|..++|+++-      ||.. -|..    ..+.|+++.|.++..+. 
T Consensus       598 mrrd~~~a~~vLp~I~k~---~rt~va~Fle~~g~~e~AL~~s------~D~d~rFel----al~lgrl~iA~~la~e~-  663 (794)
T KOG0276|consen  598 LRRDLEVADGVLPTIPKE---IRTKVAHFLESQGMKEQALELS------TDPDQRFEL----ALKLGRLDIAFDLAVEA-  663 (794)
T ss_pred             hhccccccccccccCchh---hhhhHHhHhhhccchHhhhhcC------CChhhhhhh----hhhcCcHHHHHHHHHhh-
Confidence            457888888877777632   3345566667788888887643      3332 2322    23568999998876544 


Q ss_pred             HhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHH
Q 043490          342 ENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQ  421 (589)
Q Consensus       342 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  421 (589)
                            -+..-|..|.++....|++..|.+.|.+..      -|..|+-.+...|+-+.-..+.....+.+..|     .
T Consensus       664 ------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~------d~~~LlLl~t~~g~~~~l~~la~~~~~~g~~N-----~  726 (794)
T KOG0276|consen  664 ------NSEVKWRQLGDAALSAGELPLASECFLRAR------DLGSLLLLYTSSGNAEGLAVLASLAKKQGKNN-----L  726 (794)
T ss_pred             ------cchHHHHHHHHHHhhcccchhHHHHHHhhc------chhhhhhhhhhcCChhHHHHHHHHHHhhcccc-----h
Confidence                  245568899999999999999999998752      35677778888888877666666666655544     2


Q ss_pred             HHHHhhhcCChHHHHHHHHHH
Q 043490          422 MSNIYCLSGSFNKARLIRKEM  442 (589)
Q Consensus       422 l~~~~~~~g~~~~a~~~~~~m  442 (589)
                      -..+|...|+++++.+++.+-
T Consensus       727 AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  727 AFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             HHHHHHHcCCHHHHHHHHHhc
Confidence            345678899999999888654

---

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	589
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-07
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06
1qzv_F	154	Plant photosystem I: subunit PSAF; photosynthesis,	1e-05

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 54.1 bits (128), Expect = 1e-07
 Identities = 36/344 (10%), Positives = 88/344 (25%), Gaps = 50/344 (14%)

Query: 193 KMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTV 252
           ++ +++ A  L    ++   +P     + +L+   G ++     A     ++        
Sbjct: 69  RLLSKQMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQ 128

Query: 253 IANALIHAYARCGSISLSKQVFDKMTYH-------DLVSWNSILKAYALHGQAKEALQLF 305
              A          + L+  +               L  +N+++  +A  G  KE + + 
Sbjct: 129 RLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVL 188

Query: 306 SNM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGR 362
             +    + PD  +                                    YA  +  +GR
Sbjct: 189 FMVKDAGLTPDLLS------------------------------------YAAALQCMGR 212

Query: 363 VGRILEA-EKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLE--PGDSLGF 419
             +     E+ + +M  E   +  ++         +      A  K+K     P      
Sbjct: 213 QDQDAGTIERCLEQMSQEGLKLQ-ALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPP 271

Query: 420 VQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIF 479
           V  S +     + +      K     +  +      + +E          ++        
Sbjct: 272 VNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMELASRVCVVSVEKPTLPSKEV 331

Query: 480 KKLEELIGQLKGMGYVPETSLALHDIEEEHKEEQLYHHSEKLAL 523
           K   + +  L+                   +E      S    L
Sbjct: 332 KHARKTLKTLRDQWEKALCRALRETKNRLEREVYEGRFSLYPFL 375

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 54.1 bits (128), Expect = 1e-07
 Identities = 25/232 (10%), Positives = 65/232 (28%), Gaps = 13/232 (5%)

Query: 6   QIYATLFHACALHGNIKQAMQLHEHMINNFP-NEPQDLFVTNHLINMYAKFGYLDDARHL 64
           Q     F  C L   +  A  L           +   L + N ++  +A+ G   +  ++
Sbjct: 128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYV 187

Query: 65  FDEMPKR----NVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYL 120
              +       +++S+ A +    +              +        +L + ++  +  
Sbjct: 188 LFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEED 247

Query: 121 HGKLVHALALKFSLDAH-------VYVANALINMYSKSCADEAWKVFENMEFRNVISWNS 173
              ++ A+       +        V  +  L ++Y+K       K            +  
Sbjct: 248 RATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPK-LHLPLKTLQCLFEK 306

Query: 174 MIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKA 225
            +    A ++   ++E       E +      +  R+      C      K 
Sbjct: 307 QLHMELASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQWEKALCRALRETKN 358

>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 = 53.7 bits (128), Expect = 2e-07
 Identities = 94/649 (14%), Positives = 182/649 (28%), Gaps = 219/649 (33%)

Query: 28  HEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHG 87
           H HM  +F          + L      F    D + + D    ++++S    I       
Sbjct: 4   HHHM--DFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMP--KSILS-KEEIDHIIMSK 58

Query: 88  NAEE-CFRLFCSLL-------QYFF-----PN-EFSLASVLISC--------------DY 119
           +A     RLF +LL       Q F       N +F ++ +                  D 
Sbjct: 59  DAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDR 118

Query: 120 LHG-------------KLVHAL--ALKFSLDAHVYVANALINM--YSKSC-ADEA---WK 158
           L+              +    L  AL   L     V   +  +    K+  A +    +K
Sbjct: 119 LYNDNQVFAKYNVSRLQPYLKLRQALL-ELRPAKNVL--IDGVLGSGKTWVALDVCLSYK 175

Query: 159 VFENMEFRNVISWNSMIAAFRACKLEAQAIE----LFAKMK---------------NEEE 199
           V   M+F+  I W +     + C      +E    L  ++                    
Sbjct: 176 VQCKMDFK--IFWLN----LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229

Query: 200 ALFLFRQLQREGMAPD-------------WCTFSIVLKACAGLVTERHASAVHSLIAKY- 245
                R+L +     +             W  F++   +C  L+T R       L A   
Sbjct: 230 IQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNL---SCKILLTTRFKQVTDFLSAATT 286

Query: 246 ----------GFEDDTVIANALIHAYARCGSISLSKQV----------FDKMTYHDLVSW 285
                         D     +L+  Y  C    L ++V            +     L +W
Sbjct: 287 THISLDHHSMTLTPDE--VKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATW 344

Query: 286 N-----------SILKAYALHGQAKEALQLFSNMNVQPDSA-----TFVSL--------- 320
           +           +I+++     +  E  ++F  ++V P SA         +         
Sbjct: 345 DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDV 404

Query: 321 ---LSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRV-GRILEAEKLIRE- 375
              ++      LV++  K     +    +   L+     ++    +   I++   + +  
Sbjct: 405 MVVVNKLHKYSLVEKQPKESTISI--PSI--YLE-LKVKLENEYALHRSIVDHYNIPKTF 459

Query: 376 -----MPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSG 430
                +P   D   +S  +G    H            LK +E  +         ++ L  
Sbjct: 460 DSDDLIPPYLDQYFYS-HIG---HH------------LKNIEHPER--MTLFRMVF-LDF 500

Query: 431 SFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLK 490
            F + ++           ++   +W          ASG             +   + QLK
Sbjct: 501 RFLEQKI-----------RHDSTAWN---------ASGS------------ILNTLQQLK 528

Query: 491 G-MGYV----PETSLALHDIEE--EHKEEQLYHHSEKLALVFAIMNQGS 532
               Y+    P+    ++ I +     EE L        L  A+M +  
Sbjct: 529 FYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDE 577

>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 = 50.2 bits (119), Expect = 2e-06
 Identities = 41/267 (15%), Positives = 84/267 (31%), Gaps = 56/267 (20%)

Query: 328 GLVQEGNK-VFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWS 386
           G  Q   K +     +    V   D      D+      IL  E+ I  + M  D+V  +
Sbjct: 12  GEHQYQYKDILSVFEDA--FVDNFDCK----DVQDMPKSILSKEE-IDHIIMSKDAVSGT 64

Query: 387 -VLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS 445
             L  +     E  + +     L+      +  F+ MS I        +  ++ +     
Sbjct: 65  LRLFWTLLSKQEEMVQKFVEEVLRI-----NYKFL-MSPI---KTEQRQPSMMTRMYIEQ 115

Query: 446 RVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLK--------GMGYVPE 497
           R R Y         N    FA   K +  R   + KL + + +L+        G+    +
Sbjct: 116 RDRLY---------NDNQVFA---KYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGK 163

Query: 498 TSLALHDIEEEHKEEQLYHHSEKLALVFAI--MNQGSLCRERSVIRIMKNIRICVDCHNF 555
           T +AL         +    +  +  + F I  +N  +     +V+ +++ +      +  
Sbjct: 164 TWVAL---------DVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL-----LYQI 209

Query: 556 MKLASDLLGKEIVVRDSNRFHHFKDRI 582
               +     +       R H  +  +
Sbjct: 210 DPNWTSRS--DHSSNIKLRIHSIQAEL 234

>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154

 Score = 44.6 bits (104), Expect = 1e-05
 Identities = 10/36 (27%), Positives = 21/36 (58%), Gaps = 9/36 (25%)

Query: 474 QREAIFKKLEELIGQLKGMGYVPET--SLALH-DIE 506
           +++A+ KKL+     LK + Y  ++  +LA+   +E
Sbjct: 18  EKQAL-KKLQ---ASLK-L-YADDSAPALAIKATME 47

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	589
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.95
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.91
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.91
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.9
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.9
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.88
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.86
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.83
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.82
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.8
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.79
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.78
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.77
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.77
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.75
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.73
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.73
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.73
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.73
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.71
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.71
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.71
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.7
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.7
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.69
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.67
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.67
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.66
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.65
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.63
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.61
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.6
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.6
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.56
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.55
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.54
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.49
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.49
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.49
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.48
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.47
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.47
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.46
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.46
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.44
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.44
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.44
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.44
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.44
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.44
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.43
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.43
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.41
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.41
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.39
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.39
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.37
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.34
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.32
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.31
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.31
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.3
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.3
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.29
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.28
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.27
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.27
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.25
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.24
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.24
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.21
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.2
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.2
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.16
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.15
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.14
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.09
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.06
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.06
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.04
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.03
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.99
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.98
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.96
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.94
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.91
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.9
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.89
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.89
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.88
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.85
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.82
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.81
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.77
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.77
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.75
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.72
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.71
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.71
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.7
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.7
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.67
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.66
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.65
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.64
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.64
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.63
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.62
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.62
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.61
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.61
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.6
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.6
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.56
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.55
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.53
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.52
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.51
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.5
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.49
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.48
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.47
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.46
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.46
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.44
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.44
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.43
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.42
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.4
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.4
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.38
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.37
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.36
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.35
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.35
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.34
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.31
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.3
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.29
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.28
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.27
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.26
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.26
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.25
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.24
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.24
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.23
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.22
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.21
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.19
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.19
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.18
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.17
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.16
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.15
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.13
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.12
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.11
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.1
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.09
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.06
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.05
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.02
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.02
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.01
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.99
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.98
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.98
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.98
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.96
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.96
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.95
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.95
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.94
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.93
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.92
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.91
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.9
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.9
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.87
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.85
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.83
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.82
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.81
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.78
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.76
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.71
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.68
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.68
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.64
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.63
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.53
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.47
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.46
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.45
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.44
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.36
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.31
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.16
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.15
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.07
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.06
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.05
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.02
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.95
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.94
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.87
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.82
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.67
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.66
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.51
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.48
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.41
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.41
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.25
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	95.87
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.71
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.51
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.46
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.39
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.04
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	94.94
1pc2_A	152	Mitochondria fission protein; unknown function; NM	94.44
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	93.81
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	93.59
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	93.19
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	91.99
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	91.82
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	91.42
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	91.23
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	91.04
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	89.12
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	88.88
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	87.79
2qx5_A	661	Nucleoporin NIC96; mRNA transport, nuclear pore co	87.65
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	87.52
2p58_C	116	Putative type III secretion protein YSCG; type III	87.1
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	86.92
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	86.33
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	86.19
2p58_C	116	Putative type III secretion protein YSCG; type III	86.17
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	85.9
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	83.8
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	83.56
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	83.25
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	83.12
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	82.44
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	81.59
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	81.54
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	80.52
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	80.46
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	80.35

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=8.2e-38  Score=336.80  Aligned_cols=422  Identities=12%  Similarity=-0.015  Sum_probs=320.9

Q ss_pred             CChhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCC-CC----------
Q 043490            3 HSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMP-KR----------   71 (589)
Q Consensus         3 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~-~~----------   71 (589)
                      |+..++..++.+|.+.|++++|..+|+.+... +   +++.+++.++.+|.++|++++|+++|+++. ..          
T Consensus       115 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  190 (597)
T 2xpi_A          115 GNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY-N---RSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLL  190 (597)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG-G---TCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------
T ss_pred             CCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc-c---cchhHHHHHHHHHHHHhhHHHHHHHHhccCCcccccccccccc
Confidence            33444444444444444444444444443221 2   445555555555555555555555555322 11          


Q ss_pred             --------CcchHHHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhc----hhhHHHH----HHHHHHhcCC
Q 043490           72 --------NVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCD----YLHGKLV----HALALKFSLD  135 (589)
Q Consensus        72 --------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~----~~~~~~~----~~~~~~~g~~  135 (589)
                              +..+|+.++.+|.+.|++++|+++|++|.+. .|+..+....+..+.    .......    +..+...+..
T Consensus       191 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  269 (597)
T 2xpi_A          191 MQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMV-DAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAA  269 (597)
T ss_dssp             CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHH
T ss_pred             ccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHH
Confidence                    2445555555555555555555555555443 233222222222221    0000000    1112222233


Q ss_pred             CchhHHHHHHHHHhc-CCHHHHHHHHhhCCC--CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Q 043490          136 AHVYVANALINMYSK-SCADEAWKVFENMEF--RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGM  212 (589)
Q Consensus       136 ~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~  212 (589)
                      ....+++.++.+|.+ |++++|.++|+++.+  ++..+|+.++.+|             .+.|++++|+++|+++.+.+ 
T Consensus       270 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~-------------~~~g~~~~A~~~~~~~~~~~-  335 (597)
T 2xpi_A          270 FLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTL-------------FVRSRFIDVLAITTKILEID-  335 (597)
T ss_dssp             HHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHH-------------HHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHH-------------HHhcCHHHHHHHHHHHHHcC-
Confidence            334456666888999 999999999999987  7999999999999             99999999999999999865 


Q ss_pred             CCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHH
Q 043490          213 APDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSIL  289 (589)
Q Consensus       213 ~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li  289 (589)
                      +.+..++..++.++.+.|+.++|.++++.+.+.. +.+..+++.++.+|.+.|++++|.++|+++.   ..+..+|+.++
T Consensus       336 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~  414 (597)
T 2xpi_A          336 PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFA  414 (597)
T ss_dssp             TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            3477889999999999999999999999999765 7789999999999999999999999999886   45688999999


Q ss_pred             HHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHH
Q 043490          290 KAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRIL  367 (589)
Q Consensus       290 ~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  367 (589)
                      .+|.+.|++++|+++|+++ ...| +..++..++.+|.+.|++++|.++|+.+.+..  +.+..+|+.++..|.+.|+++
T Consensus       415 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~  492 (597)
T 2xpi_A          415 HSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF--QYDPLLLNELGVVAFNKSDMQ  492 (597)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhCCHH
Confidence            9999999999999999999 5445 77899999999999999999999999997642  336788999999999999999


Q ss_pred             HHHHHHHhC-------CCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHH
Q 043490          368 EAEKLIREM-------PMEPD--SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLI  438 (589)
Q Consensus       368 ~A~~~~~~m-------~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  438 (589)
                      +|.++|+++       +..|+  ..+|..++.+|.+.|++++|...++++.+.+|+++.+|..++.+|.+.|++++|.+.
T Consensus       493 ~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  572 (597)
T 2xpi_A          493 TAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITH  572 (597)
T ss_dssp             HHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHH
Confidence            999999988       45787  889999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCC
Q 043490          439 RKEMKGSR  446 (589)
Q Consensus       439 ~~~m~~~~  446 (589)
                      ++++.+..
T Consensus       573 ~~~~l~~~  580 (597)
T 2xpi_A          573 LHESLAIS  580 (597)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHhcC
Confidence            99998743

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=4.4e-34  Score=307.67  Aligned_cols=420  Identities=10%  Similarity=0.035  Sum_probs=350.7

Q ss_pred             CChhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCC--CCCcchHHHHH
Q 043490            3 HSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMP--KRNVVSWTALI   80 (589)
Q Consensus         3 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~--~~~~~~~~~li   80 (589)
                      |++..|+.++..+.+.|++++|..+|+.+.+. .   |+..++..++..|.+.|++++|..+|+++.  .++..+|+.++
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~-~---p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~  157 (597)
T 2xpi_A           82 SREDYLRLWRHDALMQQQYKCAAFVGEKVLDI-T---GNPNDAFWLAQVYCCTGDYARAKCLLTKEDLYNRSSACRYLAA  157 (597)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-H---CCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGGGTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCchHHHHHHHHHHhh-C---CCchHHHHHHHHHHHcCcHHHHHHHHHHHhccccchhHHHHHH
Confidence            56788999999999999999999999999865 3   577889999999999999999999999994  57999999999


Q ss_pred             HHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHH
Q 043490           81 SGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKV  159 (589)
Q Consensus        81 ~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~l  159 (589)
                      .+|.+.|++++|+++|+++.    |+...    ..++.       .......|.+.+..+++.++.+|.+ |++++|.++
T Consensus       158 ~~~~~~g~~~~A~~~~~~~~----~~~~~----~~~~~-------~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  222 (597)
T 2xpi_A          158 FCLVKLYDWQGALNLLGETN----PFRKD----EKNAN-------KLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKEC  222 (597)
T ss_dssp             HHHHHTTCHHHHHHHHCSSC----TTC---------------------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHhccC----Ccccc----ccccc-------cccccccccchhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999999998532    22100    00000       0001123456678999999999999 999999999


Q ss_pred             HhhCCC--C-ChhHHHHHHHHHHcCCcHHHH-------------------------HHHHHHcCCHHHHHHHHHHHHHcC
Q 043490          160 FENMEF--R-NVISWNSMIAAFRACKLEAQA-------------------------IELFAKMKNEEEALFLFRQLQREG  211 (589)
Q Consensus       160 f~~m~~--~-~~~~~~~li~~~~~~g~~~~a-------------------------~~~~~~~g~~~~A~~~~~~m~~~g  211 (589)
                      |++|.+  | +...|..+...+...+..+.+                         ...|.+.|++++|.++|+++.+. 
T Consensus       223 ~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~-  301 (597)
T 2xpi_A          223 YKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL-  301 (597)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG-
T ss_pred             HHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC-
Confidence            999874  3 344555555444322222211                         11235678999999999998765 


Q ss_pred             CCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHH
Q 043490          212 MAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSI  288 (589)
Q Consensus       212 ~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l  288 (589)
                       +++..++..++.++.+.|++++|.++++.+.+.+ +.+..+++.++.+|.+.|++++|..+|+++.   ..+..+|+.+
T Consensus       302 -~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l  379 (597)
T 2xpi_A          302 -EKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEKAVTWLAV  379 (597)
T ss_dssp             -GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSHHHHHHH
T ss_pred             -CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCcccHHHHHHH
Confidence             5899999999999999999999999999999887 5688899999999999999999999999886   4578899999


Q ss_pred             HHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCH
Q 043490          289 LKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRI  366 (589)
Q Consensus       289 i~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  366 (589)
                      +..|.+.|++++|.++|+++ ...| +..+|..++.++.+.|++++|.++|+.+.+.  .+.+..+|..++.+|.+.|++
T Consensus       380 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~  457 (597)
T 2xpi_A          380 GIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARL--FQGTHLPYLFLGMQHMQLGNI  457 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT--TTTCSHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCCH
Confidence            99999999999999999999 6666 4679999999999999999999999999753  244788999999999999999


Q ss_pred             HHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc------CCCC-hhHHHHHHHHhhhcCChHHHHH
Q 043490          367 LEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQL------EPGD-SLGFVQMSNIYCLSGSFNKARL  437 (589)
Q Consensus       367 ~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~------~p~~-~~~~~~l~~~~~~~g~~~~a~~  437 (589)
                      ++|.++|+++ ...| +..+|+.++..|.+.|++++|.+.++++.+.      +|++ ..+|..++.+|.+.|++++|.+
T Consensus       458 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~  537 (597)
T 2xpi_A          458 LLANEYLQSSYALFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAID  537 (597)
T ss_dssp             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHH
Confidence            9999999998 3333 6899999999999999999999999999887      5543 6789999999999999999999


Q ss_pred             HHHHHhcCC
Q 043490          438 IRKEMKGSR  446 (589)
Q Consensus       438 ~~~~m~~~~  446 (589)
                      +++++.+.+
T Consensus       538 ~~~~~~~~~  546 (597)
T 2xpi_A          538 ALNQGLLLS  546 (597)
T ss_dssp             HHHHHHHHS
T ss_pred             HHHHHHHhC
Confidence            999998765

>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=3.7e-26  Score=232.00  Aligned_cols=370  Identities=14%  Similarity=0.092  Sum_probs=319.3

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC---CCcchHHHHHHHHHhCC
Q 043490           11 LFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK---RNVVSWTALISGYAQHG   87 (589)
Q Consensus        11 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g   87 (589)
                      +...+.+.|++++|.+.+..+.+..|   .+...+..+...+...|++++|...++...+   .+..+|+.+...|.+.|
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~p---~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g   81 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQEP---DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERG   81 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCC
Confidence            34567789999999999999988766   7788888899999999999999999987653   46778999999999999


Q ss_pred             ChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCC-
Q 043490           88 NAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEF-  165 (589)
Q Consensus        88 ~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~-  165 (589)
                      ++++|+..|+++.+.                               .+.+...+..+...|.+ |++++|.+.|+++.+ 
T Consensus        82 ~~~~A~~~~~~al~~-------------------------------~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  130 (388)
T 1w3b_A           82 QLQEAIEHYRHALRL-------------------------------KPDFIDGYINLAAALVAAGDMEGAVQAYVSALQY  130 (388)
T ss_dssp             CHHHHHHHHHHHHHH-------------------------------CTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHc-------------------------------CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999999998764                               12334568888899999 999999999998763 


Q ss_pred             -CC-hhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHH
Q 043490          166 -RN-VISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIA  243 (589)
Q Consensus       166 -~~-~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~  243 (589)
                       |+ ...+..+...+             ...|++++|.+.|+++.... +.+..+|..+...+...|+++.|...++.++
T Consensus       131 ~p~~~~~~~~l~~~~-------------~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  196 (388)
T 1w3b_A          131 NPDLYCVRSDLGNLL-------------KALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAV  196 (388)
T ss_dssp             CTTCTHHHHHHHHHH-------------HTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHH-------------HHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence             44 45677777777             88899999999999998753 3357889999999999999999999999999


Q ss_pred             HhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHH
Q 043490          244 KYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFV  318 (589)
Q Consensus       244 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~  318 (589)
                      +.. +.+...+..+...+...|++++|...|++..   ..+..+|..+...|...|++++|++.|+++ ...|+ ..++.
T Consensus       197 ~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  275 (388)
T 1w3b_A          197 TLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYC  275 (388)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHH
T ss_pred             hcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHH
Confidence            886 6678889999999999999999999999775   346789999999999999999999999999 66664 66899


Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcC
Q 043490          319 SLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHG  396 (589)
Q Consensus       319 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g  396 (589)
                      .+..++.+.|++++|.+.|+.+.+..  +.+..++..+...|.+.|++++|.+.++++ ...|+ ..+|..+...+.+.|
T Consensus       276 ~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g  353 (388)
T 1w3b_A          276 NLANALKEKGSVAEAEDCYNTALRLC--PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQG  353 (388)
T ss_dssp             HHHHHHHHHSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcC
Confidence            99999999999999999999987642  446778999999999999999999999988 55565 889999999999999


Q ss_pred             CHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCC
Q 043490          397 ETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGS  431 (589)
Q Consensus       397 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  431 (589)
                      ++++|...++++.+..|.++.+|..+..+|.+.|+
T Consensus       354 ~~~~A~~~~~~a~~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          354 KLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             CCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHhhCCCCHHHHHhHHHHHHHccC
Confidence            99999999999999999999999999988877664

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.96  E-value=4.7e-28  Score=251.27  Aligned_cols=195  Identities=11%  Similarity=0.122  Sum_probs=172.7

Q ss_pred             HHHHHHhhCCCC-----ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCc
Q 043490          155 EAWKVFENMEFR-----NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGL  229 (589)
Q Consensus       155 ~A~~lf~~m~~~-----~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  229 (589)
                      .+..+++.+.++     ....++.+|.+|             ++.|+.++|+++|++|.+.|++||..||+++|.+|++.
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c-------------~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~   74 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMC-------------SKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLA   74 (501)
T ss_dssp             ----------------CHHHHHHHHHHHT-------------TTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHH-------------HhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhC
Confidence            344555555432     234688899999             99999999999999999999999999999999999865


Q ss_pred             C---------cHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC----CCChhHHHHHHHHHHHcC
Q 043490          230 V---------TERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT----YHDLVSWNSILKAYALHG  296 (589)
Q Consensus       230 ~---------~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g  296 (589)
                      +         +++.|.++|++|.+.|+.||..+||+||.+|++.|++++|.++|++|.    .||..+||++|.+|++.|
T Consensus        75 ~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g  154 (501)
T 4g26_A           75 EAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKG  154 (501)
T ss_dssp             CCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTT
T ss_pred             CchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCC
Confidence            4         478999999999999999999999999999999999999999999997    689999999999999999


Q ss_pred             CHHHHHHHHHhC---CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhc
Q 043490          297 QAKEALQLFSNM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRV  363 (589)
Q Consensus       297 ~~~~A~~~~~~m---~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~  363 (589)
                      +.++|.++|++|   |+.||..||++||.+|++.|++++|.+++++|.+ .+..|+..||+.++..|...
T Consensus       155 ~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~-~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          155 DADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRD-LVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             CHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-HTSSBCHHHHHHHHHHHHSH
T ss_pred             CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHH-hCCCcCHHHHHHHHHHHhcC
Confidence            999999999999   9999999999999999999999999999999955 59999999999999998764

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.95  E-value=2.7e-27  Score=245.55  Aligned_cols=196  Identities=13%  Similarity=0.146  Sum_probs=168.3

Q ss_pred             HHHHHHHHHHHcCCCCCH-HHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCC---------HH
Q 043490          199 EALFLFRQLQREGMAPDW-CTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGS---------IS  268 (589)
Q Consensus       199 ~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~---------~~  268 (589)
                      .+..+.+++.+.++.+.+ ..++.+|.+|++.|++++|.++|++|.+.|++||..+||+||.+|++.+.         ++
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~   87 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLS   87 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHH
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHH
Confidence            445666777777766554 46889999999999999999999999999999999999999999998765         78


Q ss_pred             HHHHHHhhcC----CCChhHHHHHHHHHHHcCCHHHHHHHHHhC---CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhH
Q 043490          269 LSKQVFDKMT----YHDLVSWNSILKAYALHGQAKEALQLFSNM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSML  341 (589)
Q Consensus       269 ~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  341 (589)
                      .|.++|++|.    .||..+||+||.+|++.|++++|.++|++|   |+.||..||+.+|.+|++.|++++|.++|++|.
T Consensus        88 ~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~  167 (501)
T 4g26_A           88 RGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMV  167 (501)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHH
Confidence            8999999997    689999999999999999999999999999   999999999999999999999999999999996


Q ss_pred             HhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC---CCCCCHHHHHHHHHHHHHc
Q 043490          342 ENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM---PMEPDSVIWSVLLGSCRKH  395 (589)
Q Consensus       342 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~p~~~~~~~ll~~~~~~  395 (589)
                      + .|+.||..+|++||++|++.|++++|.++|++|   +..|+..||+.++..|...
T Consensus       168 ~-~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          168 E-SEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             H-TTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             h-cCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            5 499999999999999999999999999999999   8899999999999988764

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.95  E-value=1.1e-24  Score=221.09  Aligned_cols=348  Identities=16%  Similarity=0.108  Sum_probs=302.7

Q ss_pred             HHHHHHhcCChHHHHHHHhcCC--CC-CcchHHHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHH
Q 043490           48 LINMYAKFGYLDDARHLFDEMP--KR-NVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKL  124 (589)
Q Consensus        48 li~~~~~~g~~~~A~~~f~~m~--~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~  124 (589)
                      +...+.+.|++++|.+.++++.  .| +...+..+...+.+.|++++|...++...+.                      
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~----------------------   62 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQ----------------------   62 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----------------------
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc----------------------
Confidence            4556778999999999998765  34 4556777778889999999999998877653                      


Q ss_pred             HHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCC--CC-ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHH
Q 043490          125 VHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENME--FR-NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEA  200 (589)
Q Consensus       125 ~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A  200 (589)
                               .+.+...+..+...|.+ |++++|...|+++.  .| +..+|..+...+             .+.|++++|
T Consensus        63 ---------~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~-------------~~~g~~~~A  120 (388)
T 1w3b_A           63 ---------NPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAAL-------------VAAGDMEGA  120 (388)
T ss_dssp             ---------CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH-------------HHHSCSSHH
T ss_pred             ---------CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCcchHHHHHHHHHHH-------------HHcCCHHHH
Confidence                     24567788999999999 99999999999875  34 456799999999             999999999


Q ss_pred             HHHHHHHHHcCCCCC-HHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC-
Q 043490          201 LFLFRQLQREGMAPD-WCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT-  278 (589)
Q Consensus       201 ~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-  278 (589)
                      ++.|+++.+..  |+ ...+..+...+...|++++|.+.+..+++.. +.+..++..+...|.+.|++++|...|+++. 
T Consensus       121 ~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  197 (388)
T 1w3b_A          121 VQAYVSALQYN--PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVT  197 (388)
T ss_dssp             HHHHHHHHHHC--TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC--CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            99999998753  44 4566777888899999999999999999875 6678899999999999999999999999987 


Q ss_pred             --CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchH
Q 043490          279 --YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHY  353 (589)
Q Consensus       279 --~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~  353 (589)
                        ..+...|..+...+...|++++|+..|++. ...|+ ..++..+..++...|++++|.+.|+.+.+.   .| +...|
T Consensus       198 ~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~  274 (388)
T 1w3b_A          198 LDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL---QPHFPDAY  274 (388)
T ss_dssp             HCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---CSSCHHHH
T ss_pred             cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CCCCHHHH
Confidence              345678999999999999999999999999 77775 678899999999999999999999998753   34 46689


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCC
Q 043490          354 ACMVDLLGRVGRILEAEKLIREM-PME-PDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGS  431 (589)
Q Consensus       354 ~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  431 (589)
                      ..+...|.+.|++++|.+.|+++ ... ++..+|..+...+...|++++|...++++.+..|++..++..++.+|.+.|+
T Consensus       275 ~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~  354 (388)
T 1w3b_A          275 CNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGK  354 (388)
T ss_dssp             HHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCC
Confidence            99999999999999999999998 333 4689999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHhcC
Q 043490          432 FNKARLIRKEMKGS  445 (589)
Q Consensus       432 ~~~a~~~~~~m~~~  445 (589)
                      +++|...++++.+.
T Consensus       355 ~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          355 LQEALMHYKEAIRI  368 (388)
T ss_dssp             CHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999999864

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.91  E-value=1.4e-22  Score=209.63  Aligned_cols=344  Identities=12%  Similarity=0.060  Sum_probs=238.0

Q ss_pred             HHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC---CCcchHHHHHHHHHhCCChhHHHHHHHHHH
Q 043490           24 AMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK---RNVVSWTALISGYAQHGNAEECFRLFCSLL  100 (589)
Q Consensus        24 a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  100 (589)
                      +...+..+....|   .+...+..+...|.+.|++++|+.+|+++.+   .+..+|..+...|.+.|++++|+..|+++.
T Consensus        11 ~~~~~~~~~~~~p---~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al   87 (450)
T 2y4t_A           11 VDLGTENLYFQSM---ADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVI   87 (450)
T ss_dssp             ------------C---HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccccccccccccH---HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            3344444444334   5667777777777777777777777776542   356677777777777777777777777766


Q ss_pred             hccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCC--C-Ch---hHHHH
Q 043490          101 QYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEF--R-NV---ISWNS  173 (589)
Q Consensus       101 ~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~--~-~~---~~~~~  173 (589)
                      +.                               -+.+..++..+..+|.+ |++++|...|+++.+  | +.   ..|..
T Consensus        88 ~~-------------------------------~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  136 (450)
T 2y4t_A           88 QL-------------------------------KMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQ  136 (450)
T ss_dssp             HH-------------------------------CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHH
T ss_pred             hc-------------------------------CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHH
Confidence            53                               12234455556666666 666666666666543  2 22   44444


Q ss_pred             HHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHH
Q 043490          174 MIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVI  253 (589)
Q Consensus       174 li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~  253 (589)
                      ++..+...+                                    +..+...+...|+++.|...+..+.+.. +.+..+
T Consensus       137 l~~~~~~~~------------------------------------~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  179 (450)
T 2y4t_A          137 LIKSDEMQR------------------------------------LRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAEL  179 (450)
T ss_dssp             HHHHHHHHH------------------------------------HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHHHH------------------------------------HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHH
Confidence            444431111                                    1111223445566666666666666554 556677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHH-HHHH--------
Q 043490          254 ANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDSAT-FVSL--------  320 (589)
Q Consensus       254 ~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t-~~~l--------  320 (589)
                      +..++.+|.+.|++++|...|+++.   ..+..+|..+...|...|++++|+..|+++ ...|+... +..+        
T Consensus       180 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~  259 (450)
T 2y4t_A          180 RELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNK  259 (450)
T ss_dssp             HHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHH
Confidence            7778888888888888888887765   356778888888888888888888888888 66665443 3333        


Q ss_pred             ----HHHHhccCcHHHHHHHHHHhHHhcCCccC-----cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHH
Q 043490          321 ----LSACSHAGLVQEGNKVFHSMLENHGVVPQ-----LDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLL  389 (589)
Q Consensus       321 ----l~a~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll  389 (589)
                          ..++.+.|++++|.+.|+.+.+.   .|+     ..+|..+..++.+.|++++|++.++++ ...| +..+|..+.
T Consensus       260 ~~~~~~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~  336 (450)
T 2y4t_A          260 LIESAEELIRDGRYTDATSKYESVMKT---EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPDNVNALKDRA  336 (450)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHH
Confidence                77888999999999999998764   454     347889999999999999999999987 4455 589999999


Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHH------------HHhhhcC-----ChHHHHHHHHH
Q 043490          390 GSCRKHGETRLAELAATKLKQLEPGDSLGFVQMS------------NIYCLSG-----SFNKARLIRKE  441 (589)
Q Consensus       390 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~------------~~~~~~g-----~~~~a~~~~~~  441 (589)
                      .+|...|++++|...++++.+++|.++.++..+.            +.|...|     +.+++.+.+++
T Consensus       337 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~  405 (450)
T 2y4t_A          337 EAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRK  405 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHH
Confidence            9999999999999999999999999999999888            4466666     55666777765

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.91  E-value=6.3e-22  Score=208.33  Aligned_cols=421  Identities=9%  Similarity=-0.079  Sum_probs=314.2

Q ss_pred             hhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-CcchHHHHHH
Q 043490            5 TQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--R-NVVSWTALIS   81 (589)
Q Consensus         5 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~   81 (589)
                      ...+......+.+.|++++|...|+.+++. .   |++.++..+...|.+.|++++|...|+++.+  | +..+|..+..
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~-~---p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~   81 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALEL-K---EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRAS   81 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHH-C---CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhc-C---ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHH
Confidence            456777888899999999999999999987 2   6889999999999999999999999998753  4 5678999999


Q ss_pred             HHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhc----hhhHHHHHHHHHHhcCCCchhHHHH---HHHHHhc-CCH
Q 043490           82 GYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCD----YLHGKLVHALALKFSLDAHVYVANA---LINMYSK-SCA  153 (589)
Q Consensus        82 ~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~----~~~~~~~~~~~~~~g~~~~~~~~~~---li~~y~~-g~~  153 (589)
                      +|.+.|++++|+..|+++.....++.......+..+.    ........+.+...+..|+....+.   ....... ...
T Consensus        82 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (514)
T 2gw1_A           82 ANEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSV  161 (514)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCH
T ss_pred             HHHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchh
Confidence            9999999999999999998773334444433333322    1111111100000000011000000   0001111 112


Q ss_pred             HHHHHHHhhCC---------CC-ChhHHHHHHHHHHcCCcHHHHHHHHH---HcCCHHHHHHHHHHHHH-----cCC---
Q 043490          154 DEAWKVFENME---------FR-NVISWNSMIAAFRACKLEAQAIELFA---KMKNEEEALFLFRQLQR-----EGM---  212 (589)
Q Consensus       154 ~~A~~lf~~m~---------~~-~~~~~~~li~~~~~~g~~~~a~~~~~---~~g~~~~A~~~~~~m~~-----~g~---  212 (589)
                      ..+...+....         .| +...|......+             .   +.|++++|+..|+++..     ...   
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  228 (514)
T 2gw1_A          162 TSMASFFGIFKPELTFANYDESNEADKELMNGLSN-------------LYKRSPESYDKADESFTKAARLFEEQLDKNNE  228 (514)
T ss_dssp             HHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHH-------------HSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTT
T ss_pred             HHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHH-------------HHhhhhccHHHHHHHHHHHHHHhhhhhccCcc
Confidence            22222222221         12 133343333333             3   37888888888888877     311   


Q ss_pred             -----CCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhH
Q 043490          213 -----APDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVS  284 (589)
Q Consensus       213 -----~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~  284 (589)
                           +.+..++..+...+...|+++.|...+..+.+..-.  ..++..+...|...|++++|...|+++.   ..+...
T Consensus       229 ~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  306 (514)
T 2gw1_A          229 DEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSV  306 (514)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHH
T ss_pred             ccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHH
Confidence                 223467778888899999999999999999988633  8889999999999999999999999876   346778


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhh
Q 043490          285 WNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGR  362 (589)
Q Consensus       285 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~  362 (589)
                      |..+...|...|++++|+..|++. ...| +..++..+...+...|++++|.+.++.+.+..  +.+...+..+...|.+
T Consensus       307 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~  384 (514)
T 2gw1_A          307 YYHRGQMNFILQNYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF--PEAPEVPNFFAEILTD  384 (514)
T ss_dssp             HHHHHHHHHHTTCTTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS--TTCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc--ccCHHHHHHHHHHHHH
Confidence            999999999999999999999999 5555 46788889999999999999999999987642  2356788999999999


Q ss_pred             cCCHHHHHHHHHhC----CCCCC----HHHHHHHHHHHHH---cCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCC
Q 043490          363 VGRILEAEKLIREM----PMEPD----SVIWSVLLGSCRK---HGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGS  431 (589)
Q Consensus       363 ~g~~~~A~~~~~~m----~~~p~----~~~~~~ll~~~~~---~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  431 (589)
                      .|++++|...++++    +-.|+    ...|..+...+..   .|++++|...++++.+..|.++.++..++.+|.+.|+
T Consensus       385 ~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~  464 (514)
T 2gw1_A          385 KNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQED  464 (514)
T ss_dssp             TTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             CCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcC
Confidence            99999999999987    22233    4589999999999   9999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHhcCC
Q 043490          432 FNKARLIRKEMKGSR  446 (589)
Q Consensus       432 ~~~a~~~~~~m~~~~  446 (589)
                      +++|...+++..+.+
T Consensus       465 ~~~A~~~~~~a~~~~  479 (514)
T 2gw1_A          465 IDEAITLFEESADLA  479 (514)
T ss_dssp             HHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhc
Confidence            999999999987644

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.90  E-value=4.7e-21  Score=198.22  Aligned_cols=370  Identities=11%  Similarity=0.022  Sum_probs=222.9

Q ss_pred             ChhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC---CCcchHHHHH
Q 043490            4 STQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK---RNVVSWTALI   80 (589)
Q Consensus         4 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li   80 (589)
                      ++.++..+...+.+.|++++|..+|+.+++..|   .+..++..+...|...|++++|...|+++.+   .+..+|..+.
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p---~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~  101 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDP---DNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRG  101 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC---ccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHH
Confidence            456788899999999999999999999998766   7899999999999999999999999998763   3577899999


Q ss_pred             HHHHhCCChhHHHHHHHHHHhccCCCce----eHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHH
Q 043490           81 SGYAQHGNAEECFRLFCSLLQYFFPNEF----SLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADE  155 (589)
Q Consensus        81 ~~~~~~g~~~~A~~~~~~m~~~~~p~~~----t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~  155 (589)
                      ..|.+.|++++|+..|+++.+. .|+..    .+..+....                   ....+..+...|.+ |++++
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~~~l~~~~-------------------~~~~~~~~a~~~~~~~~~~~  161 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKS-NPSENEEKEAQSQLIKSD-------------------EMQRLRSQALNAFGSGDYTA  161 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTS-CCCHHHHHHHHHHHHHHH-------------------HHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhc-CCCChhhHHHHHHHHHHH-------------------HHHHHHHHHHHHHHcCCHHH
Confidence            9999999999999999999875 23221    111111100                   00011122333555 66666


Q ss_pred             HHHHHhhCCC---CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcH
Q 043490          156 AWKVFENMEF---RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTE  232 (589)
Q Consensus       156 A~~lf~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~  232 (589)
                      |...|+++.+   .+...|..+...|             .+.|++++|++.|+++.+.. +.+..++..+...+...|++
T Consensus       162 A~~~~~~~~~~~~~~~~~~~~l~~~~-------------~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~  227 (450)
T 2y4t_A          162 AIAFLDKILEVCVWDAELRELRAECF-------------IKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDH  227 (450)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHH-------------HHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHH-------------HHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            6666655431   2445555555555             55666666666666555432 23445555555555555555


Q ss_pred             HHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCC
Q 043490          233 RHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQ  311 (589)
Q Consensus       233 ~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~  311 (589)
                      +.|...++.+.+.. +.+...+..+...    +               ....+..+...+...|++++|++.|+++ ...
T Consensus       228 ~~A~~~~~~~~~~~-p~~~~~~~~~~~~----~---------------~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~  287 (450)
T 2y4t_A          228 ELSLSEVRECLKLD-QDHKRCFAHYKQV----K---------------KLNKLIESAEELIRDGRYTDATSKYESVMKTE  287 (450)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHH----H---------------HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhC-CChHHHHHHHHHH----H---------------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            55555555555442 2222222222000    0               0001112255666666666666666666 444


Q ss_pred             CC-----HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HH
Q 043490          312 PD-----SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SV  383 (589)
Q Consensus       312 p~-----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~  383 (589)
                      |+     ...+..+..++.+.|++++|.+.++.+.+.   .| +...|..+..+|...|++++|.+.++++ ...|+ ..
T Consensus       288 p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~---~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~  364 (450)
T 2y4t_A          288 PSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQM---EPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQ  364 (450)
T ss_dssp             CSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHH
T ss_pred             CcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHH
Confidence            44     234555666666666666666666666543   23 4456666666666667777777666666 44554 44


Q ss_pred             HHHHHHHH------------HHHcC-----CHHHHHHHHHH-HhhcCCCCh----------hHHHHHHHHhhhcCChH
Q 043490          384 IWSVLLGS------------CRKHG-----ETRLAELAATK-LKQLEPGDS----------LGFVQMSNIYCLSGSFN  433 (589)
Q Consensus       384 ~~~~ll~~------------~~~~g-----~~~~a~~~~~~-~~~~~p~~~----------~~~~~l~~~~~~~g~~~  433 (589)
                      .+..+..+            |...|     +.+++.+.+++ ..+..|++.          ..+..+..+|...|+.+
T Consensus       365 ~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l~~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~~  442 (450)
T 2y4t_A          365 IREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPE  442 (450)
T ss_dssp             HHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHHHHHHSCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGGG
T ss_pred             HHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHHHHHHhCCCCCCCchHHHHHHHHHHHHHHHHHHhCCHH
Confidence            44444422            22223     55677777776 566666431          13445555555555543

>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=99.90  E-value=5.9e-21  Score=202.22  Aligned_cols=427  Identities=10%  Similarity=-0.028  Sum_probs=319.2

Q ss_pred             hhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC---CCcchHHHHHH
Q 043490            5 TQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK---RNVVSWTALIS   81 (589)
Q Consensus         5 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~   81 (589)
                      ...|..+...+.+.|++++|...|+.+++..|   .++.++..+...|.+.|++++|.+.|+++.+   .+..+|..+..
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p---~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~  101 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELDP---NEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRAS  101 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCT---TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCC---CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHH
Confidence            35677888899999999999999999999877   8899999999999999999999999998753   36778999999


Q ss_pred             HHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhc--CCCchhHHHHHHHHHhc-CCHHHHHH
Q 043490           82 GYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFS--LDAHVYVANALINMYSK-SCADEAWK  158 (589)
Q Consensus        82 ~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g--~~~~~~~~~~li~~y~~-g~~~~A~~  158 (589)
                      .|.+.|++++|+..|+.+.....+........+.......+...+..++...  ..+........+..|.. .+.+.+..
T Consensus       102 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (537)
T 3fp2_A          102 ANESLGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVS  181 (537)
T ss_dssp             HHHHHTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHH
Confidence            9999999999999997443222222222222222222344444444443221  01111112233444555 77777777


Q ss_pred             HHhhCCCCChh---HHHHHHHHHHcC-CcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC--------HHHHHHHHHHH
Q 043490          159 VFENMEFRNVI---SWNSMIAAFRAC-KLEAQAIELFAKMKNEEEALFLFRQLQREGMAPD--------WCTFSIVLKAC  226 (589)
Q Consensus       159 lf~~m~~~~~~---~~~~li~~~~~~-g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~--------~~t~~~ll~a~  226 (589)
                      .+......+..   .+..+...+... +++.      ...|++++|+.+|+++.+..  |+        ..++..+...+
T Consensus       182 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~------~a~~~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~~g~~~  253 (537)
T 3fp2_A          182 SVNTSSNYDTAYALLSDALQRLYSATDEGYL------VANDLLTKSTDMYHSLLSAN--TVDDPLRENAALALCYTGIFH  253 (537)
T ss_dssp             TSCCCCSSCSSHHHHHHHHHHHHTCSHHHHH------HHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhccccccHHHHHHHHHHHHHHhhhhhhH------HHHHHHHHHHHHHHHHHHHC--CCcchhhHHHHHHHHHHHHHH
Confidence            77766654433   333333333111 1111      23467899999999998753  43        23466666778


Q ss_pred             hCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHH
Q 043490          227 AGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQ  303 (589)
Q Consensus       227 ~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~  303 (589)
                      ...|+++.|...+..+.+..  |+..++..+...|...|++++|...|+++.   ..+..+|..+...|...|++++|++
T Consensus       254 ~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  331 (537)
T 3fp2_A          254 FLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKE  331 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHH
Confidence            88999999999999999875  558889999999999999999999999876   4567899999999999999999999


Q ss_pred             HHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC----C
Q 043490          304 LFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM----P  377 (589)
Q Consensus       304 ~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m----~  377 (589)
                      .|++. ...|+ ..++..+...+...|++++|.+.++.+.+..  +.+...+..+...|.+.|++++|.+.|+++    +
T Consensus       332 ~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~  409 (537)
T 3fp2_A          332 DFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF--PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEE  409 (537)
T ss_dssp             HHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCC
Confidence            99999 55564 5688889999999999999999999987652  335668899999999999999999999987    1


Q ss_pred             CC----CCHHHHHHHHHHHHHc----------CCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          378 ME----PDSVIWSVLLGSCRKH----------GETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       378 ~~----p~~~~~~~ll~~~~~~----------g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      ..    .....+..+...+...          |++++|...++++.+..|.+..++..++.+|.+.|++++|.+.+++..
T Consensus       410 ~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  489 (537)
T 3fp2_A          410 VQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSA  489 (537)
T ss_dssp             HCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            11    1233455556777777          999999999999999999999999999999999999999999999987


Q ss_pred             cCC
Q 043490          444 GSR  446 (589)
Q Consensus       444 ~~~  446 (589)
                      +..
T Consensus       490 ~~~  492 (537)
T 3fp2_A          490 ILA  492 (537)
T ss_dssp             HHC
T ss_pred             HhC
Confidence            654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.88  E-value=1.8e-20  Score=197.22  Aligned_cols=402  Identities=11%  Similarity=0.011  Sum_probs=296.3

Q ss_pred             CCChhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC---CCcchHHH
Q 043490            2 LHSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK---RNVVSWTA   78 (589)
Q Consensus         2 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~   78 (589)
                      .|++.+|..+..++...|++++|.+.++.+++..|   .+..++..+..+|.+.|++++|...|+++..   ++......
T Consensus        36 ~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  112 (514)
T 2gw1_A           36 KEDPVFYSNLSACYVSVGDLKKVVEMSTKALELKP---DYSKVLLRRASANEGLGKFADAMFDLSVLSLNGDFNDASIEP  112 (514)
T ss_dssp             CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCS---CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSCCGGGTHH
T ss_pred             CccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccCh---HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCccchHHH
Confidence            37889999999999999999999999999998877   7889999999999999999999999998753   34445555


Q ss_pred             HHHHHHhCCChhHHHHHHHHHHhc-cCCCceeHHHHHHHhc----hhhHHHHHHHHHHhcC---------CCchhHHHHH
Q 043490           79 LISGYAQHGNAEECFRLFCSLLQY-FFPNEFSLASVLISCD----YLHGKLVHALALKFSL---------DAHVYVANAL  144 (589)
Q Consensus        79 li~~~~~~g~~~~A~~~~~~m~~~-~~p~~~t~~~~l~a~~----~~~~~~~~~~~~~~g~---------~~~~~~~~~l  144 (589)
                      ++..+.+......+.+.+..+... ..|+...+..-.....    ......+.........         +.+...+..+
T Consensus       113 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  192 (514)
T 2gw1_A          113 MLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMN  192 (514)
T ss_dssp             HHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHH
Confidence            555554433333333333222211 1111111111000000    0000111111111111         1112222222


Q ss_pred             HH-HH--hc-CCHHHHHHHHhhCCC----------------C-ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHH
Q 043490          145 IN-MY--SK-SCADEAWKVFENMEF----------------R-NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFL  203 (589)
Q Consensus       145 i~-~y--~~-g~~~~A~~lf~~m~~----------------~-~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~  203 (589)
                      .. .+  .+ |++++|...|+++.+                | +..+|..+...+             ...|++++|+..
T Consensus       193 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~A~~~  259 (514)
T 2gw1_A          193 GLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFK-------------FLKNDPLGAHED  259 (514)
T ss_dssp             HHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHH-------------HHSSCHHHHHHH
T ss_pred             HHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHH-------------HHCCCHHHHHHH
Confidence            22 22  25 999999999987644                1 345677777788             899999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CC
Q 043490          204 FRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YH  280 (589)
Q Consensus       204 ~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~  280 (589)
                      |+++....  |+...+..+...+...|+++.|...+..+.+.. +.+..++..+...|.+.|++++|...|+++.   ..
T Consensus       260 ~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  336 (514)
T 2gw1_A          260 IKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPE  336 (514)
T ss_dssp             HHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSS
T ss_pred             HHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChh
Confidence            99998865  448888899999999999999999999998875 5678889999999999999999999999875   44


Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccC----cchHH
Q 043490          281 DLVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ----LDHYA  354 (589)
Q Consensus       281 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~  354 (589)
                      +..+|..+...|...|++++|+..|+++ ...| +..++..+...+...|++++|.+.++.+.+...-.++    ...+.
T Consensus       337 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  416 (514)
T 2gw1_A          337 NIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLV  416 (514)
T ss_dssp             CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHH
Confidence            6789999999999999999999999999 5555 4678888999999999999999999988754322222    33889


Q ss_pred             HHHHHHhh---cCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHH
Q 043490          355 CMVDLLGR---VGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQM  422 (589)
Q Consensus       355 ~li~~~~~---~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  422 (589)
                      .+...|.+   .|++++|.+.++++ ...| +..+|..+...+...|++++|...++++.++.|.++..+..+
T Consensus       417 ~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  489 (514)
T 2gw1_A          417 GKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLARTMEEKLQAI  489 (514)
T ss_dssp             HHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSHHHHHHHH
T ss_pred             HHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccccHHHHHHH
Confidence            99999999   99999999999988 3345 488899999999999999999999999999999887766655

>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=4.5e-19  Score=187.66  Aligned_cols=394  Identities=12%  Similarity=0.047  Sum_probs=293.5

Q ss_pred             CChhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHHHHHH
Q 043490            3 HSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISG   82 (589)
Q Consensus         3 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~   82 (589)
                      .++.+|..+...+.+.|++++|.+.++.+++..|   .+..++..+...|...|++++|...|+.+. .+....+..+..
T Consensus        57 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p---~~~~~~~~la~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~  132 (537)
T 3fp2_A           57 NEPVFYSNISACYISTGDLEKVIEFTTKALEIKP---DHSKALLRRASANESLGNFTDAMFDLSVLS-LNGDFDGASIEP  132 (537)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHHTCHHHHHHHHHHHC------------C
T ss_pred             CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC---chHHHHHHHHHHHHHcCCHHHHHHHHHHHh-cCCCCChHHHHH
Confidence            4677889999999999999999999999998877   788999999999999999999999997443 233333444556


Q ss_pred             HHhCCChhHHHHHHHHHHhc-------cCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCch---hHHHHHHHHHhc--
Q 043490           83 YAQHGNAEECFRLFCSLLQY-------FFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHV---YVANALINMYSK--  150 (589)
Q Consensus        83 ~~~~g~~~~A~~~~~~m~~~-------~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~---~~~~~li~~y~~--  150 (589)
                      +...+...+|+..++.+...       ..|+...+...+.........   .. .......+.   .....+...+..  
T Consensus       133 ~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~-~~~~~~~~~~~~~~~~~l~~~~~~~~  208 (537)
T 3fp2_A          133 MLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEV---SS-VNTSSNYDTAYALLSDALQRLYSATD  208 (537)
T ss_dssp             HHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHH---HT-SCCCCSSCSSHHHHHHHHHHHHTCSH
T ss_pred             HHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHH---HH-HhhccccccHHHHHHHHHHHHHHhhh
Confidence            66677778999999998653       234433333333222111100   00 011111121   144444444443  


Q ss_pred             -------CCHHHHHHHHhhCCC--C-ChhH-------HHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC
Q 043490          151 -------SCADEAWKVFENMEF--R-NVIS-------WNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMA  213 (589)
Q Consensus       151 -------g~~~~A~~lf~~m~~--~-~~~~-------~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~  213 (589)
                             |++++|..+|+++.+  | +...       |..+...+             ...|++++|+..|++....  .
T Consensus       209 ~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~-------------~~~~~~~~A~~~~~~~~~~--~  273 (537)
T 3fp2_A          209 EGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFH-------------FLKNNLLDAQVLLQESINL--H  273 (537)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHH-------------HHTTCHHHHHHHHHHHHHH--C
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHH-------------HhcccHHHHHHHHHHHHhc--C
Confidence                   378899999988764  3 3333       44444444             8899999999999999885  4


Q ss_pred             CCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHH
Q 043490          214 PDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILK  290 (589)
Q Consensus       214 p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~  290 (589)
                      |+...+..+...+...|+++.|...+..+.+.. +.+..++..+...|...|++++|...|+++.   ..+...|..+..
T Consensus       274 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~  352 (537)
T 3fp2_A          274 PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLAC  352 (537)
T ss_dssp             CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHH
T ss_pred             CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            668888899999999999999999999999886 6678899999999999999999999999886   346789999999


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCc----chHHHHHHHHhhc-
Q 043490          291 AYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQL----DHYACMVDLLGRV-  363 (589)
Q Consensus       291 ~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~----~~~~~li~~~~~~-  363 (589)
                      .|...|++++|++.|+++ ...|+ ...+..+...+...|++++|.+.|+.+.+...-.++.    ..+..+...|.+. 
T Consensus       353 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~  432 (537)
T 3fp2_A          353 LLYKQGKFTESEAFFNETKLKFPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQS  432 (537)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHh
Confidence            999999999999999999 55554 5688889999999999999999999986543211211    1234445677777 


Q ss_pred             ---------CCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHH
Q 043490          364 ---------GRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFV  420 (589)
Q Consensus       364 ---------g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  420 (589)
                               |++++|...|+++ ...| +..+|..+...+...|++++|...++++.++.|.+.....
T Consensus       433 ~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  500 (537)
T 3fp2_A          433 SQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTMDEKLQ  500 (537)
T ss_dssp             TC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CHHHHH
T ss_pred             hccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHH
Confidence                     9999999999988 3345 4888999999999999999999999999999997765543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.83  E-value=4.2e-18  Score=169.88  Aligned_cols=307  Identities=11%  Similarity=0.034  Sum_probs=227.2

Q ss_pred             CcchHHHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-
Q 043490           72 NVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-  150 (589)
Q Consensus        72 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-  150 (589)
                      |+..|..+...+.+.|++++|+..|+++.+.                               .+.+...+..+...|.. 
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~-------------------------------~p~~~~~~~~~a~~~~~~   50 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDG-------------------------------DPDNYIAYYRRATVFLAM   50 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------------------------------CTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-------------------------------CcccHHHHHHHHHHHHHc
Confidence            3456777888888999999999999888754                               12345667777788888 


Q ss_pred             CCHHHHHHHHhhCCC--C-ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC----CHHHHHHH-
Q 043490          151 SCADEAWKVFENMEF--R-NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAP----DWCTFSIV-  222 (589)
Q Consensus       151 g~~~~A~~lf~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p----~~~t~~~l-  222 (589)
                      |++++|...|++..+  | +...|..+...|             ...|++++|+..|++..+.  .|    +...+..+ 
T Consensus        51 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~-------------~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~  115 (359)
T 3ieg_A           51 GKSKAALPDLTKVIALKMDFTAARLQRGHLL-------------LKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLV  115 (359)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH-------------HHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhCCCcchHHHHHHHHH-------------HHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHH
Confidence            999999999988653  3 567788888888             8889999999999988874  34    33333333 


Q ss_pred             -----------HHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHH
Q 043490          223 -----------LKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSI  288 (589)
Q Consensus       223 -----------l~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l  288 (589)
                                 ...+...|+++.|...+..+.+.. +.+..++..+...|.+.|++++|...|+++.   ..+..+|..+
T Consensus       116 ~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  194 (359)
T 3ieg_A          116 KADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKI  194 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence                       466778888888888888888775 5677788888888888888888888888765   3466788888


Q ss_pred             HHHHHHcCCHHHHHHHHHhC-CCCCCHH-HHH------------HHHHHHhccCcHHHHHHHHHHhHHhcCCccCc----
Q 043490          289 LKAYALHGQAKEALQLFSNM-NVQPDSA-TFV------------SLLSACSHAGLVQEGNKVFHSMLENHGVVPQL----  350 (589)
Q Consensus       289 i~~~~~~g~~~~A~~~~~~m-~~~p~~~-t~~------------~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~----  350 (589)
                      ...|...|++++|...|++. ...|+.. ++.            .+...+...|++++|.+.++.+.+.   .|+.    
T Consensus       195 a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~  271 (359)
T 3ieg_A          195 STLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSVAEYT  271 (359)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCCchHHH
Confidence            88888888888888888888 5555432 222            2255577788888888888877654   2332    


Q ss_pred             -chHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhh
Q 043490          351 -DHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYC  427 (589)
Q Consensus       351 -~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  427 (589)
                       ..+..+...|.+.|++++|.+.+++. ...| +..+|..+...+...|++++|...++++.+++|++...+..+..++.
T Consensus       272 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~  351 (359)
T 3ieg_A          272 VRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQR  351 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Confidence             22445667777888888888888777 3344 47777788888888888888888888888888877777776666654


Q ss_pred             h
Q 043490          428 L  428 (589)
Q Consensus       428 ~  428 (589)
                      .
T Consensus       352 ~  352 (359)
T 3ieg_A          352 L  352 (359)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.82  E-value=2.7e-17  Score=163.99  Aligned_cols=292  Identities=12%  Similarity=0.052  Sum_probs=244.8

Q ss_pred             chhHHHHHHHHHhc-CCHHHHHHHHhhCCC---CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Q 043490          137 HVYVANALINMYSK-SCADEAWKVFENMEF---RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGM  212 (589)
Q Consensus       137 ~~~~~~~li~~y~~-g~~~~A~~lf~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~  212 (589)
                      ++..+..+...+.+ |++++|...|+++.+   .+...|..+...+             ...|++++|+..|+++.+.. 
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~-------------~~~~~~~~A~~~~~~~~~~~-   67 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVF-------------LAMGKSKAALPDLTKVIALK-   67 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH-------------HHHTCHHHHHHHHHHHHHHC-
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHH-------------HHccCHHHHHHHHHHHHHhC-
Confidence            34556677788888 999999999998753   4577888888888             99999999999999998763 


Q ss_pred             CCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCC---CcHHHHHHH------------HHHHHhcCCHHHHHHHHhhc
Q 043490          213 APDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFE---DDTVIANAL------------IHAYARCGSISLSKQVFDKM  277 (589)
Q Consensus       213 ~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~---~~~~~~~~l------------i~~~~~~g~~~~A~~~~~~~  277 (589)
                      +.+...+..+...+...|+++.|...+..+.+.. +   .+...+..+            ...+...|++++|...|+++
T Consensus        68 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~  146 (359)
T 3ieg_A           68 MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKI  146 (359)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            3366888999999999999999999999998764 3   355555555            58899999999999999987


Q ss_pred             C---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcc-
Q 043490          278 T---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLD-  351 (589)
Q Consensus       278 ~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~-  351 (589)
                      .   ..+...|..+...|...|++++|+..|+++ ...| +..++..+...+...|++++|.+.++...+.   .|+.. 
T Consensus       147 ~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~---~~~~~~  223 (359)
T 3ieg_A          147 LEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKL---DQDHKR  223 (359)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CTTCHH
T ss_pred             HHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CccchH
Confidence            6   457788999999999999999999999999 6666 5678889999999999999999999998754   34322 


Q ss_pred             hHH------------HHHHHHhhcCCHHHHHHHHHhC-CCCCC-H----HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCC
Q 043490          352 HYA------------CMVDLLGRVGRILEAEKLIREM-PMEPD-S----VIWSVLLGSCRKHGETRLAELAATKLKQLEP  413 (589)
Q Consensus       352 ~~~------------~li~~~~~~g~~~~A~~~~~~m-~~~p~-~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  413 (589)
                      .+.            .+...+.+.|++++|.+.++++ ...|+ .    ..+..+...+...|++++|...++++.+.+|
T Consensus       224 ~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~  303 (359)
T 3ieg_A          224 CFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEP  303 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCc
Confidence            222            2366789999999999999988 33344 3    3355677899999999999999999999999


Q ss_pred             CChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          414 GDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       414 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      .++.++..++.+|...|++++|...+++..+..
T Consensus       304 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~  336 (359)
T 3ieg_A          304 DNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHN  336 (359)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            999999999999999999999999999988754

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.80  E-value=2.4e-17  Score=162.44  Aligned_cols=285  Identities=13%  Similarity=0.045  Sum_probs=233.8

Q ss_pred             CCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCC---CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 043490          134 LDAHVYVANALINMYSK-SCADEAWKVFENMEF---RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQR  209 (589)
Q Consensus       134 ~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~  209 (589)
                      .+.+..++..+...+.. |++++|.++|+++.+   .+...+..++..+             ...|++++|+.+++++.+
T Consensus        18 ~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~-------------~~~~~~~~A~~~~~~~~~   84 (330)
T 3hym_B           18 LQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTL-------------VELNKANELFYLSHKLVD   84 (330)
T ss_dssp             --CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHH-------------HHHTCHHHHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHH-------------HHhhhHHHHHHHHHHHHH
Confidence            35566677778888888 999999999998753   3455667777777             888999999999999987


Q ss_pred             cCCCCCHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHH
Q 043490          210 EGMAPDWCTFSIVLKACAGLV-TERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSW  285 (589)
Q Consensus       210 ~g~~p~~~t~~~ll~a~~~~~-~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~  285 (589)
                      .. +.+...+..+...+...| +++.|.+.+..+.+.. +.+...+..+...|...|++++|...|+++.   ..+..+|
T Consensus        85 ~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~  162 (330)
T 3hym_B           85 LY-PSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPM  162 (330)
T ss_dssp             HC-TTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHH
T ss_pred             hC-cCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHH
Confidence            53 335677888888888889 9999999999998875 5567889999999999999999999999876   3456788


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCC-------ccCcchHHHH
Q 043490          286 NSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGV-------VPQLDHYACM  356 (589)
Q Consensus       286 ~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~-------~p~~~~~~~l  356 (589)
                      ..+...|...|++++|++.|++. ...|+ ..++..+...+...|++++|.+.++...+...-       ..+...+..+
T Consensus       163 ~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  242 (330)
T 3hym_B          163 LYIGLEYGLTNNSKLAERFFSQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNL  242 (330)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHH
Confidence            88999999999999999999999 66664 578888889999999999999999888654211       2345688899


Q ss_pred             HHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHh-hhcCChH
Q 043490          357 VDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIY-CLSGSFN  433 (589)
Q Consensus       357 i~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~~  433 (589)
                      ...|.+.|++++|.+.+++. ...| +...|..+...+...|++++|...++++.+.+|+++..+..+..++ ...|+.+
T Consensus       243 a~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          243 GHVCRKLKKYAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHhcCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCchh
Confidence            99999999999999999887 3334 4788889999999999999999999999999999999999999888 5556543

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.79  E-value=6.7e-18  Score=167.22  Aligned_cols=345  Identities=15%  Similarity=0.112  Sum_probs=171.7

Q ss_pred             ccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCChhHHHHHH
Q 043490           17 LHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLF   96 (589)
Q Consensus        17 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~   96 (589)
                      +.|++++|.+.++++        +++.+|..|..++.+.|++++|++.|.+.  +|...|..++.++...|++++|+..+
T Consensus        15 ~~~~ld~A~~fae~~--------~~~~vWs~La~A~l~~g~~~eAIdsfika--~D~~~y~~V~~~ae~~g~~EeAi~yl   84 (449)
T 1b89_A           15 HIGNLDRAYEFAERC--------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYL   84 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhC--------CChHHHHHHHHHHHHcCCHHHHHHHHHcC--CCHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            456788888888777        23347888888888888888888888654  56678888888888888888888866


Q ss_pred             HHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCCCChhHHHHHH
Q 043490           97 CSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEFRNVISWNSMI  175 (589)
Q Consensus        97 ~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~~~~~~~~~li  175 (589)
                      +..++.                                .+++.+.+.|+.+|.+ |+++++.++++.   |+..+|+.+.
T Consensus        85 ~~ark~--------------------------------~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IG  129 (449)
T 1b89_A           85 QMARKK--------------------------------ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVG  129 (449)
T ss_dssp             --------------------------------------------------------CHHHHTTTTTC---C---------
T ss_pred             HHHHHh--------------------------------CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHH
Confidence            655443                                4556778899999999 999999888864   7778999999


Q ss_pred             HHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHH
Q 043490          176 AAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIAN  255 (589)
Q Consensus       176 ~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~  255 (589)
                      ..|             ...|++++|..+|.++         ..|..+..++.+.|++++|.+.+..+      .++.+|.
T Consensus       130 d~~-------------~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk  181 (449)
T 1b89_A          130 DRC-------------YDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWK  181 (449)
T ss_dssp             --------------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHH
T ss_pred             HHH-------------HHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHH
Confidence            999             8888888888888766         37889999999999999999999887      3789999


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCH-HHHHHHHHHHh--ccCcHH
Q 043490          256 ALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDS-ATFVSLLSACS--HAGLVQ  331 (589)
Q Consensus       256 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-~t~~~ll~a~~--~~g~~~  331 (589)
                      .++.+|...|+++.|......+. .++.....++..|.+.|++++|+.+++.. +..|.. ..|+.+.-+++  +.+++.
T Consensus       182 ~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le~ah~~~ftel~il~~ky~p~k~~  260 (449)
T 1b89_A          182 EVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMR  260 (449)
T ss_dssp             HHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHhcCHHHHH
Confidence            99999999999999988877765 45555557899999999999999999999 777643 35555555554  456666


Q ss_pred             HHHHHHHHhHHhcCCcc------CcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 043490          332 EGNKVFHSMLENHGVVP------QLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAA  405 (589)
Q Consensus       332 ~a~~~~~~~~~~~~~~p------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~  405 (589)
                      +..+.|.   .+-+++|      +...|.-++-.|..-++++.|...+-+-+  |+..--..+.....+-.+.+.--++.
T Consensus       261 ehl~~~~---~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~tm~~h~--~~a~~~~~f~~~~~kv~n~elyYkai  335 (449)
T 1b89_A          261 EHLELFW---SRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHP--TDAWKEGQFKDIITKVANVELYYRAI  335 (449)
T ss_dssp             HHHHHHS---TTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHHST--TTTCCHHHHHHHHHHCSSTHHHHHHH
T ss_pred             HHHHHHH---HHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHhCC--hhhhhhHHHHHHHhchhHHHHHHHHH
Confidence            6666664   3336665      67899999999999999999988766552  22222223334445555555555555


Q ss_pred             HHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          406 TKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       406 ~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      .-.++..|   ...+.|+.++...=+...+.+++++..
T Consensus       336 ~fyl~~~p---~~l~~ll~~l~~~ld~~r~v~~~~~~~  370 (449)
T 1b89_A          336 QFYLEFKP---LLLNDLLMVLSPRLDHTRAVNYFSKVK  370 (449)
T ss_dssp             HHHHHHCG---GGHHHHHHHHGGGCCHHHHHHHHHHTT
T ss_pred             HHHHhcCH---HHHHHHHHHHHhccCcHHHHHHHHHcC
Confidence            44444444   456666666666666666666665543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.78  E-value=8.8e-16  Score=162.24  Aligned_cols=404  Identities=9%  Similarity=0.067  Sum_probs=280.5

Q ss_pred             ChhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--CCcchHHHHHH
Q 043490            4 STQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--RNVVSWTALIS   81 (589)
Q Consensus         4 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~~~~~~~~li~   81 (589)
                      |..+|..++.. .+.|++++|+.+++.+++.+|   .+...|..++..+.+.|++++|+++|++..+  |++..|...+.
T Consensus        12 ~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~~P---~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p~~~lw~~~~~   87 (530)
T 2ooe_A           12 DLDAWSILIRE-AQNQPIDKARKTYERLVAQFP---SSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVLHIDLWKCYLS   87 (530)
T ss_dssp             CHHHHHHHHHH-HHSSCHHHHHHHHHHHHTTCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCCCHHHHHHHHH
T ss_pred             CHHHHHHHHHH-HHhCCHHHHHHHHHHHHHHCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCChHHHHHHHH
Confidence            55677778874 678889999999999888777   7888888899998889999999999988764  67677777765


Q ss_pred             HH-HhCCChhHHHH----HHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCC-chhHHHHHHHHH-------
Q 043490           82 GY-AQHGNAEECFR----LFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDA-HVYVANALINMY-------  148 (589)
Q Consensus        82 ~~-~~~g~~~~A~~----~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~-~~~~~~~li~~y-------  148 (589)
                      .. ...|+.++|.+    +|+.....                             .|..| +...|...+...       
T Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~al~~-----------------------------~g~~~~~~~~w~~~~~~~~~~~~~~  138 (530)
T 2ooe_A           88 YVRETKGKLPSYKEKMAQAYDFALDK-----------------------------IGMEIMSYQIWVDYINFLKGVEAVG  138 (530)
T ss_dssp             HHHHHTTTSTTHHHHHHHHHHHHHHH-----------------------------TTTSTTCHHHHHHHHHHHHHSCCCS
T ss_pred             HHHHHccchhhHHHHHHHHHHHHHHH-----------------------------CCCCcccHHHHHHHHHHHhcCCCcc
Confidence            33 34677777665    44444332                             12222 234444444433       


Q ss_pred             --hc-CCHHHHHHHHhhCCC-CCh---hHHHHHHHHHHcCCcHHHHHHHH-HHcCCHHHHHHHHHHHH------HcC---
Q 043490          149 --SK-SCADEAWKVFENMEF-RNV---ISWNSMIAAFRACKLEAQAIELF-AKMKNEEEALFLFRQLQ------REG---  211 (589)
Q Consensus       149 --~~-g~~~~A~~lf~~m~~-~~~---~~~~~li~~~~~~g~~~~a~~~~-~~~g~~~~A~~~~~~m~------~~g---  211 (589)
                        .+ |+++.|+++|++... |+.   ..|.......-..|. ..+..++ .+.+++++|..++.++.      +..   
T Consensus       139 ~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~-~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~  217 (530)
T 2ooe_A          139 SYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINI-HLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPS  217 (530)
T ss_dssp             STTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCH-HHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCC
T ss_pred             cHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhch-hHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhcccccc
Confidence              34 788999999998654 321   234332221100010 0011111 12345666776666532      111   


Q ss_pred             CCCCH--------HHHHHHHHHHhC----cCcH----HHHHHHHHHHHHhCCCCcHHHHHHHHHHHHh-------cCCHH
Q 043490          212 MAPDW--------CTFSIVLKACAG----LVTE----RHASAVHSLIAKYGFEDDTVIANALIHAYAR-------CGSIS  268 (589)
Q Consensus       212 ~~p~~--------~t~~~ll~a~~~----~~~~----~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~-------~g~~~  268 (589)
                      ++|+.        ..|...+.-...    .++.    +.+..+++.+++.. +.+..+|..++..+.+       .|+++
T Consensus       218 ~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~  296 (530)
T 2ooe_A          218 VPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMN  296 (530)
T ss_dssp             CCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCH
T ss_pred             CCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchh
Confidence            24441        344444433221    1222    46778888888764 6678889888888876       69977


Q ss_pred             -------HHHHHHhhcCC---C-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCH--HHHHHHHHHHhccCcHHHHH
Q 043490          269 -------LSKQVFDKMTY---H-DLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDS--ATFVSLLSACSHAGLVQEGN  334 (589)
Q Consensus       269 -------~A~~~~~~~~~---~-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~--~t~~~ll~a~~~~g~~~~a~  334 (589)
                             +|..+|++...   | +...|..++..+.+.|++++|..+|+++ .+.|+.  ..|...+..+.+.|++++|.
T Consensus       297 ~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~  376 (530)
T 2ooe_A          297 NAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGR  376 (530)
T ss_dssp             HHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHH
Confidence                   89999998763   3 5778999999999999999999999999 777763  47888888888899999999


Q ss_pred             HHHHHhHHhcCCccC-cchHHHHHHH-HhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 043490          335 KVFHSMLENHGVVPQ-LDHYACMVDL-LGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQ  410 (589)
Q Consensus       335 ~~~~~~~~~~~~~p~-~~~~~~li~~-~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  410 (589)
                      ++|+...+.   .|+ ...|.....+ +...|+.++|..+|++. ...| +...|..++..+.+.|+.+.|..+|+++++
T Consensus       377 ~~~~~Al~~---~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~  453 (530)
T 2ooe_A          377 MIFKKARED---ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLT  453 (530)
T ss_dssp             HHHHHHHTC---TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhc---cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHh
Confidence            999988643   343 2233322222 34689999999999987 3345 488999999999999999999999999999


Q ss_pred             cCCCChh----HHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          411 LEPGDSL----GFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       411 ~~p~~~~----~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      ..|.++.    .|...+......|+.+.+.++.+++.+.
T Consensus       454 ~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          454 SGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             SCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             ccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            8765554    6777888888899999999999988753

>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=99.77  E-value=3.3e-17  Score=164.37  Aligned_cols=276  Identities=12%  Similarity=0.006  Sum_probs=225.0

Q ss_pred             Hhc-CCHHHHHH-HHhhCCC-----C--ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHH
Q 043490          148 YSK-SCADEAWK-VFENMEF-----R--NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCT  218 (589)
Q Consensus       148 y~~-g~~~~A~~-lf~~m~~-----~--~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  218 (589)
                      |.- |++++|.. .|++...     |  +...|..+...+             .+.|++++|+..|+++.+.. +.+..+
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-------------~~~g~~~~A~~~~~~al~~~-p~~~~~  100 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRR-------------LQEGDLPNAVLLFEAAVQQD-PKHMEA  100 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHH-------------HHTTCHHHHHHHHHHHHHSC-TTCHHH
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHH-------------HHCCCHHHHHHHHHHHHHhC-CCCHHH
Confidence            444 78888888 8876542     1  356688888888             99999999999999999864 446778


Q ss_pred             HHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-ChhHHHH--------
Q 043490          219 FSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY--H-DLVSWNS--------  287 (589)
Q Consensus       219 ~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~--------  287 (589)
                      +..+..++...|+++.|...+..+++.. +.+..++..+...|...|++++|...|+++..  | +...+..        
T Consensus       101 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (368)
T 1fch_A          101 WQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGA  179 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhh
Confidence            8899999999999999999999999886 66888999999999999999999999998762  2 2222221        


Q ss_pred             -------HHHHHHHcCCHHHHHHHHHhC-CCCCC---HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHH
Q 043490          288 -------ILKAYALHGQAKEALQLFSNM-NVQPD---SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYAC  355 (589)
Q Consensus       288 -------li~~~~~~g~~~~A~~~~~~m-~~~p~---~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~  355 (589)
                             .+..+...|++++|+..|+++ ...|+   ..++..+...+...|++++|.+.++.+.+.   .| +...+..
T Consensus       180 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~---~~~~~~~~~~  256 (368)
T 1fch_A          180 GLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV---RPNDYLLWNK  256 (368)
T ss_dssp             ------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHH
T ss_pred             cccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcCCHHHHHH
Confidence                   233444899999999999999 55555   778999999999999999999999998764   34 5678999


Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC-----------hhHHHHH
Q 043490          356 MVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGD-----------SLGFVQM  422 (589)
Q Consensus       356 li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-----------~~~~~~l  422 (589)
                      +...|.+.|++++|.+.|+++ ...| +..+|..+...+...|++++|...++++.++.|.+           ..+|..+
T Consensus       257 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l  336 (368)
T 1fch_A          257 LGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTL  336 (368)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHH
Confidence            999999999999999999988 4445 48899999999999999999999999999988876           7889999


Q ss_pred             HHHhhhcCChHHHHHHHHH
Q 043490          423 SNIYCLSGSFNKARLIRKE  441 (589)
Q Consensus       423 ~~~~~~~g~~~~a~~~~~~  441 (589)
                      +.+|...|++++|..++++
T Consensus       337 ~~~~~~~g~~~~A~~~~~~  355 (368)
T 1fch_A          337 RLALSMLGQSDAYGAADAR  355 (368)
T ss_dssp             HHHHHHHTCGGGHHHHHTT
T ss_pred             HHHHHHhCChHhHHHhHHH
Confidence            9999999999999998763

>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=99.77  E-value=1.5e-16  Score=156.76  Aligned_cols=262  Identities=13%  Similarity=0.044  Sum_probs=225.7

Q ss_pred             CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh
Q 043490          166 RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKY  245 (589)
Q Consensus       166 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~  245 (589)
                      .+...+..+...+             ...|++++|+++|+++.... +.+...+..++..+...|++++|..++..+.+.
T Consensus        20 ~~~~~~~~~a~~~-------------~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~   85 (330)
T 3hym_B           20 ENLDVVVSLAERH-------------YYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDL   85 (330)
T ss_dssp             CCCTTHHHHHHHH-------------HHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHH-------------HHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            3555666777777             88899999999999998764 334456666778888999999999999999987


Q ss_pred             CCCCcHHHHHHHHHHHHhcC-CHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHH
Q 043490          246 GFEDDTVIANALIHAYARCG-SISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVS  319 (589)
Q Consensus       246 g~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~  319 (589)
                      . +.+..++..+...|...| ++++|...|++..   ..+...|..+...|...|++++|++.|+++ ...|+ ..++..
T Consensus        86 ~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~  164 (330)
T 3hym_B           86 Y-PSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLY  164 (330)
T ss_dssp             C-TTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHH
T ss_pred             C-cCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHH
Confidence            5 667888999999999999 9999999999876   345678999999999999999999999999 55554 567777


Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CC----------CCCHHHHHH
Q 043490          320 LLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PM----------EPDSVIWSV  387 (589)
Q Consensus       320 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~----------~p~~~~~~~  387 (589)
                      +...+...|++++|.+.++...+.   .| +...+..+...|.+.|++++|...++++ ..          ..+..+|..
T Consensus       165 l~~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  241 (330)
T 3hym_B          165 IGLEYGLTNNSKLAERFFSQALSI---APEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNN  241 (330)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTT---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHH
Confidence            889999999999999999998643   34 5678899999999999999999999887 11          233678999


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          388 LLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       388 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      +...+...|++++|...++++.+..|.+..++..++.+|.+.|++++|.+.+++..+.
T Consensus       242 la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  299 (330)
T 3hym_B          242 LGHVCRKLKKYAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGL  299 (330)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTT
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHcc
Confidence            9999999999999999999999999999999999999999999999999999987654

>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=99.75  E-value=2.3e-18  Score=170.53  Aligned_cols=301  Identities=14%  Similarity=0.135  Sum_probs=150.0

Q ss_pred             HhcCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHh
Q 043490           53 AKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKF  132 (589)
Q Consensus        53 ~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~  132 (589)
                      -+.|++++|.+.+++++.|+  +|..|..++.+.|++++|++.|.+.                                 
T Consensus        14 ~~~~~ld~A~~fae~~~~~~--vWs~La~A~l~~g~~~eAIdsfika---------------------------------   58 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYIKA---------------------------------   58 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCCChH--HHHHHHHHHHHcCCHHHHHHHHHcC---------------------------------
Confidence            37789999999999997664  9999999999999999999999542                                 


Q ss_pred             cCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCC--CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 043490          133 SLDAHVYVANALINMYSK-SCADEAWKVFENMEF--RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQR  209 (589)
Q Consensus       133 g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~  209 (589)
                         +|...|..++..+.. |++++|.+.++...+  +++.+.+.++.+|             .+.|+++++.++++    
T Consensus        59 ---~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~~~~~~i~~~Li~~Y-------------~Klg~l~e~e~f~~----  118 (449)
T 1b89_A           59 ---DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFAL-------------AKTNRLAELEEFIN----  118 (449)
T ss_dssp             ------------------------------------------------------------------CHHHHTTTTT----
T ss_pred             ---CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCccchhHHHHHHHH-------------HHhCCHHHHHHHHc----
Confidence               345566777778888 999999997776653  4567899999999             88888888877774    


Q ss_pred             cCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHH
Q 043490          210 EGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSIL  289 (589)
Q Consensus       210 ~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li  289 (589)
                         .|+..+|..+...|...|.++.|...|..+         ..|..|++.+.+.|++++|.+.+.++  .++.+|..++
T Consensus       119 ---~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA--~~~~~Wk~v~  184 (449)
T 1b89_A          119 ---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVC  184 (449)
T ss_dssp             ---CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH--TCHHHHHHHH
T ss_pred             ---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc--CCchhHHHHH
Confidence               477889999999999999999999999966         46899999999999999999999999  4899999999


Q ss_pred             HHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhh--cCCH
Q 043490          290 KAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGR--VGRI  366 (589)
Q Consensus       290 ~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~--~g~~  366 (589)
                      .+|...|+++.|......+.+.|+.  ...++..|.+.|.+++|..+++..+   ++.+ ....|+-|.-+|++  -+++
T Consensus       185 ~aCv~~~ef~lA~~~~l~L~~~ad~--l~~lv~~Yek~G~~eEai~lLe~aL---~le~ah~~~ftel~il~~ky~p~k~  259 (449)
T 1b89_A          185 FACVDGKEFRLAQMCGLHIVVHADE--LEELINYYQDRGYFEELITMLEAAL---GLERAHMGMFTELAILYSKFKPQKM  259 (449)
T ss_dssp             HHHHHTTCHHHHHHTTTTTTTCHHH--HHHHHHHHHHTTCHHHHHHHHHHHT---TSTTCCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHcCcHHHHHHHHHHHHhCHhh--HHHHHHHHHHCCCHHHHHHHHHHHh---CCcHHHHHHHHHHHHHHHhcCHHHH
Confidence            9999999999997776665555554  4468889999999999999998765   5544 34467777777765  5678


Q ss_pred             HHHHHHHHhC-CCCC------CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc------------CCCChhHHHHHHHHhh
Q 043490          367 LEAEKLIREM-PMEP------DSVIWSVLLGSCRKHGETRLAELAATKLKQL------------EPGDSLGFVQMSNIYC  427 (589)
Q Consensus       367 ~~A~~~~~~m-~~~p------~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~------------~p~~~~~~~~l~~~~~  427 (589)
                      .+.++.|..- .+.|      +...|..+...|...++++.|....-.-...            .+.+...|...+.-|.
T Consensus       260 ~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~tm~~h~~~a~~~~~f~~~~~kv~n~elyYkai~fyl  339 (449)
T 1b89_A          260 REHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYL  339 (449)
T ss_dssp             HHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHHSTTTTCCHHHHHHHHHHCSSTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHhCChhhhhhHHHHHHHhchhHHHHHHHHHHHHH
Confidence            8888877644 4444      4677999999999999999887643222111            3456677777777776

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.73  E-value=8e-15  Score=154.86  Aligned_cols=376  Identities=10%  Similarity=0.030  Sum_probs=263.8

Q ss_pred             HHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-CcchHHHHHHHHHhCCChhHHHHHHHHHHhccC
Q 043490           28 HEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--R-NVVSWTALISGYAQHGNAEECFRLFCSLLQYFF  104 (589)
Q Consensus        28 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  104 (589)
                      ++..++..|   .+..+|..++. +.+.|++++|+.+|+++.+  | +...|..++..+.+.|++++|..+|++.+..  
T Consensus         2 le~al~~~P---~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--   75 (530)
T 2ooe_A            2 AEKKLEENP---YDLDAWSILIR-EAQNQPIDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--   75 (530)
T ss_dssp             HHHHHHHCT---TCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--
T ss_pred             hhhHhhhCC---CCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--
Confidence            455566566   78899999998 4789999999999999865  4 5568999999999999999999999999875  


Q ss_pred             CCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHH-hc-CCHHHHHH----HHhhCC------CCChhHHH
Q 043490          105 PNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMY-SK-SCADEAWK----VFENME------FRNVISWN  172 (589)
Q Consensus       105 p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y-~~-g~~~~A~~----lf~~m~------~~~~~~~~  172 (589)
                                                    .|+...|..++... .. |+.+.|++    +|+...      .++...|.
T Consensus        76 ------------------------------~p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~  125 (530)
T 2ooe_A           76 ------------------------------VLHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWV  125 (530)
T ss_dssp             ------------------------------CCCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHH
T ss_pred             ------------------------------CCChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHH
Confidence                                          34444555555322 23 55554443    665432      13566787


Q ss_pred             HHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH---H----------hCcCcHHHHHHHH
Q 043490          173 SMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKA---C----------AGLVTERHASAVH  239 (589)
Q Consensus       173 ~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a---~----------~~~~~~~~a~~i~  239 (589)
                      ..+....+....    ..+.+.|++++|..+|++.......+....|......   .          ...+++..|..++
T Consensus       126 ~~~~~~~~~~~~----~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~  201 (530)
T 2ooe_A          126 DYINFLKGVEAV----GSYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVA  201 (530)
T ss_dssp             HHHHHHHHSCCC----SSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCc----ccHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHH
Confidence            777655110000    0001267788888888888773111112333322211   1          2345677777777


Q ss_pred             HHHH------HhC---CCCc--------HHHHHHHHHHHHhc----CCH----HHHHHHHhhcC---CCChhHHHHHHHH
Q 043490          240 SLIA------KYG---FEDD--------TVIANALIHAYARC----GSI----SLSKQVFDKMT---YHDLVSWNSILKA  291 (589)
Q Consensus       240 ~~~~------~~g---~~~~--------~~~~~~li~~~~~~----g~~----~~A~~~~~~~~---~~~~~~~~~li~~  291 (589)
                      ....      +..   ++|+        ...|...+..-...    ++.    +.|..+|++..   ..+...|..++..
T Consensus       202 ~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~p~~~~~w~~~~~~  281 (530)
T 2ooe_A          202 KEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVLGHHPDIWYEAAQY  281 (530)
T ss_dssp             HHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            6532      111   2443        24555555433322    232    36777888776   3567889988888


Q ss_pred             HHH-------cCCHH-------HHHHHHHhC-C-CCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCc--ch
Q 043490          292 YAL-------HGQAK-------EALQLFSNM-N-VQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQL--DH  352 (589)
Q Consensus       292 ~~~-------~g~~~-------~A~~~~~~m-~-~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~--~~  352 (589)
                      +.+       .|+.+       +|..+|++. . +.|+ ...+..++..+...|++++|.++|+.+++   +.|+.  ..
T Consensus       282 ~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~  358 (530)
T 2ooe_A          282 LEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLA---IEDIDPTLV  358 (530)
T ss_dssp             HHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---SSSSCHHHH
T ss_pred             HHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhC---ccccCchHH
Confidence            876       69877       999999999 4 6775 56788888899999999999999999875   35543  47


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHH-HHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhc
Q 043490          353 YACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGS-CRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLS  429 (589)
Q Consensus       353 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~-~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  429 (589)
                      |..++..+.+.|++++|.++|++. ...|+ ...|...... +...|+.+.|..+|+++++..|+++..+..++..+.+.
T Consensus       359 ~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~  438 (530)
T 2ooe_A          359 YIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHL  438 (530)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTCTTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhC
Confidence            888899999999999999999998 43443 3333222222 34689999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHhcCC
Q 043490          430 GSFNKARLIRKEMKGSR  446 (589)
Q Consensus       430 g~~~~a~~~~~~m~~~~  446 (589)
                      |+.++|+.+|++....+
T Consensus       439 g~~~~Ar~~~~~al~~~  455 (530)
T 2ooe_A          439 NEDNNTRVLFERVLTSG  455 (530)
T ss_dssp             TCHHHHHHHHHHHHHSC
T ss_pred             CCHhhHHHHHHHHHhcc
Confidence            99999999999988764

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.73  E-value=1.1e-16  Score=160.44  Aligned_cols=258  Identities=11%  Similarity=-0.025  Sum_probs=215.3

Q ss_pred             ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhC
Q 043490          167 NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYG  246 (589)
Q Consensus       167 ~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g  246 (589)
                      +...|..+...+             .+.|++++|+..|+++.... +.+..++..+...+...|+++.|...++.+++..
T Consensus        64 ~~~~~~~~~~~~-------------~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  129 (365)
T 4eqf_A           64 DWPGAFEEGLKR-------------LKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ  129 (365)
T ss_dssp             TCTTHHHHHHHH-------------HHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             chhHHHHHHHHH-------------HHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            456688888888             99999999999999998864 4477899999999999999999999999999886


Q ss_pred             CCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCC-------------hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC
Q 043490          247 FEDDTVIANALIHAYARCGSISLSKQVFDKMTYHD-------------LVSWNSILKAYALHGQAKEALQLFSNM-NVQP  312 (589)
Q Consensus       247 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-------------~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p  312 (589)
                       +.+..++..+...|.+.|++++|...|+++.+.+             ...+..+...|...|++++|++.|+++ ...|
T Consensus       130 -p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  208 (365)
T 4eqf_A          130 -PNNLKALMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNG  208 (365)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSC
T ss_pred             -CCCHHHHHHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCc
Confidence             6678899999999999999999999999986321             223345688899999999999999999 5555


Q ss_pred             ---CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHH
Q 043490          313 ---DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSV  387 (589)
Q Consensus       313 ---~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~  387 (589)
                         +..++..+...+...|++++|.+.|+.+.+..  +.+..+|..+...|.+.|++++|.+.|+++ ...|+ ..+|..
T Consensus       209 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~  286 (365)
T 4eqf_A          209 DMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR--PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYN  286 (365)
T ss_dssp             SSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             CccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHH
Confidence               57889999999999999999999999987642  235678999999999999999999999988 44554 889999


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhcCCC------------ChhHHHHHHHHhhhcCChHHHHHHHHH
Q 043490          388 LLGSCRKHGETRLAELAATKLKQLEPG------------DSLGFVQMSNIYCLSGSFNKARLIRKE  441 (589)
Q Consensus       388 ll~~~~~~g~~~~a~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~  441 (589)
                      +..+|...|++++|...++++.++.|.            +...|..|..++...|+.+.+.++.++
T Consensus       287 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          287 LGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            999999999999999999999988765            367789999999999999998887654

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.73  E-value=1.5e-14  Score=151.16  Aligned_cols=266  Identities=10%  Similarity=-0.024  Sum_probs=169.9

Q ss_pred             hhHHHHHHHHHhc-----CCHHHHHHHHhhCCC-CChhHHHHHHHHHHcCCcHHHHHHHHHH----cCCHHHHHHHHHHH
Q 043490          138 VYVANALINMYSK-----SCADEAWKVFENMEF-RNVISWNSMIAAFRACKLEAQAIELFAK----MKNEEEALFLFRQL  207 (589)
Q Consensus       138 ~~~~~~li~~y~~-----g~~~~A~~lf~~m~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~----~g~~~~A~~~~~~m  207 (589)
                      ...+..|..+|..     ++.++|...|++..+ .+..++..+...|             ..    .+++++|++.|++.
T Consensus       147 ~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y-------------~~g~g~~~~~~~A~~~~~~a  213 (490)
T 2xm6_A          147 DSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGYMY-------------SRGLGVERNDAISAQWYRKS  213 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH-------------HHTSSSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH-------------hcCCCCCcCHHHHHHHHHHH
Confidence            3444445555542     467777777776543 3556666666666             55    67777777777777


Q ss_pred             HHcCCCCCHHHHHHHHHHHhC----cCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHhhcCC
Q 043490          208 QREGMAPDWCTFSIVLKACAG----LVTERHASAVHSLIAKYGFEDDTVIANALIHAYAR----CGSISLSKQVFDKMTY  279 (589)
Q Consensus       208 ~~~g~~p~~~t~~~ll~a~~~----~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~  279 (589)
                      .+.|   +...+..+...+..    .++.++|...+....+.|   +...+..|..+|..    .++.++|...|++..+
T Consensus       214 ~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~  287 (490)
T 2xm6_A          214 ATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAE  287 (490)
T ss_dssp             HHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHT
T ss_pred             HHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHH
Confidence            6654   44555555555543    667777777777777654   44556666666766    6777777777777653


Q ss_pred             -CChhHHHHHHHHHHHc-----CCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccC---cHHHHHHHHHHhHHhcCCccC
Q 043490          280 -HDLVSWNSILKAYALH-----GQAKEALQLFSNM-NVQPDSATFVSLLSACSHAG---LVQEGNKVFHSMLENHGVVPQ  349 (589)
Q Consensus       280 -~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~~g---~~~~a~~~~~~~~~~~~~~p~  349 (589)
                       .+..++..+...|...     ++.++|+..|++. .. .+...+..+...+...|   +.++|.++|+...+.    .+
T Consensus       288 ~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~-~~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~----~~  362 (490)
T 2xm6_A          288 QGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ-GDATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK----GE  362 (490)
T ss_dssp             TTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT----TC
T ss_pred             cCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC----CC
Confidence             3556666777777766     7777777777777 22 23445555555555544   677777777776542    34


Q ss_pred             cchHHHHHHHHhh----cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHhhcCCC---ChhH
Q 043490          350 LDHYACMVDLLGR----VGRILEAEKLIREMPMEPDSVIWSVLLGSCRK----HGETRLAELAATKLKQLEPG---DSLG  418 (589)
Q Consensus       350 ~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~---~~~~  418 (589)
                      ...+..|..+|..    .+++++|.+.|++.--..+...+..|...|..    .++.++|...++++.+.+|+   ++..
T Consensus       363 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~~a  442 (490)
T 2xm6_A          363 KAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDMNLFGTENR  442 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCCHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCCCcCCHHH
Confidence            5566677777776    67777777777776212356667777777776    67778888887777777743   4445


Q ss_pred             HHHHHHHhh
Q 043490          419 FVQMSNIYC  427 (589)
Q Consensus       419 ~~~l~~~~~  427 (589)
                      ...|..++.
T Consensus       443 ~~~l~~~~~  451 (490)
T 2xm6_A          443 NITEKKLTA  451 (490)
T ss_dssp             HHHHTTSCH
T ss_pred             HHHHHhcCH
Confidence            555544443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.73  E-value=2.8e-15  Score=144.95  Aligned_cols=267  Identities=11%  Similarity=0.040  Sum_probs=214.0

Q ss_pred             HhcCCHHHHHHHHhhCCCCCh----hHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 043490          148 YSKSCADEAWKVFENMEFRNV----ISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVL  223 (589)
Q Consensus       148 y~~g~~~~A~~lf~~m~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  223 (589)
                      |..|++..|...++.....++    ...-.+..+|             ...|++++|+..++.    .-+|+..++..+.
T Consensus        10 ~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~y-------------i~~g~~~~al~~~~~----~~~~~~~a~~~la   72 (291)
T 3mkr_A           10 FYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAY-------------LAQRKYGVVLDEIKP----SSAPELQAVRMFA   72 (291)
T ss_dssp             HHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHH-------------HHTTCHHHHHHHSCT----TSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHH-------------HHCCCHHHHHHHhcc----cCChhHHHHHHHH
Confidence            334999999999988765432    2345567788             888888888876654    2356778888999


Q ss_pred             HHHhCcCcHHHHHHHHHHHHHhCC-CCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHH
Q 043490          224 KACAGLVTERHASAVHSLIAKYGF-EDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEAL  302 (589)
Q Consensus       224 ~a~~~~~~~~~a~~i~~~~~~~g~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  302 (589)
                      ..+...++.+.|.+.++.+.+.+. +.+...+..+...|...|++++|.+.|++  ..+...+..++..|.+.|+.++|.
T Consensus        73 ~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~  150 (291)
T 3mkr_A           73 EYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLAR  150 (291)
T ss_dssp             HHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            999999999999999999998874 55677788888999999999999999999  567889999999999999999999


Q ss_pred             HHHHhC-CCCCCHHHH---HHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-C
Q 043490          303 QLFSNM-NVQPDSATF---VSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-P  377 (589)
Q Consensus       303 ~~~~~m-~~~p~~~t~---~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~  377 (589)
                      +.|+++ ...|+....   ...+..+...|++++|..+|+++.+..  +.+...++.+..+|.+.|++++|.+.|++. .
T Consensus       151 ~~l~~~~~~~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~--p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~  228 (291)
T 3mkr_A          151 KELKKMQDQDEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC--SPTLLLLNGQAACHMAQGRWEAAEGVLQEALD  228 (291)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhCcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999 667775422   123344456699999999999998752  446778999999999999999999999997 4


Q ss_pred             CCC-CHHHHHHHHHHHHHcCCHHH-HHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHH
Q 043490          378 MEP-DSVIWSVLLGSCRKHGETRL-AELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIR  439 (589)
Q Consensus       378 ~~p-~~~~~~~ll~~~~~~g~~~~-a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  439 (589)
                      ..| +..+|..++..+...|+.++ +.++++++.+.+|+++.+    .+...+.+.++++..-|
T Consensus       229 ~~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~----~d~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          229 KDSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFI----KEYRAKENDFDRLVLQY  288 (291)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHH----HHHHHHHHHHHHHHHHH
T ss_pred             hCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHH----HHHHHHHHHHHHHHHHc
Confidence            456 48889999999999999875 678999999999988754    34556666666655443

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.71  E-value=1.5e-16  Score=159.55  Aligned_cols=253  Identities=12%  Similarity=0.043  Sum_probs=203.0

Q ss_pred             HHcCCHHHHHH-HHHHHHHcCC-CC--CHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCH
Q 043490          192 AKMKNEEEALF-LFRQLQREGM-AP--DWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSI  267 (589)
Q Consensus       192 ~~~g~~~~A~~-~~~~m~~~g~-~p--~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~  267 (589)
                      ...|++++|++ .|++...... .|  +...+..+...+...|+++.|...+..+++.. +.+..++..+...|.+.|++
T Consensus        36 ~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~  114 (368)
T 1fch_A           36 PWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQE  114 (368)
T ss_dssp             ----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCH
Confidence            45677788877 7765543211 11  34567788888999999999999999999876 67888999999999999999


Q ss_pred             HHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHH-H---------------HHHHHhcc
Q 043490          268 SLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDSATFV-S---------------LLSACSHA  327 (589)
Q Consensus       268 ~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~-~---------------ll~a~~~~  327 (589)
                      ++|...|+++.   ..+..+|..+...|...|++++|++.|+++ ...|+..... .               .+..+...
T Consensus       115 ~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (368)
T 1fch_A          115 LLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSD  194 (368)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhc
Confidence            99999999876   457789999999999999999999999999 5555433221 1               23334488


Q ss_pred             CcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHH
Q 043490          328 GLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAA  405 (589)
Q Consensus       328 g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~  405 (589)
                      |++++|.+.|+.+.+...-.++..++..+...|.+.|++++|...++++ ...| +..+|..+...+...|++++|...+
T Consensus       195 ~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  274 (368)
T 1fch_A          195 SLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAY  274 (368)
T ss_dssp             HHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999999765332224678999999999999999999999988 3345 4889999999999999999999999


Q ss_pred             HHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          406 TKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       406 ~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      +++.+..|.++.++..++.+|.+.|++++|...+++..+.
T Consensus       275 ~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  314 (368)
T 1fch_A          275 RRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNM  314 (368)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999988753

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.71  E-value=3.7e-16  Score=156.68  Aligned_cols=230  Identities=11%  Similarity=0.036  Sum_probs=195.5

Q ss_pred             CHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHH
Q 043490          215 DWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKA  291 (589)
Q Consensus       215 ~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~  291 (589)
                      +...+..+...+.+.|+++.|...++.+++.. +.+..++..+...|.+.|++++|...|+++.   ..+..+|..+...
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  142 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVS  142 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            34557888888999999999999999999886 6788999999999999999999999999886   4567899999999


Q ss_pred             HHHcCCHHHHHHHHHhC-CCCCCH-----------HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHH
Q 043490          292 YALHGQAKEALQLFSNM-NVQPDS-----------ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDL  359 (589)
Q Consensus       292 ~~~~g~~~~A~~~~~~m-~~~p~~-----------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~  359 (589)
                      |...|++++|++.|+++ ...|+.           ..+..+...+...|++++|.++++.+.+...-.++..++..+...
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  222 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVL  222 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHH
Confidence            99999999999999999 555543           233445778899999999999999998764332357789999999


Q ss_pred             HhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHH
Q 043490          360 LGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARL  437 (589)
Q Consensus       360 ~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  437 (589)
                      |.+.|++++|.+.|+++ ...| +..+|..+..+|...|++++|+..++++.+..|.++.++..++.+|.+.|++++|..
T Consensus       223 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~  302 (365)
T 4eqf_A          223 FHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREAVS  302 (365)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHHH
Confidence            99999999999999988 3345 588999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcC
Q 043490          438 IRKEMKGS  445 (589)
Q Consensus       438 ~~~~m~~~  445 (589)
                      .+++..+.
T Consensus       303 ~~~~al~~  310 (365)
T 4eqf_A          303 NFLTALSL  310 (365)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99998753

>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=99.71  E-value=1.8e-13  Score=150.61  Aligned_cols=379  Identities=10%  Similarity=0.034  Sum_probs=271.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHHHHHHHHhC
Q 043490            7 IYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQH   86 (589)
Q Consensus         7 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~   86 (589)
                      -.+...+++...|.+.+|.++++.++-.......+....+.|+....+. +.....+..++...-+   ...+...+...
T Consensus       987 eVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d---~~eIA~Iai~l 1062 (1630)
T 1xi4_A          987 EVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD---APDIANIAISN 1062 (1630)
T ss_pred             HhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc---HHHHHHHHHhC
Confidence            3455677777888888888888887733000013456666677666666 4455555554444222   44467778888


Q ss_pred             CChhHHHHHHHHHHhccCCCceeHHHHHHHhc-hhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCC
Q 043490           87 GNAEECFRLFCSLLQYFFPNEFSLASVLISCD-YLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENME  164 (589)
Q Consensus        87 g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~-~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~  164 (589)
                      |.+++|..+|++....    ......++.... ++.+..+...+      .+..+|..+..++.+ |++++|...|.+. 
T Consensus      1063 glyEEAf~IYkKa~~~----~~A~~VLie~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAIdsYiKA- 1131 (1630)
T 1xi4_A         1063 ELFEEAFAIFRKFDVN----TSAVQVLIEHIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA- 1131 (1630)
T ss_pred             CCHHHHHHHHHHcCCH----HHHHHHHHHHHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHHHHHhc-
Confidence            9999999999886321    111122232222 34433333322      346777788888888 8888888888664 


Q ss_pred             CCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHH
Q 043490          165 FRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAK  244 (589)
Q Consensus       165 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~  244 (589)
                       .|...|..++..+             .+.|++++|++.|...++..  +++...+.+..+|++.++++....+.    +
T Consensus      1132 -dD~say~eVa~~~-------------~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~ 1191 (1630)
T 1xi4_A         1132 -DDPSSYMEVVQAA-------------NTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N 1191 (1630)
T ss_pred             -CChHHHHHHHHHH-------------HHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h
Confidence             5666677777777             88889999999998776654  33333335888899998888644442    2


Q ss_pred             hCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 043490          245 YGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSAC  324 (589)
Q Consensus       245 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~  324 (589)
                         .++...+..+.+.|...|++++|..+|...     ..|..+...|.+.|++++|++.+++.   .+..+|..+-.+|
T Consensus      1192 ---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA---~n~~aWkev~~ac 1260 (1630)
T 1xi4_A         1192 ---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA---NSTRTWKEVCFAC 1260 (1630)
T ss_pred             ---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHh---CCHHHHHHHHHHH
Confidence               445666778999999999999999999986     48999999999999999999999986   4568999999999


Q ss_pred             hccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHc--CCHHH
Q 043490          325 SHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKH--GETRL  400 (589)
Q Consensus       325 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~--g~~~~  400 (589)
                      ...|++..|......+      ..++..+..++..|.+.|.+++|+.+++.. +..|. ...|+-|...+.+.  ++..+
T Consensus      1261 ve~~Ef~LA~~cgl~I------iv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmE 1334 (1630)
T 1xi4_A         1261 VDGKEFRLAQMCGLHI------VVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMRE 1334 (1630)
T ss_pred             hhhhHHHHHHHHHHhh------hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHH
Confidence            9999999998876432      345667889999999999999999999877 55554 66787777777765  45556


Q ss_pred             HHHHHHHHhhcCC-----CChhHHHHHHHHhhhcCChHHHHH
Q 043490          401 AELAATKLKQLEP-----GDSLGFVQMSNIYCLSGSFNKARL  437 (589)
Q Consensus       401 a~~~~~~~~~~~p-----~~~~~~~~l~~~~~~~g~~~~a~~  437 (589)
                      +.+.|..-..+.|     .+...|.-+...|.+.|+|+.|..
T Consensus      1335 hlk~f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~ 1376 (1630)
T 1xi4_A         1335 HLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII 1376 (1630)
T ss_pred             HHHHHHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHHH
Confidence            6666665555444     467789999999999999999984

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.70  E-value=4.8e-15  Score=154.05  Aligned_cols=367  Identities=12%  Similarity=-0.022  Sum_probs=238.6

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHhcCC-----------CC-CcchHHHHHHHHHhCCChhHHHHHHHHHHhc--cCC
Q 043490           40 QDLFVTNHLINMYAKFGYLDDARHLFDEMP-----------KR-NVVSWTALISGYAQHGNAEECFRLFCSLLQY--FFP  105 (589)
Q Consensus        40 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~-----------~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~p  105 (589)
                      .....||.|...|...|+.++|++.|++..           .| ..++|+.+...|...|++++|...|++..+.  ..+
T Consensus        49 ~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~  128 (472)
T 4g1t_A           49 FKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFS  128 (472)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcc
Confidence            445679999999999999999999987642           22 4568999999999999999999999887643  001


Q ss_pred             CceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc---CCHHHHHHHHhhCC--CC-ChhHHHHHHHHHH
Q 043490          106 NEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK---SCADEAWKVFENME--FR-NVISWNSMIAAFR  179 (589)
Q Consensus       106 ~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~---g~~~~A~~lf~~m~--~~-~~~~~~~li~~~~  179 (589)
                      +..                         -.....+++.+...+.+   +++++|...|++..  .| +...+..+...+.
T Consensus       129 ~~~-------------------------~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~  183 (472)
T 4g1t_A          129 SPY-------------------------RIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASY  183 (472)
T ss_dssp             CSS-------------------------CCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             ccc-------------------------chhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            000                         01122334333333333   57899999999865  34 4455555544431


Q ss_pred             cCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh----CcCcHHHHHHHHHHHHHhCCCCcHHHHH
Q 043490          180 ACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACA----GLVTERHASAVHSLIAKYGFEDDTVIAN  255 (589)
Q Consensus       180 ~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~----~~~~~~~a~~i~~~~~~~g~~~~~~~~~  255 (589)
                                .+...++.++|++.|++..+.. +.+...+..+...+.    ..++.+.|.+.++...+.. +.+..++.
T Consensus       184 ----------~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~  251 (472)
T 4g1t_A          184 ----------RLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLR  251 (472)
T ss_dssp             ----------HHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHH
T ss_pred             ----------HhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHH
Confidence                      0145677888999888887753 234555555544443    4467888999999988876 66788899


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHc-------------------CCHHHHHHHHHhC-CCCC
Q 043490          256 ALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALH-------------------GQAKEALQLFSNM-NVQP  312 (589)
Q Consensus       256 ~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~-------------------g~~~~A~~~~~~m-~~~p  312 (589)
                      .+...|.+.|++++|...|++..   +.+..+|..+...|...                   +..++|+..|++. ...|
T Consensus       252 ~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~  331 (472)
T 4g1t_A          252 SAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAND  331 (472)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCC
Confidence            99999999999999999999876   33556777776665432                   2356777788777 5555


Q ss_pred             C-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcc----hHHHHHH-HHhhcCCHHHHHHHHHhC-CCCCCHHHH
Q 043490          313 D-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLD----HYACMVD-LLGRVGRILEAEKLIREM-PMEPDSVIW  385 (589)
Q Consensus       313 ~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~----~~~~li~-~~~~~g~~~~A~~~~~~m-~~~p~~~~~  385 (589)
                      + ..++..+...+...|++++|.+.|+...+.   .|+..    .+..+.. .+...|+.++|+..|++. .+.|+...+
T Consensus       332 ~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~  408 (472)
T 4g1t_A          332 NLFRVCSILASLHALADQYEEAEYYFQKEFSK---ELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREK  408 (472)
T ss_dssp             TTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHS---CCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHH
T ss_pred             chhhhhhhHHHHHHHhccHHHHHHHHHHHHhc---CCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHH
Confidence            4 456778888899999999999999887643   33322    2223322 234678999999998877 566664433


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCCccCCceee
Q 043490          386 SVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSW  455 (589)
Q Consensus       386 ~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~  455 (589)
                      ...         ...+.+++++.++.+|.++.+|..|+.+|...|++++|.+.|++..+.+-......+|
T Consensus       409 ~~~---------~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~  469 (472)
T 4g1t_A          409 EKM---------KDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSW  469 (472)
T ss_dssp             HHH---------HHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC----------------------
T ss_pred             HHH---------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhc
Confidence            222         3445667788888999999999999999999999999999999998876543334455

>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=99.70  E-value=7.9e-16  Score=151.26  Aligned_cols=258  Identities=11%  Similarity=-0.007  Sum_probs=216.0

Q ss_pred             hhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCC
Q 043490          168 VISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGF  247 (589)
Q Consensus       168 ~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~  247 (589)
                      ...|..+...+             ...|++++|+.+|+++.+.. +.+...+..+..++...|+++.|...+..+.+.. 
T Consensus        21 ~~~~~~~a~~~-------------~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-   85 (327)
T 3cv0_A           21 HENPMEEGLSM-------------LKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-   85 (327)
T ss_dssp             SSCHHHHHHHH-------------HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             hHHHHHHHHHH-------------HHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-
Confidence            34566666777             89999999999999998764 3467788889999999999999999999999885 


Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-ChhHHHHH--------------HH-HHHHcCCHHHHHHHHHhC-
Q 043490          248 EDDTVIANALIHAYARCGSISLSKQVFDKMTY--H-DLVSWNSI--------------LK-AYALHGQAKEALQLFSNM-  308 (589)
Q Consensus       248 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l--------------i~-~~~~~g~~~~A~~~~~~m-  308 (589)
                      +.+..++..+...|...|++++|.+.|+++..  | +...+..+              .. .+...|++++|++.++++ 
T Consensus        86 ~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  165 (327)
T 3cv0_A           86 PKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAAL  165 (327)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHH
Confidence            66788999999999999999999999998762  2 23333333              22 377889999999999999 


Q ss_pred             CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHH
Q 043490          309 NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIW  385 (589)
Q Consensus       309 ~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~  385 (589)
                      ...| +..++..+...+...|++++|.+.++.+.+..  +.+...+..+...|.+.|++++|.+.++++ ...| +..+|
T Consensus       166 ~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~  243 (327)
T 3cv0_A          166 EMNPNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR--PDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVM  243 (327)
T ss_dssp             HHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             hhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHH
Confidence            5445 56788899999999999999999999987642  235678899999999999999999999987 3344 48899


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhcCCC------------ChhHHHHHHHHhhhcCChHHHHHHHHHH
Q 043490          386 SVLLGSCRKHGETRLAELAATKLKQLEPG------------DSLGFVQMSNIYCLSGSFNKARLIRKEM  442 (589)
Q Consensus       386 ~~ll~~~~~~g~~~~a~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~m  442 (589)
                      ..+...+...|++++|...++++.+..|.            +..++..++.+|.+.|++++|..++++.
T Consensus       244 ~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          244 YNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            99999999999999999999999999987            6888999999999999999999988744

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.69  E-value=1.5e-13  Score=143.57  Aligned_cols=349  Identities=13%  Similarity=0.037  Sum_probs=285.3

Q ss_pred             CChhHHHHHHHHHHh----cCChHHHHHHHhcCCC-CCcchHHHHHHHHHh----CCChhHHHHHHHHHHhccCCCceeH
Q 043490           40 QDLFVTNHLINMYAK----FGYLDDARHLFDEMPK-RNVVSWTALISGYAQ----HGNAEECFRLFCSLLQYFFPNEFSL  110 (589)
Q Consensus        40 ~~~~~~~~li~~~~~----~g~~~~A~~~f~~m~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~p~~~t~  110 (589)
                      .++..+..|...|..    .+++++|...|++..+ .+..++..|...|..    .+++++|+..|++..+.        
T Consensus        37 g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~--------  108 (490)
T 2xm6_A           37 GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALK--------  108 (490)
T ss_dssp             TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT--------
T ss_pred             CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC--------
Confidence            678888899999988    8999999999997654 477788889999998    89999999999887653        


Q ss_pred             HHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-----CCHHHHHHHHhhCCC-CChhHHHHHHHHHHcCCcH
Q 043490          111 ASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-----SCADEAWKVFENMEF-RNVISWNSMIAAFRACKLE  184 (589)
Q Consensus       111 ~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-----g~~~~A~~lf~~m~~-~~~~~~~~li~~~~~~g~~  184 (589)
                                               .+...+..|-.+|..     +++++|...|++..+ .+..++..+...|      
T Consensus       109 -------------------------~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y------  157 (490)
T 2xm6_A          109 -------------------------GLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAY------  157 (490)
T ss_dssp             -------------------------TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH------
T ss_pred             -------------------------CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH------
Confidence                                     233444445555543     588999999988654 4566777777777      


Q ss_pred             HHHHHHHHH----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhC----cCcHHHHHHHHHHHHHhCCCCcHHHHHH
Q 043490          185 AQAIELFAK----MKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAG----LVTERHASAVHSLIAKYGFEDDTVIANA  256 (589)
Q Consensus       185 ~~a~~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~----~~~~~~a~~i~~~~~~~g~~~~~~~~~~  256 (589)
                             ..    .+++++|++.|++..+.|   +...+..+...+..    .++.++|...+....+.|   +...+..
T Consensus       158 -------~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~  224 (490)
T 2xm6_A          158 -------FEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLH  224 (490)
T ss_dssp             -------HHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             -------HcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHH
Confidence                   65    788999999999988865   66777777777766    899999999999999876   5677888


Q ss_pred             HHHHHHh----cCCHHHHHHHHhhcC-CCChhHHHHHHHHHHH----cCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhc
Q 043490          257 LIHAYAR----CGSISLSKQVFDKMT-YHDLVSWNSILKAYAL----HGQAKEALQLFSNM-NVQPDSATFVSLLSACSH  326 (589)
Q Consensus       257 li~~~~~----~g~~~~A~~~~~~~~-~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~  326 (589)
                      |..+|..    .+++++|...|++.. ..+..++..+...|..    .++.++|++.|++. .. -+...+..+...+..
T Consensus       225 lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~-~~~~a~~~Lg~~y~~  303 (490)
T 2xm6_A          225 LADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQ-GNSDGQYYLAHLYDK  303 (490)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHc
Confidence            8889987    899999999999876 4567788888888888    89999999999998 33 355667777777777


Q ss_pred             c-----CcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcC---CHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----
Q 043490          327 A-----GLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVG---RILEAEKLIREMPMEPDSVIWSVLLGSCRK----  394 (589)
Q Consensus       327 ~-----g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~----  394 (589)
                      .     ++.++|.+.|+...+. +   +...+..|..+|.+.|   ++++|.+.|++.--..+...+..|...|..    
T Consensus       304 ~~~g~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~  379 (490)
T 2xm6_A          304 GAEGVAKNREQAISWYTKSAEQ-G---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGV  379 (490)
T ss_dssp             CBTTBCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSS
T ss_pred             CCCCCcCCHHHHHHHHHHHHhc-C---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCC
Confidence            6     8999999999988653 2   4457778888888766   889999999988223578889999999998    


Q ss_pred             cCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhh----cCChHHHHHHHHHHhcCCC
Q 043490          395 HGETRLAELAATKLKQLEPGDSLGFVQMSNIYCL----SGSFNKARLIRKEMKGSRV  447 (589)
Q Consensus       395 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~  447 (589)
                      .+++++|...+++..+.+  ++.++..|..+|.+    .+++++|...|++..+.+.
T Consensus       380 ~~~~~~A~~~~~~A~~~~--~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          380 KKDEQQAAIWMRKAAEQG--LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHhCC--CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC
Confidence            899999999999998865  57889999999998    8999999999999987763

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.67  E-value=5.6e-15  Score=142.80  Aligned_cols=243  Identities=9%  Similarity=0.014  Sum_probs=199.9

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPDW--CTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISL  269 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  269 (589)
                      ...|+++.|+..+++...  ..|+.  .....+..++...|+.+.|...++.    .-+|+..++..+...|.+.|+.++
T Consensus        10 ~~~g~y~~ai~~~~~~~~--~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~~   83 (291)
T 3mkr_A           10 FYIGSYQQCINEAQRVKP--SSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRDA   83 (291)
T ss_dssp             HHTTCHHHHHHHHHHSCC--CSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHHH
T ss_pred             HHHHHHHHHHHHHHhccc--CCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHHH
Confidence            567899999988876543  34443  3556678899999999999976643    246788889999999999999999


Q ss_pred             HHHHHhhcC----CC-ChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhc
Q 043490          270 SKQVFDKMT----YH-DLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENH  344 (589)
Q Consensus       270 A~~~~~~~~----~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  344 (589)
                      |.+.++++.    .| +...+..+...|.+.|++++|++.|++   ..+...+..+...+.+.|++++|.+.++.+.+. 
T Consensus        84 A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~---~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~-  159 (291)
T 3mkr_A           84 IVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ---GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ-  159 (291)
T ss_dssp             HHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT---CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-
Confidence            999999864    24 556777888999999999999999998   456778999999999999999999999999765 


Q ss_pred             CCccCcchH---HHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHH
Q 043490          345 GVVPQLDHY---ACMVDLLGRVGRILEAEKLIREM-PME-PDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGF  419 (589)
Q Consensus       345 ~~~p~~~~~---~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  419 (589)
                        .|+....   ..++..+...|++++|..+|+++ ... .+...|+.+..++.+.|++++|+..++++++.+|+++.++
T Consensus       160 --~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l  237 (291)
T 3mkr_A          160 --DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETL  237 (291)
T ss_dssp             --CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             --CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHH
Confidence              4654311   22344555569999999999998 223 4688999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhcCChHH-HHHHHHHHhcCC
Q 043490          420 VQMSNIYCLSGSFNK-ARLIRKEMKGSR  446 (589)
Q Consensus       420 ~~l~~~~~~~g~~~~-a~~~~~~m~~~~  446 (589)
                      ..++.++...|+.++ +.++++++.+.+
T Consensus       238 ~~l~~~~~~~g~~~eaa~~~~~~~~~~~  265 (291)
T 3mkr_A          238 INLVVLSQHLGKPPEVTNRYLSQLKDAH  265 (291)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHhC
Confidence            999999999999986 578888887644

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.67  E-value=5.3e-17  Score=173.11  Aligned_cols=150  Identities=11%  Similarity=0.166  Sum_probs=125.5

Q ss_pred             CCCchhHHHHHHHHHhc-CCHHHHHHHHhhCC-------CCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHH
Q 043490          134 LDAHVYVANALINMYSK-SCADEAWKVFENME-------FRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFR  205 (589)
Q Consensus       134 ~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~-------~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~  205 (589)
                      ...-..+||+||++|++ |++++|.++|++|.       .||++|||+||.+|             ++.|+.++|.++|+
T Consensus       123 ~~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Gl-------------ck~G~~~eA~~Lf~  189 (1134)
T 3spa_A          123 LSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGW-------------ARQGAFKELVYVLF  189 (1134)
T ss_dssp             CCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHH-------------HHHTCHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHH-------------HhCCCHHHHHHHHH
Confidence            44556799999999999 99999999997763       58999999999999             99999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhCcCc-HHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC-----
Q 043490          206 QLQREGMAPDWCTFSIVLKACAGLVT-ERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY-----  279 (589)
Q Consensus       206 ~m~~~g~~p~~~t~~~ll~a~~~~~~-~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----  279 (589)
                      +|.+.|+.||.+||+++|.++++.|. .+.|.+++++|.+.|+.||..+|++++..+.+.+-++...+++..+..     
T Consensus       190 eM~~~G~~PDvvTYntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~  269 (1134)
T 3spa_A          190 MVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLP  269 (1134)
T ss_dssp             HHHHTTCCCCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCC
T ss_pred             HHHHcCCCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCc
Confidence            99999999999999999999999997 588999999999999999999999999888876655555555444431     


Q ss_pred             CChhHHHHHHHHHHHcC
Q 043490          280 HDLVSWNSILKAYALHG  296 (589)
Q Consensus       280 ~~~~~~~~li~~~~~~g  296 (589)
                      +.+.+.+.|...|.+.+
T Consensus       270 ~~~~t~~LL~dl~s~d~  286 (1134)
T 3spa_A          270 PPVNTSKLLRDVYAKDG  286 (1134)
T ss_dssp             CCCCCCTTTHHHHCCCS
T ss_pred             ccccchHHHHHHHccCC
Confidence            11334444556666555

>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=99.66  E-value=1.8e-14  Score=141.42  Aligned_cols=266  Identities=10%  Similarity=-0.012  Sum_probs=166.3

Q ss_pred             hhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC---CCcchHHHHHH
Q 043490            5 TQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK---RNVVSWTALIS   81 (589)
Q Consensus         5 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~   81 (589)
                      ...+..+...+...|++++|..+++.+.+..|   .+..++..+...|...|++++|.+.|+++.+   .+..+|..+..
T Consensus        21 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~   97 (327)
T 3cv0_A           21 HENPMEEGLSMLKLANLAEAALAFEAVCQAAP---EREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAV   97 (327)
T ss_dssp             SSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHH
Confidence            34566778889999999999999999998866   7888999999999999999999999998753   46778999999


Q ss_pred             HHHhCCChhHHHHHHHHHHhccCCCce-eHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHH-HH-HHhc-CCHHHHH
Q 043490           82 GYAQHGNAEECFRLFCSLLQYFFPNEF-SLASVLISCDYLHGKLVHALALKFSLDAHVYVANAL-IN-MYSK-SCADEAW  157 (589)
Q Consensus        82 ~~~~~g~~~~A~~~~~~m~~~~~p~~~-t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~l-i~-~y~~-g~~~~A~  157 (589)
                      .|...|++++|++.|+++.+. .|+.. .+..+...                  .++......+ .. .+.. |++++|.
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~A~  158 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLS-QPQYEQLGSVNLQA------------------DVDIDDLNVQSEDFFFAAPNEYRECR  158 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHT-STTTTTC--------------------------------------CCTTSHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh-CCccHHHHHHHhHH------------------HHHHHHHHHHHHhHHHHHcccHHHHH
Confidence            999999999999999998875 22211 11111000                  0111111111 12 2555 6677777


Q ss_pred             HHHhhCCC---CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHH
Q 043490          158 KVFENMEF---RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERH  234 (589)
Q Consensus       158 ~lf~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~  234 (589)
                      ..|+++.+   .+...|..+...|             ...|++++|++.|+++.... +.+..++..+...+...|++++
T Consensus       159 ~~~~~~~~~~~~~~~~~~~la~~~-------------~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  224 (327)
T 3cv0_A          159 TLLHAALEMNPNDAQLHASLGVLY-------------NLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQE  224 (327)
T ss_dssp             HHHHHHHHHSTTCHHHHHHHHHHH-------------HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHhhCCCCHHHHHHHHHHH-------------HHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHH
Confidence            76666542   2455666666666             66666666666666665542 2234555555555666666666


Q ss_pred             HHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC--CC-------------ChhHHHHHHHHHHHcCCHH
Q 043490          235 ASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT--YH-------------DLVSWNSILKAYALHGQAK  299 (589)
Q Consensus       235 a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~-------------~~~~~~~li~~~~~~g~~~  299 (589)
                      |...+..+.+.. +.+..++..+...|.+.|++++|.+.|++..  .|             +...|..+..++...|+.+
T Consensus       225 A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  303 (327)
T 3cv0_A          225 ALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPD  303 (327)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHH
Confidence            666666655543 3345555555555555555555555555443  11             2334445555555555555


Q ss_pred             HHHHHHHh
Q 043490          300 EALQLFSN  307 (589)
Q Consensus       300 ~A~~~~~~  307 (589)
                      +|..++++
T Consensus       304 ~A~~~~~~  311 (327)
T 3cv0_A          304 LVELTYAQ  311 (327)
T ss_dssp             HHHHHTTC
T ss_pred             HHHHHHHH
Confidence            55555443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.65  E-value=1.8e-14  Score=149.73  Aligned_cols=364  Identities=11%  Similarity=-0.013  Sum_probs=210.0

Q ss_pred             hhHHHHHHHHHHccCCHHHHHHHHHHHHHh----C--CCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--------
Q 043490            5 TQIYATLFHACALHGNIKQAMQLHEHMINN----F--PNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--------   70 (589)
Q Consensus         5 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~--~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--------   70 (589)
                      ...|+.|...+...|+.++|++.|.+.++.    .  ...+....+|+.+...|...|++++|...|++..+        
T Consensus        51 a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~  130 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSP  130 (472)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCS
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccc
Confidence            456888999999999999999999987653    1  11124457889999999999999999988876531        


Q ss_pred             --C-CcchHHHHHHHHHhC--CChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHH
Q 043490           71 --R-NVVSWTALISGYAQH--GNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALI  145 (589)
Q Consensus        71 --~-~~~~~~~li~~~~~~--g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li  145 (589)
                        + ...+++.+..++...  +++++|+..|++..+. .|+...+                              +..+.
T Consensus       131 ~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~-~p~~~~~------------------------------~~~~~  179 (472)
T 4g1t_A          131 YRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK-KPKNPEF------------------------------TSGLA  179 (472)
T ss_dssp             SCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-STTCHHH------------------------------HHHHH
T ss_pred             cchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh-CCCCHHH------------------------------HHHHH
Confidence              1 234566666566554  5689999999988764 3443222                              11111


Q ss_pred             HH---Hhc-CCHHHHHHHHhhCC---CCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHH
Q 043490          146 NM---YSK-SCADEAWKVFENME---FRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCT  218 (589)
Q Consensus       146 ~~---y~~-g~~~~A~~lf~~m~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  218 (589)
                      ..   +.. ++.++|...|++..   ..+...+..+...+...+         ...|+.++|.+.+++..... +.+...
T Consensus       180 ~~~~~l~~~~~~~~al~~~~~al~l~p~~~~~~~~l~~~~~~~~---------~~~~~~~~a~~~~~~al~~~-~~~~~~  249 (472)
T 4g1t_A          180 IASYRLDNWPPSQNAIDPLRQAIRLNPDNQYLKVLLALKLHKMR---------EEGEEEGEGEKLVEEALEKA-PGVTDV  249 (472)
T ss_dssp             HHHHHHHHSCCCCCTHHHHHHHHHHCSSCHHHHHHHHHHHHHCC---------------CHHHHHHHHHHHHC-SSCHHH
T ss_pred             HHHHHhcCchHHHHHHHHHHHHhhcCCcchHHHHHHHHHHHHHH---------hhhhHHHHHHHHHHHHHHhC-ccHHHH
Confidence            11   222 44444444444332   223344444433331111         23345556666666655432 234455


Q ss_pred             HHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHh-------------------cCCHHHHHHHHhhcC-
Q 043490          219 FSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYAR-------------------CGSISLSKQVFDKMT-  278 (589)
Q Consensus       219 ~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~-------------------~g~~~~A~~~~~~~~-  278 (589)
                      +..+...+...|+++.|...+..+.+.. |.+..++..+...|..                   .+..+.|...|++.. 
T Consensus       250 ~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~  328 (472)
T 4g1t_A          250 LRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADE  328 (472)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhh
Confidence            5566666666666666666666666554 4445555555544432                   123566777777654 


Q ss_pred             --CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHH----HHHHHH-HHhccCcHHHHHHHHHHhHHhcCCccCc
Q 043490          279 --YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDSAT----FVSLLS-ACSHAGLVQEGNKVFHSMLENHGVVPQL  350 (589)
Q Consensus       279 --~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t----~~~ll~-a~~~~g~~~~a~~~~~~~~~~~~~~p~~  350 (589)
                        ..+..+|..+...|...|++++|++.|++. ...|+...    +..+.. ...+.|+.++|...|.+..+   +.|+.
T Consensus       329 ~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~---i~~~~  405 (472)
T 4g1t_A          329 ANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK---INQKS  405 (472)
T ss_dssp             HCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH---SCCCC
T ss_pred             cCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCccc
Confidence              345678889999999999999999999998 55555432    222322 23568999999999988764   45654


Q ss_pred             chHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHH
Q 043490          351 DHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQM  422 (589)
Q Consensus       351 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  422 (589)
                      ......         ...+.+++++. ...| +..+|..|...|...|++++|++.++++++++|.++.++.-+
T Consensus       406 ~~~~~~---------~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~  470 (472)
T 4g1t_A          406 REKEKM---------KDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWN  470 (472)
T ss_dssp             HHHHHH---------HHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-----------------------
T ss_pred             HHHHHH---------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcC
Confidence            332222         23334444433 2234 578899999999999999999999999999998776655443

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.63  E-value=1.6e-16  Score=169.52  Aligned_cols=146  Identities=16%  Similarity=0.111  Sum_probs=123.1

Q ss_pred             CCCHHHHHHHHHHHhCcCcHHHHHHHHHHHH---HhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC----CCChhHH
Q 043490          213 APDWCTFSIVLKACAGLVTERHASAVHSLIA---KYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT----YHDLVSW  285 (589)
Q Consensus       213 ~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~---~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~  285 (589)
                      .--..||+++|++|++.|++++|.+++..|.   +.|+.||+.+||+||++|++.|++++|.++|++|.    .||++||
T Consensus       124 ~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTY  203 (1134)
T 3spa_A          124 SGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSY  203 (1134)
T ss_dssp             CHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH
Confidence            3445799999999999999999999998876   45899999999999999999999999999999997    7999999


Q ss_pred             HHHHHHHHHcCC-HHHHHHHHHhC---CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccC------cchHHH
Q 043490          286 NSILKAYALHGQ-AKEALQLFSNM---NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ------LDHYAC  355 (589)
Q Consensus       286 ~~li~~~~~~g~-~~~A~~~~~~m---~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~------~~~~~~  355 (589)
                      |+||.++++.|+ .++|.++|++|   |+.||.+||+.+++++.+.+-++...++.    .  ++.|+      ..+...
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~----P--~f~p~~~~~~~~~t~~L  277 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVK----P--TFSLPPQLPPPVNTSKL  277 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGC----C--CCCCCCCCCCCCCCCTT
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhC----c--ccCCCCCCcccccchHH
Confidence            999999999998 47899999999   99999999999998776654444443332    2  34443      556667


Q ss_pred             HHHHHhhcC
Q 043490          356 MVDLLGRVG  364 (589)
Q Consensus       356 li~~~~~~g  364 (589)
                      |.+.|.+.+
T Consensus       278 L~dl~s~d~  286 (1134)
T 3spa_A          278 LRDVYAKDG  286 (1134)
T ss_dssp             THHHHCCCS
T ss_pred             HHHHHccCC
Confidence            888888766

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.61  E-value=6e-14  Score=134.16  Aligned_cols=241  Identities=10%  Similarity=-0.095  Sum_probs=196.9

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMA---PDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSIS  268 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~---p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  268 (589)
                      ...|++++|+..|+++.+....   .+..++..+...+...|+++.|...+..+++.. +.+..++..+...|...|+++
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            4457889999999999876321   245678888899999999999999999999886 667899999999999999999


Q ss_pred             HHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhc
Q 043490          269 LSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENH  344 (589)
Q Consensus       269 ~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  344 (589)
                      +|...|++..   ..+..+|..+...|...|++++|++.|+++ ...|+.......+..+...|++++|...+...... 
T Consensus        95 ~A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-  173 (275)
T 1xnf_A           95 AAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK-  173 (275)
T ss_dssp             HHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc-
Confidence            9999999887   346789999999999999999999999999 77777666666666667789999999999887654 


Q ss_pred             CCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-----HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhH
Q 043490          345 GVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-----SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLG  418 (589)
Q Consensus       345 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  418 (589)
                        .|+......++..+...++.++|.+.+++. ...|+     ..+|..+...+...|++++|...++++.+.+|.+...
T Consensus       174 --~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~  251 (275)
T 1xnf_A          174 --SDKEQWGWNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVE  251 (275)
T ss_dssp             --SCCCSTHHHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHH
T ss_pred             --CCcchHHHHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHHH
Confidence              233333445788888889999999999887 33332     5788999999999999999999999999999976544


Q ss_pred             HHHHHHHhhhcCChHHHHHHH
Q 043490          419 FVQMSNIYCLSGSFNKARLIR  439 (589)
Q Consensus       419 ~~~l~~~~~~~g~~~~a~~~~  439 (589)
                      +   ..++...|++++|.+.+
T Consensus       252 ~---~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          252 H---RYALLELSLLGQDQDDL  269 (275)
T ss_dssp             H---HHHHHHHHHHHHC----
T ss_pred             H---HHHHHHHHHHHhhHHHH
Confidence            3   56777888998888766

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.60  E-value=5.7e-14  Score=132.77  Aligned_cols=218  Identities=11%  Similarity=-0.031  Sum_probs=181.2

Q ss_pred             HHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC--C----C----hhHHH
Q 043490          217 CTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY--H----D----LVSWN  286 (589)
Q Consensus       217 ~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~----~----~~~~~  286 (589)
                      ..+..+...+...|+++.|...+..+++..  .+..++..+...|...|++++|...|++..+  |    +    ..+|.
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            456667777778888888888888888877  6778888888888888888888888887762  1    1    57888


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCC
Q 043490          287 SILKAYALHGQAKEALQLFSNM-NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGR  365 (589)
Q Consensus       287 ~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  365 (589)
                      .+...|...|++++|++.|++. ...|+..       .+...|++++|.+.++.+...  .+.+...+..+...|...|+
T Consensus        84 ~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~-------~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~  154 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTIEYYQKSLTEHRTAD-------ILTKLRNAEKELKKAEAEAYV--NPEKAEEARLEGKEYFTKSD  154 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCCHH-------HHHHHHHHHHHHHHHHHHHHC--CHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCchhH-------HHHHHhHHHHHHHHHHHHHHc--CcchHHHHHHHHHHHHHhcC
Confidence            8889999999999999999998 6667743       455568899999999888643  12255678888999999999


Q ss_pred             HHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          366 ILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       366 ~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      +++|.+.++++ ...| +..+|..+...+...|++++|...++++++..|.++.++..++.+|.+.|++++|...+++..
T Consensus       155 ~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~  234 (258)
T 3uq3_A          155 WPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAAR  234 (258)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            99999999988 3334 588899999999999999999999999999999999999999999999999999999999887


Q ss_pred             cC
Q 043490          444 GS  445 (589)
Q Consensus       444 ~~  445 (589)
                      +.
T Consensus       235 ~~  236 (258)
T 3uq3_A          235 TK  236 (258)
T ss_dssp             HH
T ss_pred             Hh
Confidence            54

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.60  E-value=4e-14  Score=130.52  Aligned_cols=193  Identities=15%  Similarity=0.059  Sum_probs=152.3

Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHH
Q 043490          248 EDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLS  322 (589)
Q Consensus       248 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~  322 (589)
                      |++...+..+...+.+.|++++|...|++..   ..+...|..+...+.+.|++++|+..|++. ...|+ ...+..+..
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~   81 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVARTPRYLGGYMVLSE   81 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHH
Confidence            5677778888888889999999999988765   346678888888899999999999999988 66675 457788888


Q ss_pred             HHhcc-----------CcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHHHHHHH
Q 043490          323 ACSHA-----------GLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPDSVIWSVLL  389 (589)
Q Consensus       323 a~~~~-----------g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll  389 (589)
                      ++...           |++++|...++...+.   .| +...+..+...|...|++++|+..|++. .+..+...|..+.
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~---~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~la  158 (217)
T 2pl2_A           82 AYVALYRQAEDRERGKGYLEQALSVLKDAERV---NPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSALA  158 (217)
T ss_dssp             HHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHH
T ss_pred             HHHHhhhhhhhhcccccCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHHHH
Confidence            88888           9999999999988754   45 4567888899999999999999999987 2226789999999


Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          390 GSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       390 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      .++...|++++|+..++++++.+|+++..+..++.+|...|++++|...+++..
T Consensus       159 ~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          159 ELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999999999988654

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.56  E-value=1.6e-13  Score=129.58  Aligned_cols=232  Identities=11%  Similarity=-0.016  Sum_probs=195.1

Q ss_pred             hHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCC-
Q 043490          169 ISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGF-  247 (589)
Q Consensus       169 ~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~-  247 (589)
                      ..|..+...+             ...|++++|+..|++..+..  .+...+..+..++...|+++.|...+..+++..- 
T Consensus         6 ~~~~~~g~~~-------------~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~   70 (258)
T 3uq3_A            6 DKEKAEGNKF-------------YKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGRE   70 (258)
T ss_dssp             HHHHHHHHHH-------------HHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH-------------HHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcc
Confidence            4566667777             89999999999999998877  7888999999999999999999999999887641 


Q ss_pred             -CCc----HHHHHHHHHHHHhcCCHHHHHHHHhhcC--CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHH
Q 043490          248 -EDD----TVIANALIHAYARCGSISLSKQVFDKMT--YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFV  318 (589)
Q Consensus       248 -~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~  318 (589)
                       .++    ..++..+...|.+.|++++|...|++..  .++       ...+...|++++|+..++++ ...|+ ...+.
T Consensus        71 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  143 (258)
T 3uq3_A           71 MRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRT-------ADILTKLRNAEKELKKAEAEAYVNPEKAEEAR  143 (258)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-------HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             cccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCch-------hHHHHHHhHHHHHHHHHHHHHHcCcchHHHHH
Confidence             112    5888999999999999999999999887  344       24567788999999999999 66664 45788


Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcC
Q 043490          319 SLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHG  396 (589)
Q Consensus       319 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g  396 (589)
                      .+...+...|++++|.+.++...+..  +.+...+..+...|.+.|++++|.+.+++. ...|+ ...|..+...+...|
T Consensus       144 ~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g  221 (258)
T 3uq3_A          144 LEGKEYFTKSDWPNAVKAYTEMIKRA--PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVK  221 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHh
Confidence            88889999999999999999987642  235678999999999999999999999988 33454 888999999999999


Q ss_pred             CHHHHHHHHHHHhhcC------CCChhHHHHHHH
Q 043490          397 ETRLAELAATKLKQLE------PGDSLGFVQMSN  424 (589)
Q Consensus       397 ~~~~a~~~~~~~~~~~------p~~~~~~~~l~~  424 (589)
                      ++++|...++++.++.      |.+...+..+..
T Consensus       222 ~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~~  255 (258)
T 3uq3_A          222 EYASALETLDAARTKDAEVNNGSSAREIDQLYYK  255 (258)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhChhhcCCCchHHHHHHHHH
Confidence            9999999999999988      766666655544

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.55  E-value=5.6e-11  Score=131.24  Aligned_cols=311  Identities=14%  Similarity=0.129  Sum_probs=164.0

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHHHHHHHHhCC
Q 043490            8 YATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHG   87 (589)
Q Consensus         8 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g   87 (589)
                      ...+...|...|.+++|.++|+...       ......+.++   -..|++++|.++.++..  +..+|..+..++.+.|
T Consensus      1052 ~~eIA~Iai~lglyEEAf~IYkKa~-------~~~~A~~VLi---e~i~nldrAiE~Aervn--~p~vWsqLAKAql~~G 1119 (1630)
T 1xi4_A         1052 APDIANIAISNELFEEAFAIFRKFD-------VNTSAVQVLI---EHIGNLDRAYEFAERCN--EPAVWSQLAKAQLQKG 1119 (1630)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcC-------CHHHHHHHHH---HHHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCC
Confidence            3445677888999999999998763       2222223333   26788899988888774  4677888889999999


Q ss_pred             ChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCC-
Q 043490           88 NAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEF-  165 (589)
Q Consensus        88 ~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~-  165 (589)
                      ++++|++.|.+.                                    .|...|..++..+.+ |++++|.+.|....+ 
T Consensus      1120 ~~kEAIdsYiKA------------------------------------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~ 1163 (1630)
T 1xi4_A         1120 MVKEAIDSYIKA------------------------------------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK 1163 (1630)
T ss_pred             CHHHHHHHHHhc------------------------------------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            999999888543                                    233334445555555 666666665544321 


Q ss_pred             -CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHH
Q 043490          166 -RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAK  244 (589)
Q Consensus       166 -~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~  244 (589)
                       ++....+.++.+|             ++.+++++.. -|   ..   .|+...|..+...|...|++++|..+|..+  
T Consensus      1164 ~~e~~Idt~LafaY-------------AKl~rleele-~f---I~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA-- 1221 (1630)
T 1xi4_A         1164 ARESYVETELIFAL-------------AKTNRLAELE-EF---IN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-- 1221 (1630)
T ss_pred             cccccccHHHHHHH-------------HhhcCHHHHH-HH---Hh---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh--
Confidence             2222223355555             4444444321 11   11   233444445555555555555555555543  


Q ss_pred             hCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 043490          245 YGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSAC  324 (589)
Q Consensus       245 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~  324 (589)
                             ..|..+...|.+.|++++|.+.+++.  .+..+|..+-.+|...|++..|......  +..+...+..++..|
T Consensus      1222 -------~ny~rLA~tLvkLge~q~AIEaarKA--~n~~aWkev~~acve~~Ef~LA~~cgl~--Iiv~~deLeeli~yY 1290 (1630)
T 1xi4_A         1222 -------SNFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRLAQMCGLH--IVVHADELEELINYY 1290 (1630)
T ss_pred             -------hHHHHHHHHHHHhCCHHHHHHHHHHh--CCHHHHHHHHHHHhhhhHHHHHHHHHHh--hhcCHHHHHHHHHHH
Confidence                   24555555555555555555555554  3345555555555555555555544432  222333344455555


Q ss_pred             hccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhh--cCCHHHHHHHHHhC-CCCC------CHHHHHHHHHHHHH
Q 043490          325 SHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGR--VGRILEAEKLIREM-PMEP------DSVIWSVLLGSCRK  394 (589)
Q Consensus       325 ~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~--~g~~~~A~~~~~~m-~~~p------~~~~~~~ll~~~~~  394 (589)
                      ...|.+++|..+++...   ++.| ....|+-|..+|++  -+++.++.++|..- .+.|      +...|..+...|.+
T Consensus      1291 e~~G~feEAI~LlE~aL---~LeraH~gmftELaiLyaKy~peklmEhlk~f~~rini~k~~r~~e~~~lW~elv~LY~~ 1367 (1630)
T 1xi4_A         1291 QDRGYFEELITMLEAAL---GLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDK 1367 (1630)
T ss_pred             HHcCCHHHHHHHHHHHh---ccChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcccchHhHHHHHHHHHHHHHHHHHh
Confidence            55555555555554332   2222 22233333333333  23444444444332 2222      24445555555555


Q ss_pred             cCCHHHHH
Q 043490          395 HGETRLAE  402 (589)
Q Consensus       395 ~g~~~~a~  402 (589)
                      .|+++.|.
T Consensus      1368 ~~e~dnA~ 1375 (1630)
T 1xi4_A         1368 YEEYDNAI 1375 (1630)
T ss_pred             cccHHHHH
Confidence            55555554

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.54  E-value=6e-13  Score=127.02  Aligned_cols=234  Identities=13%  Similarity=0.002  Sum_probs=183.9

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCc--HHHHHHHHHHHHhcCCHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDD--TVIANALIHAYARCGSISL  269 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~--~~~~~~li~~~~~~g~~~~  269 (589)
                      ...|++++|+..|++..+.. +.+...+..+...+...|+++.|...+..+++.+-.++  ...+..+...|.+.|++++
T Consensus        14 ~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~   92 (272)
T 3u4t_A           14 FKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSL   92 (272)
T ss_dssp             HTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHH
Confidence            88999999999999998853 22444778888899999999999999999998432222  3348899999999999999


Q ss_pred             HHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhc
Q 043490          270 SKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDS-ATFVSLLSACSHAGLVQEGNKVFHSMLENH  344 (589)
Q Consensus       270 A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  344 (589)
                      |.+.|++..   ..+..+|..+...|...|++++|++.|++. ...|+. ..+..+...+...+++++|.+.|+.+.+. 
T Consensus        93 A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~-  171 (272)
T 3u4t_A           93 AIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKADSSFVKVLEL-  171 (272)
T ss_dssp             HHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-
Confidence            999999876   446689999999999999999999999999 777754 56666662555566999999999998764 


Q ss_pred             CCccC-cchHHHHHHHHhhcCC---HHHHHHHHHhC----CCCCC------HHHHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 043490          345 GVVPQ-LDHYACMVDLLGRVGR---ILEAEKLIREM----PMEPD------SVIWSVLLGSCRKHGETRLAELAATKLKQ  410 (589)
Q Consensus       345 ~~~p~-~~~~~~li~~~~~~g~---~~~A~~~~~~m----~~~p~------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  410 (589)
                        .|+ ...+..+...+...|+   +++|...+++.    ...|+      ..+|..+...|...|++++|...++++.+
T Consensus       172 --~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  249 (272)
T 3u4t_A          172 --KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILA  249 (272)
T ss_dssp             --STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             --CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence              443 5677778888888887   77777777766    11233      35788888999999999999999999999


Q ss_pred             cCCCChhHHHHHHHHhhhc
Q 043490          411 LEPGDSLGFVQMSNIYCLS  429 (589)
Q Consensus       411 ~~p~~~~~~~~l~~~~~~~  429 (589)
                      ++|+++.+...+.......
T Consensus       250 ~~p~~~~a~~~l~~~~~~~  268 (272)
T 3u4t_A          250 LDPTNKKAIDGLKMKLEHH  268 (272)
T ss_dssp             HCTTCHHHHHHHC------
T ss_pred             cCccHHHHHHHhhhhhccc
Confidence            9999988777766555443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.49  E-value=1.2e-12  Score=134.74  Aligned_cols=371  Identities=8%  Similarity=-0.019  Sum_probs=173.2

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCCh---HHHHHHHhcCCCCCcchHHHHHHHHHhCC
Q 043490           11 LFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYL---DDARHLFDEMPKRNVVSWTALISGYAQHG   87 (589)
Q Consensus        11 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~---~~A~~~f~~m~~~~~~~~~~li~~~~~~g   87 (589)
                      +...+.+.|++++|.++|....+.     .++..+..|..+|...|+.   ++|...|++..+.++..+..|...+...|
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~-----g~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~   83 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAEL-----GYSEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKP   83 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH-----TCCTGGGTCC----------------------------CHHHHHHHHHTC-
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHC-----CCHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCC
Confidence            566677889999999999999876     3444556677788888888   99999999888777788888888666665


Q ss_pred             -----ChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHH---HHHH
Q 043490           88 -----NAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCAD---EAWK  158 (589)
Q Consensus        88 -----~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~---~A~~  158 (589)
                           ++++|+..|++..+...|+                                 .+..|..+|.. +..+   ++..
T Consensus        84 ~~~~~~~~~A~~~~~~Aa~~g~~~---------------------------------A~~~Lg~~y~~~~~~~~~~~a~~  130 (452)
T 3e4b_A           84 GATEAEHHEAESLLKKAFANGEGN---------------------------------TLIPLAMLYLQYPHSFPNVNAQQ  130 (452)
T ss_dssp             -CCHHHHHHHHHHHHHHHHTTCSS---------------------------------CHHHHHHHHHHCGGGCTTCCHHH
T ss_pred             CCCCcCHHHHHHHHHHHHHCCCHH---------------------------------HHHHHHHHHHhCCCCCCCHHHHH
Confidence                 7789999998887652222                                 22222222322 2111   1111


Q ss_pred             HHhhCC-CCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHH----HHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcC---
Q 043490          159 VFENME-FRNVISWNSMIAAFRACKLEAQAIELFAKMKNEE----EALFLFRQLQREGMAPDWCTFSIVLKACAGLV---  230 (589)
Q Consensus       159 lf~~m~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~----~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~---  230 (589)
                      .+.... ..+...+..+...|             ...+.++    ++..+++.... + .|+  .+..+...+...|   
T Consensus       131 ~~~~a~~~g~~~a~~~Lg~~y-------------~~~~~~~~~~~~a~~~~~~a~~-~-~~~--a~~~Lg~~~~~~g~~~  193 (452)
T 3e4b_A          131 QISQWQAAGYPEAGLAQVLLY-------------RTQGTYDQHLDDVERICKAALN-T-TDI--CYVELATVYQKKQQPE  193 (452)
T ss_dssp             HHHHHHHHTCTTHHHHHHHHH-------------HHHTCGGGGHHHHHHHHHHHTT-T-CTT--HHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHH-------------HcCCCcccCHHHHHHHHHHHHc-C-CHH--HHHHHHHHHHHcCCcc
Confidence            111111 11233344444444             3333222    22222222211 1 122  3444444444445   


Q ss_pred             cHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhc----CCHHHHHHHHhhcCCCChhHHHHHHHH-H--HHcCCHHHHHH
Q 043490          231 TERHASAVHSLIAKYGFEDDTVIANALIHAYARC----GSISLSKQVFDKMTYHDLVSWNSILKA-Y--ALHGQAKEALQ  303 (589)
Q Consensus       231 ~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~----g~~~~A~~~~~~~~~~~~~~~~~li~~-~--~~~g~~~~A~~  303 (589)
                      +.++|...+....+.| +++...+..|..+|...    +++++|.+.|++....+..++..+... |  ...++.++|++
T Consensus       194 ~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~  272 (452)
T 3e4b_A          194 QQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIAPGYPASWVSLAQLLYDFPELGDVEQMMK  272 (452)
T ss_dssp             HHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHGGGSTHHHHHHHHHHHHSGGGCCHHHHHH
T ss_pred             cHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHH
Confidence            5555555555555555 33444444455555433    455555555555542244455555444 2  23555666666


Q ss_pred             HHHhC-CCCCCHHHHHHHHHHHhccC-----cHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhh----cCCHHHHHHHH
Q 043490          304 LFSNM-NVQPDSATFVSLLSACSHAG-----LVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGR----VGRILEAEKLI  373 (589)
Q Consensus       304 ~~~~m-~~~p~~~t~~~ll~a~~~~g-----~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~  373 (589)
                      .|++. .. -+...+..|...|. .|     ++++|.+.|+...     .-+...+..|..+|..    ..++++|...|
T Consensus       273 ~~~~Aa~~-g~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~  345 (452)
T 3e4b_A          273 YLDNGRAA-DQPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHL  345 (452)
T ss_dssp             HHHHHHHT-TCHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHH
T ss_pred             HHHHHHHC-CCHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHH
Confidence            66555 11 13444444444444 33     5666666665442     2233444455555544    23666666666


Q ss_pred             HhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          374 REMPMEPDSVIWSVLLGSCRK----HGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       374 ~~m~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      ++.--.-+......|...|..    .++.++|...+++..+.++++.......+......++..+|.++.++.++
T Consensus       346 ~~Aa~~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          346 LTAARNGQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTPEANDLATQLEAPLTPAQRAEGQRLVQQELA  420 (452)
T ss_dssp             HHHHTTTCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            665111223333444444442    34677777777777776653333333333333344556667666665543

>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=99.49  E-value=4.5e-12  Score=119.39  Aligned_cols=198  Identities=14%  Similarity=0.036  Sum_probs=111.4

Q ss_pred             HHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHH
Q 043490          217 CTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYA  293 (589)
Q Consensus       217 ~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~  293 (589)
                      ..+..+...+...|+++.|...+..+.+.. +.+..++..+...|.+.|++++|.+.|+++.   ..+...|..+...|.
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~  116 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLY  116 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHH
Confidence            344555555566666666666666666554 4455566666666666666666666666554   234455666666666


Q ss_pred             HcCCHHHHHHHHHhC-C--CCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHH
Q 043490          294 LHGQAKEALQLFSNM-N--VQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEA  369 (589)
Q Consensus       294 ~~g~~~~A~~~~~~m-~--~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  369 (589)
                      ..|++++|++.|+++ .  ..|+ ...+..+...+...|++++|.+.++.+.+..  +.+...+..+...|.+.|++++|
T Consensus       117 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          117 EQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN--RNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHcCCHHHH
Confidence            666666666666666 3  4443 3345555555666666666666666554331  11344455555555556666666


Q ss_pred             HHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChh
Q 043490          370 EKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSL  417 (589)
Q Consensus       370 ~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  417 (589)
                      ...++++ ...| +...+..+...+...|+.++|...++++.+..|.++.
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  244 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGSLE  244 (252)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSHH
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCHH
Confidence            6555554 2222 3445555555555556666666666666555554443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.49  E-value=2.1e-12  Score=119.10  Aligned_cols=194  Identities=12%  Similarity=0.052  Sum_probs=121.8

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 043490          250 DTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSAC  324 (589)
Q Consensus       250 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~  324 (589)
                      +..++..+...|...|++++|.+.|+++.   ..+...|..+...|...|++++|++.|+++ ...| +..++..+...+
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~   86 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFL   86 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            34455555566666666666666665544   234455666666666666666666666666 3333 345566666666


Q ss_pred             hcc-CcHHHHHHHHHHhHHhcCCccC-cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHH
Q 043490          325 SHA-GLVQEGNKVFHSMLENHGVVPQ-LDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRL  400 (589)
Q Consensus       325 ~~~-g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~  400 (589)
                      ... |++++|.+.++.+.+ .+..|+ ...+..+...|.+.|++++|.+.++++ ...| +...|..+...+...|++++
T Consensus        87 ~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  165 (225)
T 2vq2_A           87 CGRLNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLGD  165 (225)
T ss_dssp             HTTTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHhcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHH
Confidence            666 677777776666654 122222 345666666666777777777776665 2233 36666777777777777777


Q ss_pred             HHHHHHHHhhcCC-CChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          401 AELAATKLKQLEP-GDSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       401 a~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      |...++++.+..| .+...+..+...+...|+.+++..+++.+.+
T Consensus       166 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          166 ADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             HHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            7777777777777 6777777777777777777777777776654

>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=99.48  E-value=2.2e-12  Score=129.00  Aligned_cols=242  Identities=10%  Similarity=0.036  Sum_probs=200.1

Q ss_pred             hhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCc-HHHHHHHHHHHHHhC
Q 043490          168 VISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVT-ERHASAVHSLIAKYG  246 (589)
Q Consensus       168 ~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~-~~~a~~i~~~~~~~g  246 (589)
                      ...|+.+...+             .+.|++++|++.|++.+... +-+...|..+..++...|+ +++|...++.+++..
T Consensus        97 ~~a~~~lg~~~-------------~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~  162 (382)
T 2h6f_A           97 RDVYDYFRAVL-------------QRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ  162 (382)
T ss_dssp             HHHHHHHHHHH-------------HHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHH-------------HHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC
Confidence            45677777777             89999999999999998853 2356788888888999996 999999999999987


Q ss_pred             CCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHH
Q 043490          247 FEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLL  321 (589)
Q Consensus       247 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll  321 (589)
                       +.+..+|+.+..+|.+.|++++|...|+++.   ..+..+|..+..++...|++++|+..|+++ .+.|+ ...|+.+.
T Consensus       163 -P~~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~~~~a~~~lg  241 (382)
T 2h6f_A          163 -PKNYQVWHHRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRY  241 (382)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence             6688999999999999999999999999887   457789999999999999999999999999 77774 56888888


Q ss_pred             HHHhc-cCcHHHH-----HHHHHHhHHhcCCcc-CcchHHHHHHHHhhcC--CHHHHHHHHHhCCCCCC-HHHHHHHHHH
Q 043490          322 SACSH-AGLVQEG-----NKVFHSMLENHGVVP-QLDHYACMVDLLGRVG--RILEAEKLIREMPMEPD-SVIWSVLLGS  391 (589)
Q Consensus       322 ~a~~~-~g~~~~a-----~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~p~-~~~~~~ll~~  391 (589)
                      .++.. .|..++|     .+.++..++.   .| +...|..+..+|.+.|  ++++|++.+.++...|+ ...+..+...
T Consensus       242 ~~l~~l~~~~~eA~~~~el~~~~~Al~l---~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~  318 (382)
T 2h6f_A          242 FVISNTTGYNDRAVLEREVQYTLEMIKL---VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDI  318 (382)
T ss_dssp             HHHHHTTCSCSHHHHHHHHHHHHHHHHH---STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHH
T ss_pred             HHHHHhcCcchHHHHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHH
Confidence            88888 5665777     4778777643   55 4567888888888888  68999999888755565 7788888888


Q ss_pred             HHHcC--------C-HHHHHHHHHHH-hhcCCCChhHHHHHHHHhh
Q 043490          392 CRKHG--------E-TRLAELAATKL-KQLEPGDSLGFVQMSNIYC  427 (589)
Q Consensus       392 ~~~~g--------~-~~~a~~~~~~~-~~~~p~~~~~~~~l~~~~~  427 (589)
                      |.+.|        + .++|+.+++++ .+++|.....|..+...+.
T Consensus       319 ~~~~~~~~~~~~~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~  364 (382)
T 2h6f_A          319 YEDMLENQCDNKEDILNKALELCEILAKEKDTIRKEYWRYIGRSLQ  364 (382)
T ss_dssp             HHHHHHTTCSSHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHH
T ss_pred             HHHHhcccccchHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHH
Confidence            88864        2 58999999999 8999988888877766554

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.47  E-value=8e-13  Score=123.68  Aligned_cols=206  Identities=11%  Similarity=0.038  Sum_probs=109.1

Q ss_pred             CHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHH
Q 043490          215 DWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKA  291 (589)
Q Consensus       215 ~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~  291 (589)
                      ...+|..+...+...|+++.|...+..+++.. +.+..++..+...|.+.|++++|...|+++.   ..+...|..+...
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~  100 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNV  100 (243)
T ss_dssp             --------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            33455555556666677777777776666643 4456666666666666777777766666654   2345566666666


Q ss_pred             HHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHH
Q 043490          292 YALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEA  369 (589)
Q Consensus       292 ~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  369 (589)
                      |...|++++|++.|+++ ...| +...+..+...+...|++++|.+.++.+.+..  +.+...+..+...|.+.|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRAGMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN--ENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHcCCHHHH
Confidence            66666666666666666 3333 34455556666666666666666666654431  12344555555666666666666


Q ss_pred             HHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHH
Q 043490          370 EKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMS  423 (589)
Q Consensus       370 ~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  423 (589)
                      .+.++++ ...| +..+|..+...+...|++++|...++++.+..|+++.++..+.
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~  234 (243)
T 2q7f_A          179 LSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHMLALHAKK  234 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCHHHHHHHT
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchHHHHHHHH
Confidence            6666555 2222 3555556666666666666666666666666665555544443

>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=99.47  E-value=2e-12  Score=121.92  Aligned_cols=195  Identities=8%  Similarity=-0.028  Sum_probs=171.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHh
Q 043490          251 TVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACS  325 (589)
Q Consensus       251 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~  325 (589)
                      ...+..+...|...|++++|...|+++.   ..+...|..+...|...|++++|++.|+++ ...| +...+..+...+.
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~  116 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLY  116 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHH
Confidence            5678888999999999999999999876   446788999999999999999999999999 5555 5678888999999


Q ss_pred             ccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHH
Q 043490          326 HAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAE  402 (589)
Q Consensus       326 ~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~  402 (589)
                      ..|++++|.++++.+.+ .+..| +...+..+...|.+.|++++|.+.++++ ...| +...|..+...+...|++++|.
T Consensus       117 ~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  195 (252)
T 2ho1_A          117 EQKRYEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPAR  195 (252)
T ss_dssp             HTTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhHHHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999998865 23445 4567888899999999999999999987 3344 4888999999999999999999


Q ss_pred             HHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          403 LAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       403 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      ..++++.+..|.+...+..++.+|.+.|++++|.+.++++.+..
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          196 QYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            99999999999999999999999999999999999999987654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.46  E-value=9.7e-13  Score=121.18  Aligned_cols=193  Identities=14%  Similarity=0.053  Sum_probs=132.3

Q ss_pred             CCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHH
Q 043490          213 APDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSIL  289 (589)
Q Consensus       213 ~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li  289 (589)
                      +++...+..+...+.+.|++++|...++.+++.. |.+...+..+...|.+.|++++|...|++..   ..+...|..+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg   80 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTPRYLGGYMVLS   80 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHH
Confidence            3455566667777777788888888887777765 5667777777788888888888888887765   33556777777


Q ss_pred             HHHHHc-----------CCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHH
Q 043490          290 KAYALH-----------GQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACM  356 (589)
Q Consensus       290 ~~~~~~-----------g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  356 (589)
                      ..|...           |++++|+..|++. ...|+ ...+..+..++...|++++|...|+..++. .  .+...+..+
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~--~~~~~~~~l  157 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALAL-E--DTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C--CCHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhc-c--cchHHHHHH
Confidence            777777           8888888888888 66664 456777777888888888888888887665 3  566677788


Q ss_pred             HHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Q 043490          357 VDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLK  409 (589)
Q Consensus       357 i~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  409 (589)
                      ..+|...|++++|...|++. ...| +...+..+...+...|++++|...+++..
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            88888888888888888877 3345 37777788888888888888888777653

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.46  E-value=1.3e-11  Score=113.71  Aligned_cols=205  Identities=9%  Similarity=-0.049  Sum_probs=170.1

Q ss_pred             CHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHH
Q 043490          215 DWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKA  291 (589)
Q Consensus       215 ~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~  291 (589)
                      +...+..+...+...|+++.|.+.+..+.+.. +.+..++..+...|...|++++|.+.|+++.   ..+..+|..+...
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~   85 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHH
Confidence            45567777888888999999999999888875 5667888889999999999999999998876   3467788889999


Q ss_pred             HHHc-CCHHHHHHHHHhC-C--CCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCH
Q 043490          292 YALH-GQAKEALQLFSNM-N--VQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRI  366 (589)
Q Consensus       292 ~~~~-g~~~~A~~~~~~m-~--~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  366 (589)
                      |... |++++|+..|+++ .  ..|+ ...+..+..++...|++++|.+.++.+.+..  +.+...+..+...|.+.|++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ--PQFPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCchHHHHHHHHHHHcCCH
Confidence            9999 9999999999998 5  4554 4678888889999999999999999887542  22467788899999999999


Q ss_pred             HHHHHHHHhC-CCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHH
Q 043490          367 LEAEKLIREM-PMEP--DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQM  422 (589)
Q Consensus       367 ~~A~~~~~~m-~~~p--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  422 (589)
                      ++|.+.++++ ...|  +...+..+...+...|+.+.+..+++.+.+..|+++.....+
T Consensus       164 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  222 (225)
T 2vq2_A          164 GDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANFPYSEELQTVL  222 (225)
T ss_dssp             HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHh
Confidence            9999999987 3333  577788888888999999999999999999999887665443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.44  E-value=1.2e-11  Score=117.96  Aligned_cols=236  Identities=11%  Similarity=0.056  Sum_probs=186.5

Q ss_pred             HHHHHHHHhc-CCHHHHHHHHhhCCC---CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-
Q 043490          141 ANALINMYSK-SCADEAWKVFENMEF---RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPD-  215 (589)
Q Consensus       141 ~~~li~~y~~-g~~~~A~~lf~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~-  215 (589)
                      .......+.+ |++++|...|++..+   .+...|..+...|             ...|++++|+..|++....+..|+ 
T Consensus         6 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~-------------~~~~~~~~A~~~~~~a~~~~~~~~~   72 (272)
T 3u4t_A            6 EFRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCY-------------YELAKYDLAQKDIETYFSKVNATKA   72 (272)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHH-------------HHTTCHHHHHHHHHHHHTTSCTTTC
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH-------------HHHhhHHHHHHHHHHHHhccCchhH
Confidence            3445566778 999999999998753   3456888888888             999999999999999988432222 


Q ss_pred             -HHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHH
Q 043490          216 -WCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY---HDLVSWNSILKA  291 (589)
Q Consensus       216 -~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~  291 (589)
                       ...|..+...+...|+++.|...+..+.+.. +.+..++..+...|...|++++|...|++..+   .+...|..+...
T Consensus        73 ~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~  151 (272)
T 3u4t_A           73 KSADFEYYGKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQA  151 (272)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHH
Confidence             3458888899999999999999999999886 56778999999999999999999999999873   356678777734


Q ss_pred             HHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCc---HHHHHHHHHHhHHhcCCccCc------chHHHHHHHH
Q 043490          292 YALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGL---VQEGNKVFHSMLENHGVVPQL------DHYACMVDLL  360 (589)
Q Consensus       292 ~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~---~~~a~~~~~~~~~~~~~~p~~------~~~~~li~~~  360 (589)
                      +...+++++|++.|++. ...|+ ...+..+..++...|+   +++|...++...+...-.|+.      ..|..+...|
T Consensus       152 ~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  231 (272)
T 3u4t_A          152 YYYNKEYVKADSSFVKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYY  231 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHH
Confidence            44456999999999999 66665 5677777888887787   888888888887654334542      5788889999


Q ss_pred             hhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHH
Q 043490          361 GRVGRILEAEKLIREM-PMEPD-SVIWSVLLG  390 (589)
Q Consensus       361 ~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~  390 (589)
                      .+.|++++|.+.+++. .+.|+ ...+..+-.
T Consensus       232 ~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~  263 (272)
T 3u4t_A          232 TINRDKVKADAAWKNILALDPTNKKAIDGLKM  263 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHC-
T ss_pred             HHcCCHHHHHHHHHHHHhcCccHHHHHHHhhh
Confidence            9999999999999988 44564 555544433

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.44  E-value=1.7e-12  Score=121.41  Aligned_cols=196  Identities=11%  Similarity=0.126  Sum_probs=154.6

Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHH
Q 043490          249 DDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSA  323 (589)
Q Consensus       249 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a  323 (589)
                      .....+..+...+...|++++|...|+++.   ..+...|..+...|...|++++|++.|+++ ...| +..++..+...
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~  100 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNV  100 (243)
T ss_dssp             ---------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            455677788889999999999999999886   346788999999999999999999999999 5555 56788889999


Q ss_pred             HhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHH
Q 043490          324 CSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLA  401 (589)
Q Consensus       324 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a  401 (589)
                      +...|++++|.+.++.+.+..  +.+...+..+...|.+.|++++|.+.++++ ...| +...|..+...+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRAG--MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHT--CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHH
Confidence            999999999999999987642  335668888999999999999999999988 3334 588899999999999999999


Q ss_pred             HHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          402 ELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       402 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      ...++++.+..|.+..++..++.+|.+.|++++|...+++..+..
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          179 LSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            999999999999999999999999999999999999999987643

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.44  E-value=1.4e-12  Score=132.65  Aligned_cols=252  Identities=10%  Similarity=0.020  Sum_probs=200.3

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHhCcCcHHHHHHHHHHHHHh----C-CCCcHHHHHHHHHHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPDW----CTFSIVLKACAGLVTERHASAVHSLIAKY----G-FEDDTVIANALIHAYA  262 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~~----~t~~~ll~a~~~~~~~~~a~~i~~~~~~~----g-~~~~~~~~~~li~~~~  262 (589)
                      ...|++++|+..|++..+.+. .+.    ..+..+...+...|+++.|...+..+++.    + .+....++..+...|.
T Consensus        59 ~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~  137 (411)
T 4a1s_A           59 CNAGDCRAGVAFFQAAIQAGT-EDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLK  137 (411)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHhcc-cChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHH
Confidence            889999999999999988632 233    46778888889999999999999988764    1 1334567888999999


Q ss_pred             hcCCHHHHHHHHhhcCC---------CChhHHHHHHHHHHHcCC-----------------HHHHHHHHHhC-------C
Q 043490          263 RCGSISLSKQVFDKMTY---------HDLVSWNSILKAYALHGQ-----------------AKEALQLFSNM-------N  309 (589)
Q Consensus       263 ~~g~~~~A~~~~~~~~~---------~~~~~~~~li~~~~~~g~-----------------~~~A~~~~~~m-------~  309 (589)
                      ..|++++|...|++...         ....+|..+...|...|+                 +++|++.+++.       +
T Consensus       138 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~  217 (411)
T 4a1s_A          138 VMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLG  217 (411)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcC
Confidence            99999999999988752         123578889999999999                 99999999887       2


Q ss_pred             CCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccC----cchHHHHHHHHhhcCCHHHHHHHHHhC-CC---CC
Q 043490          310 VQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ----LDHYACMVDLLGRVGRILEAEKLIREM-PM---EP  380 (589)
Q Consensus       310 ~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m-~~---~p  380 (589)
                      ..| ...++..+...+...|++++|.+.++...+...-.++    ...+..+...|...|++++|.+.+++. ..   ..
T Consensus       218 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  297 (411)
T 4a1s_A          218 DRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELG  297 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcC
Confidence            122 2347778888999999999999999887653211112    227888999999999999999999877 11   11


Q ss_pred             C----HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC------ChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          381 D----SVIWSVLLGSCRKHGETRLAELAATKLKQLEPG------DSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       381 ~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      +    ..++..+...+...|++++|...++++.+..+.      ...++..++.+|.+.|++++|...+++..+
T Consensus       298 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          298 EREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            1    567888999999999999999999999876432      245788999999999999999999998765

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.44  E-value=4.4e-12  Score=124.48  Aligned_cols=253  Identities=13%  Similarity=0.056  Sum_probs=199.3

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHhCcCcHHHHHHHHHHHHHh----CC-CCcHHHHHHHHHHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPD----WCTFSIVLKACAGLVTERHASAVHSLIAKY----GF-EDDTVIANALIHAYA  262 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~----~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~----g~-~~~~~~~~~li~~~~  262 (589)
                      ...|++++|+..|++..+... .+    ...+..+...+...|+++.|.+.+..+.+.    +. +....++..+...|.
T Consensus        16 ~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~   94 (338)
T 3ro2_A           16 CKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLK   94 (338)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHH
Confidence            889999999999999988632 23    356778888899999999999999887654    21 223567888999999


Q ss_pred             hcCCHHHHHHHHhhcCC-----CC----hhHHHHHHHHHHHcCC--------------------HHHHHHHHHhC-----
Q 043490          263 RCGSISLSKQVFDKMTY-----HD----LVSWNSILKAYALHGQ--------------------AKEALQLFSNM-----  308 (589)
Q Consensus       263 ~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~--------------------~~~A~~~~~~m-----  308 (589)
                      ..|++++|...|++..+     ++    ..++..+...|...|+                    +++|++.+++.     
T Consensus        95 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~  174 (338)
T 3ro2_A           95 VLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVT  174 (338)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999988651     22    3478888999999999                    99999999887     


Q ss_pred             --CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccC----cchHHHHHHHHhhcCCHHHHHHHHHhC----C
Q 043490          309 --NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ----LDHYACMVDLLGRVGRILEAEKLIREM----P  377 (589)
Q Consensus       309 --~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m----~  377 (589)
                        +..|. ..++..+...+...|++++|.+.++...+...-.++    ...+..+...|...|++++|.+.+++.    +
T Consensus       175 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~  254 (338)
T 3ro2_A          175 ALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLAR  254 (338)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence              21222 346778888899999999999999887643211122    237888889999999999999999876    1


Q ss_pred             CCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC------ChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          378 MEPD----SVIWSVLLGSCRKHGETRLAELAATKLKQLEPG------DSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       378 ~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      -.++    ..++..+...+...|++++|...++++.+..+.      ...++..++.+|.+.|++++|...+++..+.
T Consensus       255 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          255 QLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             hhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            1122    567788889999999999999999998876432      1447889999999999999999999988753

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.44  E-value=5.6e-12  Score=127.66  Aligned_cols=252  Identities=12%  Similarity=0.053  Sum_probs=199.7

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHhCcCcHHHHHHHHHHHHHh----CCC-CcHHHHHHHHHHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPD----WCTFSIVLKACAGLVTERHASAVHSLIAKY----GFE-DDTVIANALIHAYA  262 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~----~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~----g~~-~~~~~~~~li~~~~  262 (589)
                      ...|++++|+..|++....+. .+    ...+..+...+...|+++.|...+..+.+.    +-+ ....++..+...|.
T Consensus        20 ~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~   98 (406)
T 3sf4_A           20 CKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLK   98 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHH
Confidence            889999999999999988632 23    356778888889999999999999887654    212 23567888999999


Q ss_pred             hcCCHHHHHHHHhhcCC-----CC----hhHHHHHHHHHHHcCC--------------------HHHHHHHHHhC-----
Q 043490          263 RCGSISLSKQVFDKMTY-----HD----LVSWNSILKAYALHGQ--------------------AKEALQLFSNM-----  308 (589)
Q Consensus       263 ~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~--------------------~~~A~~~~~~m-----  308 (589)
                      ..|++++|...|++..+     ++    ..++..+...|...|+                    +++|++.+++.     
T Consensus        99 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~  178 (406)
T 3sf4_A           99 VLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVT  178 (406)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999988762     22    3478889999999999                    99999999887     


Q ss_pred             --CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccC----cchHHHHHHHHhhcCCHHHHHHHHHhC----C
Q 043490          309 --NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ----LDHYACMVDLLGRVGRILEAEKLIREM----P  377 (589)
Q Consensus       309 --~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m----~  377 (589)
                        +..|. ..++..+...+...|++++|.+.++...+...-.++    ...+..+...|...|++++|...+++.    +
T Consensus       179 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  258 (406)
T 3sf4_A          179 ALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLAR  258 (406)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             hccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHH
Confidence              11222 346778888999999999999999887653221222    237888899999999999999999876    1


Q ss_pred             CCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC------hhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          378 MEPD----SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGD------SLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       378 ~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      -.++    ..++..+...+...|++++|...++++.+..+..      ..++..++.+|...|++++|...+++..+
T Consensus       259 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          259 QLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            1122    5678888999999999999999999998764322      56788999999999999999999998764

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.44  E-value=1.5e-12  Score=134.94  Aligned_cols=207  Identities=7%  Similarity=-0.034  Sum_probs=174.1

Q ss_pred             HHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCH-HHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHh
Q 043490          232 ERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSI-SLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSN  307 (589)
Q Consensus       232 ~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~-~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~  307 (589)
                      ++.+.+.+....+.. +.+...+..+...|...|++ ++|.+.|++..   ..+...|..+...|...|++++|++.|++
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            455555555544433 45677788888888888888 88888888765   34567888899999999999999999999


Q ss_pred             C-CCCCCHHHHHHHHHHHhcc---------CcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhc--------CCHHH
Q 043490          308 M-NVQPDSATFVSLLSACSHA---------GLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRV--------GRILE  368 (589)
Q Consensus       308 m-~~~p~~~t~~~ll~a~~~~---------g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~--------g~~~~  368 (589)
                      . .+.|+...+..+..++...         |++++|.+.|++..+.   .| +...|..+..+|...        |++++
T Consensus       163 al~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~  239 (474)
T 4abn_A          163 ALTHCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM---DVLDGRSWYILGNAYLSLYFNTGQNPKISQQ  239 (474)
T ss_dssp             HHTTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             HHhhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHHHhhccccchHHH
Confidence            9 8889988888888899998         9999999999988754   34 566888889999888        99999


Q ss_pred             HHHHHHhC-CCCC----CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHH
Q 043490          369 AEKLIREM-PMEP----DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEM  442 (589)
Q Consensus       369 A~~~~~~m-~~~p----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  442 (589)
                      |++.|++. ...|    +...|..+..+|...|++++|...++++.+++|.+..++..+..++...|++++|.+.+.++
T Consensus       240 A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          240 ALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            99999988 4456    68999999999999999999999999999999999999999999999999999999866543

>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=99.43  E-value=2.3e-12  Score=128.87  Aligned_cols=224  Identities=10%  Similarity=0.042  Sum_probs=193.4

Q ss_pred             HHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCC-HHHHHHHHhhcC---CCChhHHHHHHHHH
Q 043490          217 CTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGS-ISLSKQVFDKMT---YHDLVSWNSILKAY  292 (589)
Q Consensus       217 ~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~~~---~~~~~~~~~li~~~  292 (589)
                      ..|..+...+...|++++|...++.+++.. +.+..+|+.+...|.+.|+ +++|+..|+++.   ..+...|+.+...+
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~  176 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  176 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            456677777888999999999999999986 6788999999999999997 999999999987   45778999999999


Q ss_pred             HHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhh-cCCHHH
Q 043490          293 ALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGR-VGRILE  368 (589)
Q Consensus       293 ~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~-~g~~~~  368 (589)
                      ...|++++|+..|+++ .+.| +...|..+..++...|++++|...|+.+++.   .| +...|+.+..+|.+ .|..++
T Consensus       177 ~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l---~P~~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE---DVRNNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhcCcchH
Confidence            9999999999999999 7777 5678999999999999999999999999864   45 56788999999999 666577


Q ss_pred             H-----HHHHHhC-CCCCC-HHHHHHHHHHHHHcC--CHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcC---------
Q 043490          369 A-----EKLIREM-PMEPD-SVIWSVLLGSCRKHG--ETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSG---------  430 (589)
Q Consensus       369 A-----~~~~~~m-~~~p~-~~~~~~ll~~~~~~g--~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g---------  430 (589)
                      |     ++.|++. .+.|+ ...|..+...+...|  ++++|...++++ +.+|+++.++..|+.+|.+.|         
T Consensus       254 A~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~~~  332 (382)
T 2h6f_A          254 AVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNKED  332 (382)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccchHH
Confidence            7     4777766 45665 889999999998888  689999999998 889999999999999999875         


Q ss_pred             ChHHHHHHHHHH-hcC
Q 043490          431 SFNKARLIRKEM-KGS  445 (589)
Q Consensus       431 ~~~~a~~~~~~m-~~~  445 (589)
                      ..++|.++++++ .+.
T Consensus       333 ~~~~A~~~~~~l~~~~  348 (382)
T 2h6f_A          333 ILNKALELCEILAKEK  348 (382)
T ss_dssp             HHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHh
Confidence            358999999998 554

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.43  E-value=3e-12  Score=122.17  Aligned_cols=237  Identities=7%  Similarity=-0.143  Sum_probs=184.3

Q ss_pred             Hhc-CCHHHHHHHHhhCCCC-------ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 043490          148 YSK-SCADEAWKVFENMEFR-------NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTF  219 (589)
Q Consensus       148 y~~-g~~~~A~~lf~~m~~~-------~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  219 (589)
                      +.. |++++|...|+++.+.       +..+|..+...|             ...|++++|+..|++..... +.+..++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-------------~~~~~~~~A~~~~~~al~~~-~~~~~~~   80 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLY-------------DSLGLRALARNDFSQALAIR-PDMPEVF   80 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHH-------------HHTTCHHHHHHHHHHHHHHC-CCCHHHH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHH-------------HHcccHHHHHHHHHHHHHcC-CCcHHHH
Confidence            344 7889999999887642       356788888888             89999999999999998864 3467889


Q ss_pred             HHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC--CCChhHHHHHHHHHHHcCC
Q 043490          220 SIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT--YHDLVSWNSILKAYALHGQ  297 (589)
Q Consensus       220 ~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~  297 (589)
                      ..+...+...|++++|...+..+++.. +.+..++..+...|.+.|++++|...|+++.  .|+.......+..+...|+
T Consensus        81 ~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  159 (275)
T 1xnf_A           81 NYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLD  159 (275)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhcC
Confidence            999999999999999999999999875 5678899999999999999999999999987  4544444455555677799


Q ss_pred             HHHHHHHHHhC--CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccC-----cchHHHHHHHHhhcCCHHHHH
Q 043490          298 AKEALQLFSNM--NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ-----LDHYACMVDLLGRVGRILEAE  370 (589)
Q Consensus       298 ~~~A~~~~~~m--~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~li~~~~~~g~~~~A~  370 (589)
                      +++|+..+++.  ..+++...+ .++..+...++.++|.+.+....+   ..|+     ...+..+...|.+.|++++|.
T Consensus       160 ~~~A~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  235 (275)
T 1xnf_A          160 EKQAKEVLKQHFEKSDKEQWGW-NIVEFYLGNISEQTLMERLKADAT---DNTSLAEHLSETNFYLGKYYLSLGDLDSAT  235 (275)
T ss_dssp             HHHHHHHHHHHHHHSCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCC---SHHHHHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhc---ccccccccccHHHHHHHHHHHHcCCHHHHH
Confidence            99999999888  333444444 467777888888999999887642   2332     568889999999999999999


Q ss_pred             HHHHhC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 043490          371 KLIREM-PMEPDSVIWSVLLGSCRKHGETRLAELAA  405 (589)
Q Consensus       371 ~~~~~m-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~  405 (589)
                      ..|++. ...|+.  +.....++...|++++|+..+
T Consensus       236 ~~~~~al~~~p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          236 ALFKLAVANNVHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHHTTCCTT--CHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHhCCchh--HHHHHHHHHHHHHHHhhHHHH
Confidence            999988 556642  223345667778888877665

>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=99.41  E-value=5.9e-11  Score=113.35  Aligned_cols=223  Identities=11%  Similarity=-0.051  Sum_probs=163.9

Q ss_pred             CHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHhhcC-CCChhHHHHHH
Q 043490          215 DWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYAR----CGSISLSKQVFDKMT-YHDLVSWNSIL  289 (589)
Q Consensus       215 ~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~-~~~~~~~~~li  289 (589)
                      +..++..+...+...|++++|...+....+.   .+...+..+...|..    .|++++|...|++.. ..+..++..+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg   81 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLG   81 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            3445556666666777777777777777763   345566677777777    777888877777765 33566777777


Q ss_pred             HHHHH----cCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHH
Q 043490          290 KAYAL----HGQAKEALQLFSNM-NVQPDSATFVSLLSACSH----AGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLL  360 (589)
Q Consensus       290 ~~~~~----~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~----~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~  360 (589)
                      ..|..    .+++++|++.|++. .. .+..++..+...+..    .+++++|.+.|+...+. +   +...+..+...|
T Consensus        82 ~~~~~g~~~~~~~~~A~~~~~~a~~~-~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~  156 (273)
T 1ouv_A           82 NLYYSGQGVSQNTNKALQYYSKACDL-KYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL-N---DGDGCTILGSLY  156 (273)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHH
T ss_pred             HHHhCCCCcccCHHHHHHHHHHHHHc-CCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhc-C---cHHHHHHHHHHH
Confidence            77777    78888888888777 32 256677777777777    78888888888877553 2   455666777777


Q ss_pred             hh----cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhh----
Q 043490          361 GR----VGRILEAEKLIREMPMEPDSVIWSVLLGSCRK----HGETRLAELAATKLKQLEPGDSLGFVQMSNIYCL----  428 (589)
Q Consensus       361 ~~----~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----  428 (589)
                      ..    .+++++|.+.|++.--..+...+..+...+..    .+++++|...+++..+.+|  +..+..|..+|.+    
T Consensus       157 ~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~  234 (273)
T 1ouv_A          157 DAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN--GGGCFNLGAMQYNGEGV  234 (273)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSS
T ss_pred             HcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCc
Confidence            77    78888888888876112356777778888888    8889999998888888765  5678888888888    


Q ss_pred             cCChHHHHHHHHHHhcCCC
Q 043490          429 SGSFNKARLIRKEMKGSRV  447 (589)
Q Consensus       429 ~g~~~~a~~~~~~m~~~~~  447 (589)
                      .|++++|.+.+++..+.|.
T Consensus       235 ~~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          235 TRNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             SCCSTTHHHHHHHHHHHTC
T ss_pred             ccCHHHHHHHHHHHHHcCC
Confidence            8889999998888776653

>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=99.41  E-value=6.6e-11  Score=112.99  Aligned_cols=224  Identities=11%  Similarity=-0.042  Sum_probs=190.0

Q ss_pred             ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhC----cCcHHHHHHHHHHH
Q 043490          167 NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAG----LVTERHASAVHSLI  242 (589)
Q Consensus       167 ~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~----~~~~~~a~~i~~~~  242 (589)
                      +..++..+...|             ...|++++|+..|++..+.   -+...+..+...+..    .+++++|...+...
T Consensus         5 ~~~a~~~lg~~~-------------~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a   68 (273)
T 1ouv_A            5 DPKELVGLGAKS-------------YKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKA   68 (273)
T ss_dssp             CHHHHHHHHHHH-------------HHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHH-------------HhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHH
Confidence            455666777777             8889999999999998883   355677778888888    99999999999999


Q ss_pred             HHhCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHhhcC-CCChhHHHHHHHHHHH----cCCHHHHHHHHHhC-CCCC
Q 043490          243 AKYGFEDDTVIANALIHAYAR----CGSISLSKQVFDKMT-YHDLVSWNSILKAYAL----HGQAKEALQLFSNM-NVQP  312 (589)
Q Consensus       243 ~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~-~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m-~~~p  312 (589)
                      .+.+   +...+..+..+|..    .+++++|...|++.. ..+..++..+...|..    .+++++|++.|++. ... 
T Consensus        69 ~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~-  144 (273)
T 1ouv_A           69 CDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN-  144 (273)
T ss_dssp             HHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT-
T ss_pred             HHCC---CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC-
Confidence            9886   77888999999999    999999999999876 3477889999999999    99999999999999 333 


Q ss_pred             CHHHHHHHHHHHhc----cCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhh----cCCHHHHHHHHHhC-CCCCCHH
Q 043490          313 DSATFVSLLSACSH----AGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGR----VGRILEAEKLIREM-PMEPDSV  383 (589)
Q Consensus       313 ~~~t~~~ll~a~~~----~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m-~~~p~~~  383 (589)
                      +...+..+...+..    .+++++|.+.|+...+.    .+...+..+..+|..    .+++++|++.|++. ... +..
T Consensus       145 ~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~-~~~  219 (273)
T 1ouv_A          145 DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE-NGG  219 (273)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT-CHH
T ss_pred             cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC-CHH
Confidence            56677778888887    89999999999988653    245678888999999    99999999999987 323 377


Q ss_pred             HHHHHHHHHHH----cCCHHHHHHHHHHHhhcCCCC
Q 043490          384 IWSVLLGSCRK----HGETRLAELAATKLKQLEPGD  415 (589)
Q Consensus       384 ~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~  415 (589)
                      .+..+...|..    .+++++|...++++.+.+|++
T Consensus       220 a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~  255 (273)
T 1ouv_A          220 GCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKG  255 (273)
T ss_dssp             HHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCCHH
Confidence            88888889998    999999999999999998854

>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=99.39  E-value=2.6e-09  Score=113.98  Aligned_cols=403  Identities=10%  Similarity=0.054  Sum_probs=257.8

Q ss_pred             CChhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCC---hHHHHHHHhcCCC-----CCcc
Q 043490            3 HSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGY---LDDARHLFDEMPK-----RNVV   74 (589)
Q Consensus         3 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~A~~~f~~m~~-----~~~~   74 (589)
                      -|..+|..+++.+.+.+.++.++.+|+.++..+|   .+...|...+..-.+.|.   .+.+..+|++...     |++.
T Consensus        64 ~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~fP---~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~  140 (679)
T 4e6h_A           64 TDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRFP---LMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLS  140 (679)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHH
T ss_pred             CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHCC---CCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHH
Confidence            4677888899999888999999999999998888   888889988988888888   9999999997542     6777


Q ss_pred             hHHHHHHHHHhCCCh--------hHHHHHHHHHHhc--c-CCCce-eHHHHHHHhc-------------hhhHHHHHHHH
Q 043490           75 SWTALISGYAQHGNA--------EECFRLFCSLLQY--F-FPNEF-SLASVLISCD-------------YLHGKLVHALA  129 (589)
Q Consensus        75 ~~~~li~~~~~~g~~--------~~A~~~~~~m~~~--~-~p~~~-t~~~~l~a~~-------------~~~~~~~~~~~  129 (589)
                      .|...+.-..+.++.        +...++|+..+..  . .|+.. .|...+.-..             .+.++.++..+
T Consensus       141 LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~ra  220 (679)
T 4e6h_A          141 LWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTL  220 (679)
T ss_dssp             HHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHH
Confidence            888877766555543        2344677776655  2 34432 3333332110             34455666666


Q ss_pred             HHhcCCCchhHHHHHHHHHhc--------------CCHHHHHHHHhhC-----------CC----------C--C-----
Q 043490          130 LKFSLDAHVYVANALINMYSK--------------SCADEAWKVFENM-----------EF----------R--N-----  167 (589)
Q Consensus       130 ~~~g~~~~~~~~~~li~~y~~--------------g~~~~A~~lf~~m-----------~~----------~--~-----  167 (589)
                      +......-..+|......-..              ..++.|+..+.++           +.          |  +     
T Consensus       221 L~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~  300 (679)
T 4e6h_A          221 LCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQ  300 (679)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHH
T ss_pred             HhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHH
Confidence            532211112233222111100              1223344444331           00          0  0     


Q ss_pred             -hhHHHHHHHHHHcCCcHHHHHHHHHHcC-------CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHH-HH
Q 043490          168 -VISWNSMIAAFRACKLEAQAIELFAKMK-------NEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHAS-AV  238 (589)
Q Consensus       168 -~~~~~~li~~~~~~g~~~~a~~~~~~~g-------~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~-~i  238 (589)
                       ...|...+.--             ..++       ..+++..+|++.... ++-+...|.....-+...|+.+.|. .+
T Consensus       301 ql~lW~~yi~fE-------------k~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~i  366 (679)
T 4e6h_A          301 QLLIWLEWIRWE-------------SDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKY  366 (679)
T ss_dssp             HHHHHHHHHHHH-------------HTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHH
T ss_pred             HHHHHHHHHHHH-------------HhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHH
Confidence             12233333221             2221       123455677777664 3345666666666667778888886 99


Q ss_pred             HHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC-------------CC------------hhHHHHHHHHHH
Q 043490          239 HSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY-------------HD------------LVSWNSILKAYA  293 (589)
Q Consensus       239 ~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------------~~------------~~~~~~li~~~~  293 (589)
                      ++..+.. .|.+...+-.++...-+.|+++.|.++|+++..             |+            ...|...+....
T Consensus       367 l~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~er  445 (679)
T 4e6h_A          367 LKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMK  445 (679)
T ss_dssp             HHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHH
Confidence            9998875 366777788888888899999999999988753             21            235777777777


Q ss_pred             HcCCHHHHHHHHHhC-CC--CCCHHHHHHHHHHHhc-cCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHH
Q 043490          294 LHGQAKEALQLFSNM-NV--QPDSATFVSLLSACSH-AGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEA  369 (589)
Q Consensus       294 ~~g~~~~A~~~~~~m-~~--~p~~~t~~~ll~a~~~-~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  369 (589)
                      +.|..+.|..+|.+. ..  .+....|......-.+ .++.+.|.++|+..++.++  -+...+...++.....|+.+.|
T Consensus       446 R~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p--~~~~~w~~y~~fe~~~~~~~~A  523 (679)
T 4e6h_A          446 RIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFA--TDGEYINKYLDFLIYVNEESQV  523 (679)
T ss_dssp             HHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCC--CchHHHHHHHHHHHhCCCHHHH
Confidence            888889999999888 33  2233344332222223 3458899999988877642  2444566777877888999999


Q ss_pred             HHHHHhC-CCCC----CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHh
Q 043490          370 EKLIREM-PMEP----DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIY  426 (589)
Q Consensus       370 ~~~~~~m-~~~p----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  426 (589)
                      ..+|++. ...|    ....|...+.--.++|+.+.+..+.+++.+..|++. ....+++=|
T Consensus       524 R~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~-~~~~f~~ry  584 (679)
T 4e6h_A          524 KSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVN-KLEEFTNKY  584 (679)
T ss_dssp             HHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCC-HHHHHHHHT
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCc-HHHHHHHHh
Confidence            9999887 3233    256788888888889999999999999999888653 333334433

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.39  E-value=1.3e-11  Score=110.20  Aligned_cols=164  Identities=13%  Similarity=0.099  Sum_probs=115.2

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHH
Q 043490          281 DLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVD  358 (589)
Q Consensus       281 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  358 (589)
                      +...|..+...|.+.|++++|++.|++. .+.|+ ..++..+..++.+.|++++|...+.......  +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD--TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--chhHHHHHHHHH
Confidence            3445666666666666666666666666 55553 3456666666666777777777766664431  123345555666


Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHH
Q 043490          359 LLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKAR  436 (589)
Q Consensus       359 ~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  436 (589)
                      .+...+++++|.+.+.+. ...| +...|..+...+...|++++|+..++++++.+|.++.+|..++.+|.+.|++++|.
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A~  161 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEAV  161 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHHH
Confidence            667777777777777666 3334 47778888888888888889998888888888888888888899999999999999


Q ss_pred             HHHHHHhcCC
Q 043490          437 LIRKEMKGSR  446 (589)
Q Consensus       437 ~~~~~m~~~~  446 (589)
                      +.|++..+.+
T Consensus       162 ~~~~~al~~~  171 (184)
T 3vtx_A          162 KYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHhCC
Confidence            8888876543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.37  E-value=1.1e-11  Score=125.44  Aligned_cols=285  Identities=11%  Similarity=0.004  Sum_probs=213.0

Q ss_pred             CchhHHHHHHHHHhc-CCHHHHHHHHhhCCC--C-C----hhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHH
Q 043490          136 AHVYVANALINMYSK-SCADEAWKVFENMEF--R-N----VISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQL  207 (589)
Q Consensus       136 ~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~--~-~----~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m  207 (589)
                      .....+......+.+ |++++|...|++..+  | +    ...|..+...|             ...|++++|+..|++.
T Consensus         7 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~-------------~~~g~~~~A~~~~~~a   73 (406)
T 3sf4_A            7 ASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAY-------------FYLHDYAKALEYHHHD   73 (406)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHH-------------HHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHH-------------HHhcCHHHHHHHHHHH
Confidence            344455566677888 999999999988753  3 3    24677788888             7778888888887775


Q ss_pred             HHc----CCCC-CHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhC----CC-CcHHHHHHHHHHHHhcCC-----------
Q 043490          208 QRE----GMAP-DWCTFSIVLKACAGLVTERHASAVHSLIAKYG----FE-DDTVIANALIHAYARCGS-----------  266 (589)
Q Consensus       208 ~~~----g~~p-~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g----~~-~~~~~~~~li~~~~~~g~-----------  266 (589)
                      ...    +-.| ...++..+...+...|+++.|...+..+.+..    -+ ....++..+...|...|+           
T Consensus        74 l~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~  153 (406)
T 3sf4_A           74 LTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVG  153 (406)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------C
T ss_pred             HHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhh
Confidence            432    2222 24567778888899999999999998877642    11 124578889999999999           


Q ss_pred             ---------HHHHHHHHhhcCC-----C----ChhHHHHHHHHHHHcCCHHHHHHHHHhC-C---CCCC----HHHHHHH
Q 043490          267 ---------ISLSKQVFDKMTY-----H----DLVSWNSILKAYALHGQAKEALQLFSNM-N---VQPD----SATFVSL  320 (589)
Q Consensus       267 ---------~~~A~~~~~~~~~-----~----~~~~~~~li~~~~~~g~~~~A~~~~~~m-~---~~p~----~~t~~~l  320 (589)
                               +++|...+++...     .    ...+|..+...|...|++++|+..|++. .   -.++    ..++..+
T Consensus       154 ~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  233 (406)
T 3sf4_A          154 EFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNL  233 (406)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHH
Confidence                     9999998887641     1    2347888899999999999999999998 1   1222    2378888


Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhcCCccC----cchHHHHHHHHhhcCCHHHHHHHHHhC----CCCCC----HHHHHHH
Q 043490          321 LSACSHAGLVQEGNKVFHSMLENHGVVPQ----LDHYACMVDLLGRVGRILEAEKLIREM----PMEPD----SVIWSVL  388 (589)
Q Consensus       321 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~----~~~~~~l  388 (589)
                      ...+...|++++|...++...+...-.++    ..++..+...|.+.|++++|.+.+++.    +..++    ..++..+
T Consensus       234 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  313 (406)
T 3sf4_A          234 GNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSL  313 (406)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHH
Confidence            88999999999999999887643211111    457888899999999999999999877    11122    5678888


Q ss_pred             HHHHHHcCCHHHHHHHHHHHhhcC------CCChhHHHHHHHHhhhcCChH
Q 043490          389 LGSCRKHGETRLAELAATKLKQLE------PGDSLGFVQMSNIYCLSGSFN  433 (589)
Q Consensus       389 l~~~~~~g~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~~~~~g~~~  433 (589)
                      ...+...|++++|...++++.++.      +....++..+..+|...|+..
T Consensus       314 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  364 (406)
T 3sf4_A          314 GNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSY  364 (406)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhH
Confidence            999999999999999999988753      223556778888888887764

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.34  E-value=1.8e-10  Score=118.58  Aligned_cols=308  Identities=11%  Similarity=0.023  Sum_probs=186.5

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCH---H
Q 043490           79 LISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCA---D  154 (589)
Q Consensus        79 li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~---~  154 (589)
                      +...+.+.|++++|+++|++..+.                              |   +...+..|-.+|.. |+.   +
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~------------------------------g---~~~A~~~Lg~~y~~~g~~~d~~   55 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAEL------------------------------G---YSEAQVGLADIQVGTRDPAQIK   55 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH------------------------------T---CCTGGGTCC-------------
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHC------------------------------C---CHHHHHHHHHHHHccCCCCCHH
Confidence            455667788888888888877543                              1   12223334445555 666   8


Q ss_pred             HHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcC-----CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCc
Q 043490          155 EAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMK-----NEEEALFLFRQLQREGMAPDWCTFSIVLKACAGL  229 (589)
Q Consensus       155 ~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g-----~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  229 (589)
                      +|...|++..+.+...+..+...+             ...+     ++++|+..|++....|...   .+..+...+...
T Consensus        56 ~A~~~~~~A~~~~~~A~~~Lg~~~-------------~~~~~~~~~~~~~A~~~~~~Aa~~g~~~---A~~~Lg~~y~~~  119 (452)
T 3e4b_A           56 QAEATYRAAADTSPRAQARLGRLL-------------AAKPGATEAEHHEAESLLKKAFANGEGN---TLIPLAMLYLQY  119 (452)
T ss_dssp             ---------------CHHHHHHHH-------------HTC--CCHHHHHHHHHHHHHHHHTTCSS---CHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHH-------------HhCCCCCCcCHHHHHHHHHHHHHCCCHH---HHHHHHHHHHhC
Confidence            888888887766666666666645             3333     6678888888887766433   333444444333


Q ss_pred             CcH---HHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcC----CHHHHHHHHhhcCCCChhHHHHHHHHHHHcC---CHH
Q 043490          230 VTE---RHASAVHSLIAKYGFEDDTVIANALIHAYARCG----SISLSKQVFDKMTYHDLVSWNSILKAYALHG---QAK  299 (589)
Q Consensus       230 ~~~---~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g----~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g---~~~  299 (589)
                      +..   ..+.+.+......|   +......|...|...+    ..+.+..++......++.++..+...|...|   +.+
T Consensus       120 ~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~  196 (452)
T 3e4b_A          120 PHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQA  196 (452)
T ss_dssp             GGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHH
Confidence            322   33455555555555   3445666777777776    4556666677766667778888888888888   788


Q ss_pred             HHHHHHHhC--CCCCCHHHHHHHHHHHhcc----CcHHHHHHHHHHhHHhcCCccCcchHHHHHHH-H--hhcCCHHHHH
Q 043490          300 EALQLFSNM--NVQPDSATFVSLLSACSHA----GLVQEGNKVFHSMLENHGVVPQLDHYACMVDL-L--GRVGRILEAE  370 (589)
Q Consensus       300 ~A~~~~~~m--~~~p~~~t~~~ll~a~~~~----g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~-~--~~~g~~~~A~  370 (589)
                      +|++.|++.  .-.++...+..+...|...    +++++|.++|+...     .-+...+..|..+ |  ...|++++|+
T Consensus       197 ~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-----~g~~~a~~~Lg~~~~~~~~~~d~~~A~  271 (452)
T 3e4b_A          197 ELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-----PGYPASWVSLAQLLYDFPELGDVEQMM  271 (452)
T ss_dssp             HHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-----GGSTHHHHHHHHHHHHSGGGCCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-----CCCHHHHHHHHHHHHhCCCCCCHHHHH
Confidence            888888888  3344555555666666554    68888888887763     2355566666666 4  4578888888


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHcC-----CHHHHHHHHHHHhhcCCCChhHHHHHHHHhhh----cCChHHHHHHHHH
Q 043490          371 KLIREMPMEPDSVIWSVLLGSCRKHG-----ETRLAELAATKLKQLEPGDSLGFVQMSNIYCL----SGSFNKARLIRKE  441 (589)
Q Consensus       371 ~~~~~m~~~p~~~~~~~ll~~~~~~g-----~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~  441 (589)
                      +.|++.--.-+...+..|...|. .|     ++++|...|++..   |.++.++..|..+|..    ..++++|...|++
T Consensus       272 ~~~~~Aa~~g~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa---~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~  347 (452)
T 3e4b_A          272 KYLDNGRAADQPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV---GREVAADYYLGQIYRRGYLGKVYPQKALDHLLT  347 (452)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT---TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh---CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHH
Confidence            88887721225666766766666 55     8888888888877   6677888888888876    3478888888888


Q ss_pred             HhcCCC
Q 043490          442 MKGSRV  447 (589)
Q Consensus       442 m~~~~~  447 (589)
                      ..+.|.
T Consensus       348 Aa~~g~  353 (452)
T 3e4b_A          348 AARNGQ  353 (452)
T ss_dssp             HHTTTC
T ss_pred             HHhhCh
Confidence            777664

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.32  E-value=1.2e-11  Score=125.82  Aligned_cols=260  Identities=9%  Similarity=-0.011  Sum_probs=199.0

Q ss_pred             HHHHHHHHhc-CCHHHHHHHHhhCCC--C-Ch----hHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHc--
Q 043490          141 ANALINMYSK-SCADEAWKVFENMEF--R-NV----ISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQRE--  210 (589)
Q Consensus       141 ~~~li~~y~~-g~~~~A~~lf~~m~~--~-~~----~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~--  210 (589)
                      +..+...+.. |++++|...|++..+  | +.    ..|..+...|             ...|++++|+..|++....  
T Consensus        51 l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~-------------~~~g~~~~A~~~~~~al~~~~  117 (411)
T 4a1s_A           51 LALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAY-------------FYLGDYNKAMQYHKHDLTLAK  117 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHH-------------HHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHH-------------HHCCCHHHHHHHHHHHHHHHH
Confidence            3445566777 999999999998753  3 32    4677788888             7778888888888776542  


Q ss_pred             --CC-CCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh----C-CCCcHHHHHHHHHHHHhcCC----------------
Q 043490          211 --GM-APDWCTFSIVLKACAGLVTERHASAVHSLIAKY----G-FEDDTVIANALIHAYARCGS----------------  266 (589)
Q Consensus       211 --g~-~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~----g-~~~~~~~~~~li~~~~~~g~----------------  266 (589)
                        +- ......+..+...+...|+++.|...+..+.+.    + .+....++..+...|...|+                
T Consensus       118 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~  197 (411)
T 4a1s_A          118 SMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKE  197 (411)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHH
T ss_pred             HccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhH
Confidence              11 223457778888889999999999999987765    1 12345678889999999999                


Q ss_pred             -HHHHHHHHhhcCC-----C----ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC---C----HHHHHHHHHHHhccC
Q 043490          267 -ISLSKQVFDKMTY-----H----DLVSWNSILKAYALHGQAKEALQLFSNM-NVQP---D----SATFVSLLSACSHAG  328 (589)
Q Consensus       267 -~~~A~~~~~~~~~-----~----~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p---~----~~t~~~ll~a~~~~g  328 (589)
                       +++|.+.+++..+     .    ...+|..+...|...|++++|++.|++. .+.|   +    ..++..+...+...|
T Consensus       198 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  277 (411)
T 4a1s_A          198 ALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLG  277 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCc
Confidence             9999998887642     1    2347888899999999999999999998 2222   2    237788889999999


Q ss_pred             cHHHHHHHHHHhHHhcCCcc----CcchHHHHHHHHhhcCCHHHHHHHHHhC-------CCCC-CHHHHHHHHHHHHHcC
Q 043490          329 LVQEGNKVFHSMLENHGVVP----QLDHYACMVDLLGRVGRILEAEKLIREM-------PMEP-DSVIWSVLLGSCRKHG  396 (589)
Q Consensus       329 ~~~~a~~~~~~~~~~~~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p-~~~~~~~ll~~~~~~g  396 (589)
                      ++++|.+.++.......-..    ....+..+...|.+.|++++|.+.+++.       +..+ ...++..+...+...|
T Consensus       278 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  357 (411)
T 4a1s_A          278 QFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIG  357 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhc
Confidence            99999999988765321111    1457888899999999999999999887       1111 1457888899999999


Q ss_pred             CHHHHHHHHHHHhhcCC
Q 043490          397 ETRLAELAATKLKQLEP  413 (589)
Q Consensus       397 ~~~~a~~~~~~~~~~~p  413 (589)
                      ++++|...++++.++.+
T Consensus       358 ~~~~A~~~~~~al~~~~  374 (411)
T 4a1s_A          358 GHERALKYAEQHLQLAX  374 (411)
T ss_dssp             CHHHHHHHHHHHHHHCC
T ss_pred             cHHHHHHHHHHHHHHHh
Confidence            99999999999988765

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.31  E-value=4e-11  Score=106.95  Aligned_cols=165  Identities=13%  Similarity=0.067  Sum_probs=135.2

Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHH
Q 043490          249 DDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSA  323 (589)
Q Consensus       249 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a  323 (589)
                      .+..+|..|...|.+.|++++|.+.|++..   +.+..+|..+...|.+.|++++|+..+++. ...|+ ...+..+...
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~   82 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTTSAEAYYILGSA   82 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCchhHHHHHHHHHH
Confidence            356778888888888899999988888876   346678888888899999999999999888 55554 5566777778


Q ss_pred             HhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHH
Q 043490          324 CSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLA  401 (589)
Q Consensus       324 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a  401 (589)
                      +...++++.+.+.+....+..  +.+...+..+...|.+.|++++|++.|++. ...| +..+|..+..++.+.|++++|
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~~--~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIALN--TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            888899999999998876532  225667888889999999999999999887 4455 488899999999999999999


Q ss_pred             HHHHHHHhhcCCCC
Q 043490          402 ELAATKLKQLEPGD  415 (589)
Q Consensus       402 ~~~~~~~~~~~p~~  415 (589)
                      +..++++++++|.+
T Consensus       161 ~~~~~~al~~~p~~  174 (184)
T 3vtx_A          161 VKYFKKALEKEEKK  174 (184)
T ss_dssp             HHHHHHHHHTTHHH
T ss_pred             HHHHHHHHhCCccC
Confidence            99999999999854

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.31  E-value=6.6e-10  Score=108.15  Aligned_cols=215  Identities=9%  Similarity=0.026  Sum_probs=135.1

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHh-------CcCcH-------HHHHHHHHHHHHhCCCCcHHHHHHHHHHHHh
Q 043490          198 EEALFLFRQLQREGMAPDWCTFSIVLKACA-------GLVTE-------RHASAVHSLIAKYGFEDDTVIANALIHAYAR  263 (589)
Q Consensus       198 ~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~-------~~~~~-------~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~  263 (589)
                      ++|+.+|++..... +-+...|......+.       ..|+.       ++|..+++..++.-.+.+...|..++..+.+
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            56777777776642 334555555555543       23554       7777777777763124455677777777777


Q ss_pred             cCCHHHHHHHHhhcCC--C-Chh-HHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHh-ccCcHHHHHHH
Q 043490          264 CGSISLSKQVFDKMTY--H-DLV-SWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACS-HAGLVQEGNKV  336 (589)
Q Consensus       264 ~g~~~~A~~~~~~~~~--~-~~~-~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~-~~g~~~~a~~~  336 (589)
                      .|++++|.++|++..+  | +.. .|..++..+.+.|+.++|..+|++. ...|+ ...|........ ..|+.++|.++
T Consensus       112 ~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~a~~~~~~~~~~~~A~~~  191 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFKI  191 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTSCCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            7777777777777652  2 233 6777777777777777777777777 54443 233333322211 25777777777


Q ss_pred             HHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-C---CCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 043490          337 FHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-P---MEP--DSVIWSVLLGSCRKHGETRLAELAATKLKQ  410 (589)
Q Consensus       337 ~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~---~~p--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  410 (589)
                      |+..++..  +.+...|..++..+.+.|++++|..+|++. .   +.|  ....|..++......|+.+.|..+++++.+
T Consensus       192 ~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~  269 (308)
T 2ond_A          192 FELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            77766542  124456666777777777777777777766 1   244  356677777777777777777777777777


Q ss_pred             cCCCC
Q 043490          411 LEPGD  415 (589)
Q Consensus       411 ~~p~~  415 (589)
                      ..|++
T Consensus       270 ~~p~~  274 (308)
T 2ond_A          270 AFREE  274 (308)
T ss_dssp             HTTTT
T ss_pred             Hcccc
Confidence            77654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.30  E-value=1.5e-10  Score=112.72  Aligned_cols=211  Identities=6%  Similarity=0.007  Sum_probs=172.2

Q ss_pred             HHHHHHHHHHHHhCCCCcHHHHHHHHHHHHh-------cCCH-------HHHHHHHhhcCC---C-ChhHHHHHHHHHHH
Q 043490          233 RHASAVHSLIAKYGFEDDTVIANALIHAYAR-------CGSI-------SLSKQVFDKMTY---H-DLVSWNSILKAYAL  294 (589)
Q Consensus       233 ~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~-------~g~~-------~~A~~~~~~~~~---~-~~~~~~~li~~~~~  294 (589)
                      +.|..+|+.+++.. +.+..+|..++..+..       .|++       ++|..+|++...   | +...|..++..+.+
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            67888898888864 6778888888887763       5885       899999998753   3 55689999999999


Q ss_pred             cCCHHHHHHHHHhC-CCCCCHH--HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHh-hcCCHHHH
Q 043490          295 HGQAKEALQLFSNM-NVQPDSA--TFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLG-RVGRILEA  369 (589)
Q Consensus       295 ~g~~~~A~~~~~~m-~~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~-~~g~~~~A  369 (589)
                      .|++++|.++|++. .+.|+..  .|..+...+.+.|++++|.++|+..++.   .| +...|........ ..|++++|
T Consensus       112 ~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~---~p~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED---ARTRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS---TTCCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             cCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc---CCCCHHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999 8888643  7889999999999999999999998743   34 3444444333322 36999999


Q ss_pred             HHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc---CCC-ChhHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          370 EKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQL---EPG-DSLGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       370 ~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~---~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      .++|++. ...| +...|..++..+.+.|++++|..+|+++++.   .|. ....|..++..+.+.|+.++|..+++++.
T Consensus       189 ~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          189 FKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999988 3334 5889999999999999999999999999985   443 56788899999999999999999999987


Q ss_pred             cCCC
Q 043490          444 GSRV  447 (589)
Q Consensus       444 ~~~~  447 (589)
                      +...
T Consensus       269 ~~~p  272 (308)
T 2ond_A          269 TAFR  272 (308)
T ss_dssp             HHTT
T ss_pred             HHcc
Confidence            6543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.30  E-value=6e-11  Score=119.49  Aligned_cols=222  Identities=9%  Similarity=-0.040  Sum_probs=169.7

Q ss_pred             HHHHHhCcCcHHHHHHHHHHHHHh----CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CC-----hhHHH
Q 043490          222 VLKACAGLVTERHASAVHSLIAKY----GFED-DTVIANALIHAYARCGSISLSKQVFDKMTY-----HD-----LVSWN  286 (589)
Q Consensus       222 ll~a~~~~~~~~~a~~i~~~~~~~----g~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~-----~~~~~  286 (589)
                      ....+...|+++.|...+..+.+.    +-++ ...++..+...|...|++++|...+++..+     ++     ..+++
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            445567889999999999998875    2111 346788999999999999999999887651     22     35788


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CC---CCCH----HHHHHHHHHHhccCcHHHHHHHHHHhHHhc---CC-ccCcchHH
Q 043490          287 SILKAYALHGQAKEALQLFSNM-NV---QPDS----ATFVSLLSACSHAGLVQEGNKVFHSMLENH---GV-VPQLDHYA  354 (589)
Q Consensus       287 ~li~~~~~~g~~~~A~~~~~~m-~~---~p~~----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~-~p~~~~~~  354 (589)
                      .+...|...|++++|++.|++. .+   .++.    .++..+...+...|++++|.+.++...+-.   +. +....++.
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            8999999999999999999988 21   1222    478888999999999999999998876521   22 22345788


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC-CC-----CCC-HHHHHHHHHHHHHcCC---HHHHHHHHHHHhhcCCCChhHHHHHHH
Q 043490          355 CMVDLLGRVGRILEAEKLIREM-PM-----EPD-SVIWSVLLGSCRKHGE---TRLAELAATKLKQLEPGDSLGFVQMSN  424 (589)
Q Consensus       355 ~li~~~~~~g~~~~A~~~~~~m-~~-----~p~-~~~~~~ll~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~l~~  424 (589)
                      .+...|.+.|++++|.+.+++. .+     .|. ...+..+...+...|+   .++|...+++. ...|.....+..++.
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~  347 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLEDFAIDVAK  347 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHHHHHHHHH
Confidence            8999999999999999999887 11     222 3345667778888888   67777777665 222334567889999


Q ss_pred             HhhhcCChHHHHHHHHHHhc
Q 043490          425 IYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       425 ~~~~~g~~~~a~~~~~~m~~  444 (589)
                      .|.+.|++++|...+++..+
T Consensus       348 ~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          348 YYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999998764

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.29  E-value=1.9e-10  Score=115.87  Aligned_cols=221  Identities=8%  Similarity=-0.010  Sum_probs=174.2

Q ss_pred             HHcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhC--C----CCcHHHHHHHHHH
Q 043490          192 AKMKNEEEALFLFRQLQRE----GMAP-DWCTFSIVLKACAGLVTERHASAVHSLIAKYG--F----EDDTVIANALIHA  260 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~----g~~p-~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g--~----~~~~~~~~~li~~  260 (589)
                      ...|++++|+..|++....    +-.+ ...++..+...+...|+.+.|...+...++.-  .    +....+++.+...
T Consensus       114 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~  193 (383)
T 3ulq_A          114 LDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATN  193 (383)
T ss_dssp             HHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHH
Confidence            7889999999999998763    1111 23578888888999999999999999887652  1    1124578889999


Q ss_pred             HHhcCCHHHHHHHHhhcCC-----CCh----hHHHHHHHHHHHcCCHHHHHHHHHhC-C-----CC-CC-HHHHHHHHHH
Q 043490          261 YARCGSISLSKQVFDKMTY-----HDL----VSWNSILKAYALHGQAKEALQLFSNM-N-----VQ-PD-SATFVSLLSA  323 (589)
Q Consensus       261 ~~~~g~~~~A~~~~~~~~~-----~~~----~~~~~li~~~~~~g~~~~A~~~~~~m-~-----~~-p~-~~t~~~ll~a  323 (589)
                      |...|++++|...|++..+     ++.    .++..+...|...|++++|++.|++. .     .. |+ ..++..+...
T Consensus       194 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~  273 (383)
T 3ulq_A          194 FLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQI  273 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHH
Confidence            9999999999999988761     222    47888999999999999999999998 2     22 43 4578889999


Q ss_pred             HhccCcHHHHHHHHHHhHHhcCCccC---cchHHHHHHHHhhcCC---HHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcC
Q 043490          324 CSHAGLVQEGNKVFHSMLENHGVVPQ---LDHYACMVDLLGRVGR---ILEAEKLIREMPMEPD-SVIWSVLLGSCRKHG  396 (589)
Q Consensus       324 ~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~p~-~~~~~~ll~~~~~~g  396 (589)
                      +...|++++|.+.++...+...-..+   ...+..+...|...|+   +++|+.++++.+..|+ ...+..+...|...|
T Consensus       274 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~y~~~g  353 (383)
T 3ulq_A          274 HYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAIDVAKYYHERK  353 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHCC
Confidence            99999999999999887643211112   2235678888899999   9999999999965555 557778899999999


Q ss_pred             CHHHHHHHHHHHhhcC
Q 043490          397 ETRLAELAATKLKQLE  412 (589)
Q Consensus       397 ~~~~a~~~~~~~~~~~  412 (589)
                      ++++|...++++.++.
T Consensus       354 ~~~~A~~~~~~al~~~  369 (383)
T 3ulq_A          354 NFQKASAYFLKVEQVR  369 (383)
T ss_dssp             CHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHH
Confidence            9999999999988754

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.28  E-value=5.5e-11  Score=116.59  Aligned_cols=258  Identities=11%  Similarity=-0.003  Sum_probs=193.0

Q ss_pred             HHHHHHhc-CCHHHHHHHHhhCCC--C-C----hhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHc----
Q 043490          143 ALINMYSK-SCADEAWKVFENMEF--R-N----VISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQRE----  210 (589)
Q Consensus       143 ~li~~y~~-g~~~~A~~lf~~m~~--~-~----~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~----  210 (589)
                      .....+.. |++++|...|++..+  | +    ...|..+...|             ...|++++|++.+++....    
T Consensus        10 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~-------------~~~g~~~~A~~~~~~al~~~~~~   76 (338)
T 3ro2_A           10 LEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAY-------------FYLHDYAKALEYHHHDLTLARTI   76 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHH-------------HHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHH-------------HHcCCHHHHHHHHHHHHHHhhcc
Confidence            34456777 999999999998752  3 3    35677778888             7777777777777765432    


Q ss_pred             CCCC-CHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCC-CCc----HHHHHHHHHHHHhcCC------------------
Q 043490          211 GMAP-DWCTFSIVLKACAGLVTERHASAVHSLIAKYGF-EDD----TVIANALIHAYARCGS------------------  266 (589)
Q Consensus       211 g~~p-~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~-~~~----~~~~~~li~~~~~~g~------------------  266 (589)
                      +-.| ...++..+...+...|+++.|...+....+..- .++    ..++..+...|...|+                  
T Consensus        77 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~  156 (338)
T 3ro2_A           77 GDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVR  156 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHH
T ss_pred             cccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHH
Confidence            2122 245677888888999999999999998766421 112    4478889999999999                  


Q ss_pred             --HHHHHHHHhhcCC-----CC----hhHHHHHHHHHHHcCCHHHHHHHHHhC-CC---CCC----HHHHHHHHHHHhcc
Q 043490          267 --ISLSKQVFDKMTY-----HD----LVSWNSILKAYALHGQAKEALQLFSNM-NV---QPD----SATFVSLLSACSHA  327 (589)
Q Consensus       267 --~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m-~~---~p~----~~t~~~ll~a~~~~  327 (589)
                        +++|...+++...     .+    ..++..+...|...|++++|++.+++. ..   .++    ..++..+...+...
T Consensus       157 ~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~  236 (338)
T 3ro2_A          157 NALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFL  236 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHc
Confidence              9999998887641     12    347888889999999999999999998 21   122    23778888899999


Q ss_pred             CcHHHHHHHHHHhHHhcCCccC----cchHHHHHHHHhhcCCHHHHHHHHHhC-------CCCCC-HHHHHHHHHHHHHc
Q 043490          328 GLVQEGNKVFHSMLENHGVVPQ----LDHYACMVDLLGRVGRILEAEKLIREM-------PMEPD-SVIWSVLLGSCRKH  395 (589)
Q Consensus       328 g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~-~~~~~~ll~~~~~~  395 (589)
                      |++++|.+.++...+...-.++    ...+..+...|...|++++|...+++.       +..+. ..++..+...+...
T Consensus       237 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~  316 (338)
T 3ro2_A          237 GEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTAL  316 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHc
Confidence            9999999999887643211111    457788889999999999999999877       11111 55788889999999


Q ss_pred             CCHHHHHHHHHHHhhcCC
Q 043490          396 GETRLAELAATKLKQLEP  413 (589)
Q Consensus       396 g~~~~a~~~~~~~~~~~p  413 (589)
                      |++++|...++++.++.+
T Consensus       317 g~~~~A~~~~~~a~~~~~  334 (338)
T 3ro2_A          317 GNHDQAMHFAEKHLEISR  334 (338)
T ss_dssp             TCHHHHHHHHHHHHHC--
T ss_pred             CChHHHHHHHHHHHHHHH
Confidence            999999999999988765

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.27  E-value=4.1e-12  Score=123.55  Aligned_cols=229  Identities=15%  Similarity=0.129  Sum_probs=145.7

Q ss_pred             HHHHHHHHHHHhCcCcHHHHHHHHHHHHHh-------CCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC-------C-
Q 043490          216 WCTFSIVLKACAGLVTERHASAVHSLIAKY-------GFEDDTVIANALIHAYARCGSISLSKQVFDKMTY-------H-  280 (589)
Q Consensus       216 ~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~-------g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------~-  280 (589)
                      ..++..+...+...|+++.|..++..+.+.       ..+....++..+...|...|++++|...|++...       + 
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            456667777777778888888888777663       2344456677777888888888888877776541       1 


Q ss_pred             ---ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CC--------CC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhc---
Q 043490          281 ---DLVSWNSILKAYALHGQAKEALQLFSNM-NV--------QP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENH---  344 (589)
Q Consensus       281 ---~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~--------~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---  344 (589)
                         ...+|..+...|...|++++|++.|++. ..        .| ...++..+...+...|++++|.++++.+.+..   
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~  186 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTK  186 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence               2346777777788888888888888777 22        12 23456677777888888888888887775431   


Q ss_pred             --CCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-C---------CCCC-------HHHHHHHHHHHHHcCCHHHHHHH
Q 043490          345 --GVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-P---------MEPD-------SVIWSVLLGSCRKHGETRLAELA  404 (589)
Q Consensus       345 --~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~---------~~p~-------~~~~~~ll~~~~~~g~~~~a~~~  404 (589)
                        +..| ....+..+...|.+.|++++|.+.++++ .         ..|.       ...+..+...+...+.+..+...
T Consensus       187 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  266 (311)
T 3nf1_A          187 LGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGW  266 (311)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC--
T ss_pred             hCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence              1112 2346777788888888888888888766 1         1111       11222233334445556666667


Q ss_pred             HHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          405 ATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       405 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      ++......|.+..++..++.+|.+.|++++|.+.+++..+
T Consensus       267 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          267 YKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             -------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            7777777777788888999999999999999999987654

>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=99.27  E-value=3.7e-11  Score=129.71  Aligned_cols=159  Identities=18%  Similarity=0.210  Sum_probs=121.7

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHH
Q 043490          282 LVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVD  358 (589)
Q Consensus       282 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~  358 (589)
                      ..+|+.+...|.+.|++++|++.|++. .+.|+ ..++..+..++.+.|++++|.+.|++.++.   .| +...|..+..
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l---~P~~~~a~~nLg~   85 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI---SPTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHH
Confidence            345666666677777777777777776 55664 456677777777777777777777776543   44 3556777777


Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHH
Q 043490          359 LLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKAR  436 (589)
Q Consensus       359 ~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  436 (589)
                      +|.+.|++++|++.|++. .+.|+ ...|..+..++...|++++|+..++++++++|+++.++..|+.+|...|++++|.
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~A~  165 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDYD  165 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTTHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHHHH
Confidence            777778888887777776 44564 7888889999999999999999999999999999999999999999999999998


Q ss_pred             HHHHHHh
Q 043490          437 LIRKEMK  443 (589)
Q Consensus       437 ~~~~~m~  443 (589)
                      +.+++..
T Consensus       166 ~~~~kal  172 (723)
T 4gyw_A          166 ERMKKLV  172 (723)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8887764

>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=99.25  E-value=4.6e-10  Score=99.54  Aligned_cols=160  Identities=14%  Similarity=0.054  Sum_probs=124.1

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHh
Q 043490          284 SWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLG  361 (589)
Q Consensus       284 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~  361 (589)
                      .|..+...+...|++++|++.|+++ ...| +..++..+...+...|++++|.+.++.+.+..  +.+...+..+...|.
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~   87 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA--PDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHH
Confidence            4555666777777777777777777 4444 45567777777777888888888887776531  224556777778888


Q ss_pred             hcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHH
Q 043490          362 RVGRILEAEKLIREM-PME-PDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIR  439 (589)
Q Consensus       362 ~~g~~~~A~~~~~~m-~~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  439 (589)
                      ..|++++|.+.++++ ... .+...|..+...+...|++++|...++++.+..|.++.++..++.+|...|++++|...+
T Consensus        88 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  167 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPHF  167 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHHH
Confidence            888888888888776 223 357788888889999999999999999999999988899999999999999999999999


Q ss_pred             HHHhcC
Q 043490          440 KEMKGS  445 (589)
Q Consensus       440 ~~m~~~  445 (589)
                      ++..+.
T Consensus       168 ~~~~~~  173 (186)
T 3as5_A          168 KKANEL  173 (186)
T ss_dssp             HHHHHH
T ss_pred             HHHHHc
Confidence            887653

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.24  E-value=1.6e-11  Score=119.32  Aligned_cols=234  Identities=12%  Similarity=0.081  Sum_probs=166.1

Q ss_pred             hhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHc-------CCCCCHHHHHHHHHHHhCcCcHHHHHHHHH
Q 043490          168 VISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQRE-------GMAPDWCTFSIVLKACAGLVTERHASAVHS  240 (589)
Q Consensus       168 ~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~-------g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~  240 (589)
                      ..+|..+...|             ...|++++|+.+|+++.+.       ..+.....+..+...+...|+++.|...+.
T Consensus        27 ~~~~~~l~~~~-------------~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~   93 (311)
T 3nf1_A           27 LRTLHNLVIQY-------------ASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLN   93 (311)
T ss_dssp             HHHHHHHHHHH-------------HHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHH-------------HHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            45677888888             7788888888888877652       223345678888888999999999999999


Q ss_pred             HHHHh------C-CCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC-------C----ChhHHHHHHHHHHHcCCHHHHH
Q 043490          241 LIAKY------G-FEDDTVIANALIHAYARCGSISLSKQVFDKMTY-------H----DLVSWNSILKAYALHGQAKEAL  302 (589)
Q Consensus       241 ~~~~~------g-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~  302 (589)
                      .+++.      + .+....++..+...|...|++++|...|++..+       +    ...+|..+...|...|++++|+
T Consensus        94 ~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  173 (311)
T 3nf1_A           94 DALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVE  173 (311)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHH
T ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHH
Confidence            98775      2 233467888999999999999999999988752       1    2357888899999999999999


Q ss_pred             HHHHhC-CC--------CCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhc------CCccCcch-------HHHHHHH
Q 043490          303 QLFSNM-NV--------QPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENH------GVVPQLDH-------YACMVDL  359 (589)
Q Consensus       303 ~~~~~m-~~--------~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~------~~~p~~~~-------~~~li~~  359 (589)
                      +.|+++ ..        .|+ ..++..+...+...|++++|.+.++.+.+..      ...+....       +..+...
T Consensus       174 ~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  253 (311)
T 3nf1_A          174 YYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGK  253 (311)
T ss_dssp             HHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCc
Confidence            999998 22        333 3477888899999999999999999886531      11222222       2222233


Q ss_pred             HhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC
Q 043490          360 LGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPG  414 (589)
Q Consensus       360 ~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  414 (589)
                      +...+.+.+|...++.. ...|+ ..+|..+...|...|++++|...+++++++.|.
T Consensus       254 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          254 QKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             ----CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             hhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence            34445555666666665 23343 678899999999999999999999999987763

>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=99.24  E-value=1.8e-08  Score=107.58  Aligned_cols=416  Identities=12%  Similarity=0.036  Sum_probs=283.1

Q ss_pred             HHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-CcchHHHHHHHHHhCCC---hhHHHHHH
Q 043490           23 QAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--R-NVVSWTALISGYAQHGN---AEECFRLF   96 (589)
Q Consensus        23 ~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~~~~~g~---~~~A~~~~   96 (589)
                      +-...++..+...|   .|..+|..++..+.+.+.++.|+.+|+++..  | ....|...+..-.+.|+   ++.+..+|
T Consensus        50 d~i~~lE~~l~~np---~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lf  126 (679)
T 4e6h_A           50 DVIGKLNDMIEEQP---TDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRFPLMANIWCMRLSLEFDKMEELDAAVIEPVL  126 (679)
T ss_dssp             CHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC--CCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHCc---CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhhCCcchHHHHHHHH
Confidence            34555677766667   8999999999999999999999999998874  3 55678888888888898   99999999


Q ss_pred             HHHHhcc--CCCceeHHHHHHHhc----h--------hhHHHHHHHHHH-hcC-CCc-hhHHHHHHHHHh---------c
Q 043490           97 CSLLQYF--FPNEFSLASVLISCD----Y--------LHGKLVHALALK-FSL-DAH-VYVANALINMYS---------K  150 (589)
Q Consensus        97 ~~m~~~~--~p~~~t~~~~l~a~~----~--------~~~~~~~~~~~~-~g~-~~~-~~~~~~li~~y~---------~  150 (589)
                      ++.+...  .|+...|..-+.-..    .        ...+.++..++. .|. .++ ...|...+....         .
T Consensus       127 eRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~ee  206 (679)
T 4e6h_A          127 ARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEE  206 (679)
T ss_dssp             HHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHH
T ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHH
Confidence            9998873  376666665544321    1        223466666553 466 554 468888887654         2


Q ss_pred             -CCHHHHHHHHhhCCC-C--C-hhHHH---HHHHHHHcCCcHHHHHHHH-HHcCCHHHHHHHHHHHHH--cCCC------
Q 043490          151 -SCADEAWKVFENMEF-R--N-VISWN---SMIAAFRACKLEAQAIELF-AKMKNEEEALFLFRQLQR--EGMA------  213 (589)
Q Consensus       151 -g~~~~A~~lf~~m~~-~--~-~~~~~---~li~~~~~~g~~~~a~~~~-~~~g~~~~A~~~~~~m~~--~g~~------  213 (589)
                       ++++.++++|++... |  + ...|.   .+...+  ....  +...+ .....++.|...+.++..  .++.      
T Consensus       207 q~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~--~~~~--a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~  282 (679)
T 4e6h_A          207 QQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDV--NQLT--ARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPIT  282 (679)
T ss_dssp             HHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHH--CTTT--HHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSS
T ss_pred             HhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhc--Ccch--HHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccc
Confidence             356789999998764 3  1 12332   222221  0000  11111 112234445555555432  1111      


Q ss_pred             ---------C-----CH---HHHHHHHHHHhCcC-------cHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHH
Q 043490          214 ---------P-----DW---CTFSIVLKACAGLV-------TERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISL  269 (589)
Q Consensus       214 ---------p-----~~---~t~~~ll~a~~~~~-------~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  269 (589)
                               |     +.   ..|...+.---..+       ..+.+..+|++++..- +-+..+|-..+..+.+.|+.++
T Consensus       283 ~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~  361 (679)
T 4e6h_A          283 LNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDST  361 (679)
T ss_dssp             STTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTT
T ss_pred             cccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHH
Confidence                     1     11   22333333222221       2344567788887763 6678888888888889999999


Q ss_pred             HH-HHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CC-----------CCC------------HHHHHHHH
Q 043490          270 SK-QVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NV-----------QPD------------SATFVSLL  321 (589)
Q Consensus       270 A~-~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-----------~p~------------~~t~~~ll  321 (589)
                      |. .+|++..   ..+...|-..+...-+.|+.++|.++|+++ ..           .|+            ...|...+
T Consensus       362 a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~  441 (679)
T 4e6h_A          362 VITKYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYM  441 (679)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHH
Confidence            96 9998876   345667888888899999999999999998 32           142            23577777


Q ss_pred             HHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcC-CHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHcCCH
Q 043490          322 SACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVG-RILEAEKLIREM--PMEPDSVIWSVLLGSCRKHGET  398 (589)
Q Consensus       322 ~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~m--~~~p~~~~~~~ll~~~~~~g~~  398 (589)
                      ....+.|..+.|+++|....+.. -.+....|...+.+-.+.| +.+.|.++|+..  ...-+...|...+......|+.
T Consensus       442 ~~erR~~~l~~AR~vf~~A~~~~-~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~  520 (679)
T 4e6h_A          442 NTMKRIQGLAASRKIFGKCRRLK-KLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEE  520 (679)
T ss_dssp             HHHHHHHCHHHHHHHHHHHHHTG-GGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhc-CCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCH
Confidence            77778899999999999987541 1122334544444444544 589999999987  2223577888888888889999


Q ss_pred             HHHHHHHHHHhhcCCC---ChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCC
Q 043490          399 RLAELAATKLKQLEPG---DSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRV  447 (589)
Q Consensus       399 ~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  447 (589)
                      +.|..+|++++...|+   ....|...+..-.+.|+.+.+.++.+++.+.-.
T Consensus       521 ~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P  572 (679)
T 4e6h_A          521 SQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFP  572 (679)
T ss_dssp             HHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            9999999999998773   445678888888899999999999999987543

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.21  E-value=2e-10  Score=118.91  Aligned_cols=207  Identities=11%  Similarity=-0.026  Sum_probs=176.9

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcH-HHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHH
Q 043490          196 NEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTE-RHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVF  274 (589)
Q Consensus       196 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~-~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  274 (589)
                      ..++++..+.+.... .+.+...+..+..++...|++ ++|.+.++.+++.. +.+..++..+...|.+.|++++|...|
T Consensus        83 ~~~~al~~l~~~~~~-~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           83 EMEKTLQQMEEVLGS-AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHHTT-CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcc-CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            356777777776553 234778888999999999999 99999999999886 667889999999999999999999999


Q ss_pred             hhcC--CCChhHHHHHHHHHHHc---------CCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhcc--------CcHHHH
Q 043490          275 DKMT--YHDLVSWNSILKAYALH---------GQAKEALQLFSNM-NVQPD-SATFVSLLSACSHA--------GLVQEG  333 (589)
Q Consensus       275 ~~~~--~~~~~~~~~li~~~~~~---------g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~--------g~~~~a  333 (589)
                      ++..  .|+...|..+...|...         |++++|++.|++. ...|+ ...+..+..++...        |++++|
T Consensus       161 ~~al~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A  240 (474)
T 4abn_A          161 SGALTHCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQQA  240 (474)
T ss_dssp             HHHHTTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHhhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHHHH
Confidence            9886  56778899999999999         9999999999999 66674 67888888899888        999999


Q ss_pred             HHHHHHhHHhcCCcc----CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHH
Q 043490          334 NKVFHSMLENHGVVP----QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATK  407 (589)
Q Consensus       334 ~~~~~~~~~~~~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~  407 (589)
                      .+.|+...+.   .|    +...|..+...|.+.|++++|.+.|++. ...|+ ...|..+...+...|++++|...+++
T Consensus       241 ~~~~~~al~~---~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          241 LSAYAQAEKV---DRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHH---CGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHh---CCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            9999998764   34    6778999999999999999999999988 44564 77888999999999988888775543

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.20  E-value=8.5e-09  Score=103.12  Aligned_cols=253  Identities=13%  Similarity=0.020  Sum_probs=185.6

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHH----HHHHHHHHHhCcCcHHHHHHHHHHHHHhCC-CCc----HHHHHHHHHHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPDWC----TFSIVLKACAGLVTERHASAVHSLIAKYGF-EDD----TVIANALIHAYA  262 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~~~----t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~-~~~----~~~~~~li~~~~  262 (589)
                      ...|++++|...+++........+..    .+..+...+...|+++.|...+....+..- ..+    ..+...+...|.
T Consensus        25 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~  104 (373)
T 1hz4_A           25 INDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILF  104 (373)
T ss_dssp             HHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHH
Confidence            77899999999999987754223332    455566677889999999999998876421 111    234567888899


Q ss_pred             hcCCHHHHHHHHhhcCC----------C-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCC----C--CHHHHHHHHHHH
Q 043490          263 RCGSISLSKQVFDKMTY----------H-DLVSWNSILKAYALHGQAKEALQLFSNM-NVQ----P--DSATFVSLLSAC  324 (589)
Q Consensus       263 ~~g~~~~A~~~~~~~~~----------~-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~----p--~~~t~~~ll~a~  324 (589)
                      ..|++++|...+++...          + ....+..+...|...|++++|...+++. .+.    |  ...++..+...+
T Consensus       105 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  184 (373)
T 1hz4_A          105 AQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCS  184 (373)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHH
Confidence            99999999999987651          1 1245667888899999999999999987 221    2  234677788888


Q ss_pred             hccCcHHHHHHHHHHhHHhcCCccCcchHH-----HHHHHHhhcCCHHHHHHHHHhC-CCCCC-----HHHHHHHHHHHH
Q 043490          325 SHAGLVQEGNKVFHSMLENHGVVPQLDHYA-----CMVDLLGRVGRILEAEKLIREM-PMEPD-----SVIWSVLLGSCR  393 (589)
Q Consensus       325 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~-----~li~~~~~~g~~~~A~~~~~~m-~~~p~-----~~~~~~ll~~~~  393 (589)
                      ...|++++|...++.......-......+.     ..+..+...|++++|...+++. ...|.     ...+..+...+.
T Consensus       185 ~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~  264 (373)
T 1hz4_A          185 LARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQI  264 (373)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHH
Confidence            999999999999998764322111111222     2334577999999999999988 22221     335677888999


Q ss_pred             HcCCHHHHHHHHHHHhhcCCC-----C-hhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          394 KHGETRLAELAATKLKQLEPG-----D-SLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       394 ~~g~~~~a~~~~~~~~~~~p~-----~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      ..|++++|...++++.+..+.     + ...+..+..+|...|+.++|...+++...
T Consensus       265 ~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          265 LLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            999999999999998764321     1 23677889999999999999999988764

>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=99.20  E-value=8e-10  Score=102.26  Aligned_cols=203  Identities=12%  Similarity=0.023  Sum_probs=146.3

Q ss_pred             CCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHH
Q 043490          214 PDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILK  290 (589)
Q Consensus       214 p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~  290 (589)
                      .|+..+......+...|++++|...+...++..-+++...+..+...|.+.|++++|.+.|++..   ..+...|..+..
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   84 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSA   84 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHH
Confidence            45677777888888889999999999988887633677777778888889999999999888876   234567888888


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCCC-H-------HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccC---cchHHHHHH
Q 043490          291 AYALHGQAKEALQLFSNM-NVQPD-S-------ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ---LDHYACMVD  358 (589)
Q Consensus       291 ~~~~~g~~~~A~~~~~~m-~~~p~-~-------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~li~  358 (589)
                      .|...|++++|++.|++. ...|+ .       ..|..+...+...|++++|.+.|+..+   .+.|+   ...+..+..
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al---~~~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHAT---DVTSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT---TSSCHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHH---hcCCCcccHHHHHHHHH
Confidence            888899999999999888 55564 3       346667777788888888888888775   33554   456666777


Q ss_pred             HHhhcCCH--HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHh
Q 043490          359 LLGRVGRI--LEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIY  426 (589)
Q Consensus       359 ~~~~~g~~--~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  426 (589)
                      .|...|+.  ++|..+    . ..+...+....  ....+.+++|...++++.+++|+++.+...+..+.
T Consensus       162 ~~~~~~~~~~~~a~~~----~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~  224 (228)
T 4i17_A          162 LFYNNGADVLRKATPL----A-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVK  224 (228)
T ss_dssp             HHHHHHHHHHHHHGGG----T-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhc----c-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHH
Confidence            77655543  222211    1 12344443333  23445679999999999999998887777666554

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.16  E-value=7.9e-10  Score=111.01  Aligned_cols=300  Identities=11%  Similarity=-0.006  Sum_probs=200.4

Q ss_pred             CCchhHHHHHHHHH--hc-CCHHHHHHHHhhCCC--------CChhHHHHHHHHHHcCCcHHHHHHHHHHc-C------C
Q 043490          135 DAHVYVANALINMY--SK-SCADEAWKVFENMEF--------RNVISWNSMIAAFRACKLEAQAIELFAKM-K------N  196 (589)
Q Consensus       135 ~~~~~~~~~li~~y--~~-g~~~~A~~lf~~m~~--------~~~~~~~~li~~~~~~g~~~~a~~~~~~~-g------~  196 (589)
                      .|+..+.+.|-.-|  .+ +++++|..+++++.+        .++..|-.++..-         ..++... .      .
T Consensus         7 ~~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r---------~~~~~~~~~~~~~~~~   77 (378)
T 3q15_A            7 IPSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFR---------HQLMLDYLEPGKTYGN   77 (378)
T ss_dssp             BCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHH---------HHHHHHTCCC------
T ss_pred             ccHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH---------HHHHHhhcCccccccc
Confidence            45666667777777  55 999999999886532        2333344444321         0000111 1      1


Q ss_pred             HHHHHHHHHHHHHcCCCCCH-H---HHHHHHHHHhCcCcHHHHHHHHHHHHHhC--CC---CcHHHHHHHHHHHHhcCCH
Q 043490          197 EEEALFLFRQLQREGMAPDW-C---TFSIVLKACAGLVTERHASAVHSLIAKYG--FE---DDTVIANALIHAYARCGSI  267 (589)
Q Consensus       197 ~~~A~~~~~~m~~~g~~p~~-~---t~~~ll~a~~~~~~~~~a~~i~~~~~~~g--~~---~~~~~~~~li~~~~~~g~~  267 (589)
                      .....+.++.+.....+.+. .   .+......+...|+++.|...+..+.+..  .+   ....++..+...|...|++
T Consensus        78 ~~~~~~~l~~i~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~  157 (378)
T 3q15_A           78 RPTVTELLETIETPQKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQT  157 (378)
T ss_dssp             --CHHHHHHHHHGGGHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccchHHHHHHHhccCCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCc
Confidence            11222455554332111111 1   12223344578899999999999987652  11   1356788899999999999


Q ss_pred             HHHHHHHhhcCC-----CC-----hhHHHHHHHHHHHcCCHHHHHHHHHhC-CC---CCC----HHHHHHHHHHHhccCc
Q 043490          268 SLSKQVFDKMTY-----HD-----LVSWNSILKAYALHGQAKEALQLFSNM-NV---QPD----SATFVSLLSACSHAGL  329 (589)
Q Consensus       268 ~~A~~~~~~~~~-----~~-----~~~~~~li~~~~~~g~~~~A~~~~~~m-~~---~p~----~~t~~~ll~a~~~~g~  329 (589)
                      +.|...+++..+     ++     ..+++.+...|...|++++|++.|++. .+   .++    ..++..+...+...|+
T Consensus       158 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~  237 (378)
T 3q15_A          158 HVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGD  237 (378)
T ss_dssp             HHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCC
Confidence            999988887641     22     347888999999999999999999988 11   122    2467788889999999


Q ss_pred             HHHHHHHHHHhHHhc---CCccCcchHHHHHHHHhhcCCHHHHHHHHHhC----CC--CCC-HHHHHHHHHHHHHcCC--
Q 043490          330 VQEGNKVFHSMLENH---GVVPQLDHYACMVDLLGRVGRILEAEKLIREM----PM--EPD-SVIWSVLLGSCRKHGE--  397 (589)
Q Consensus       330 ~~~a~~~~~~~~~~~---~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~--~p~-~~~~~~ll~~~~~~g~--  397 (589)
                      +++|.+.++...+-.   +.+....++..+...|.+.|++++|...+++.    +.  .|. ...+..+...+...++  
T Consensus       238 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~  317 (378)
T 3q15_A          238 DQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDER  317 (378)
T ss_dssp             HHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHH
T ss_pred             HHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHH
Confidence            999999998876511   11223567888899999999999999999887    11  233 4456666666777788  


Q ss_pred             -HHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          398 -TRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       398 -~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                       .++|...+++. ...|.....+..++..|.+.|++++|...+++..+
T Consensus       318 ~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          318 KIHDLLSYFEKK-NLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence             67777777662 22233455677899999999999999999987753

>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=99.15  E-value=1.6e-09  Score=95.95  Aligned_cols=165  Identities=15%  Similarity=0.107  Sum_probs=139.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHh
Q 043490          251 TVIANALIHAYARCGSISLSKQVFDKMTY---HDLVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACS  325 (589)
Q Consensus       251 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~  325 (589)
                      ...+..+...|...|++++|...|+++.+   .+...|..+...+...|++++|.+.++++ ...| +...+..+...+.
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~   87 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADAPDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            45567788889999999999999998873   46678888999999999999999999998 5555 5678888888999


Q ss_pred             ccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHH
Q 043490          326 HAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAEL  403 (589)
Q Consensus       326 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~  403 (589)
                      ..|++++|.+.++.+.+..  +.+...+..+...|.+.|++++|.+.++++ ...| +...|..+...+...|++++|..
T Consensus        88 ~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEAN--PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC--cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999999887642  335667888899999999999999999987 3334 57889999999999999999999


Q ss_pred             HHHHHhhcCCCChh
Q 043490          404 AATKLKQLEPGDSL  417 (589)
Q Consensus       404 ~~~~~~~~~p~~~~  417 (589)
                      .++++.+..|++..
T Consensus       166 ~~~~~~~~~~~~~~  179 (186)
T 3as5_A          166 HFKKANELDEGASV  179 (186)
T ss_dssp             HHHHHHHHHHCCCG
T ss_pred             HHHHHHHcCCCchh
Confidence            99999998886654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.14  E-value=5.7e-09  Score=104.68  Aligned_cols=220  Identities=11%  Similarity=0.021  Sum_probs=172.3

Q ss_pred             HHcCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHhCcCcHHHHHHHHHHHHHhC--C---C-CcHHHHHHHHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGM-APD----WCTFSIVLKACAGLVTERHASAVHSLIAKYG--F---E-DDTVIANALIHA  260 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g--~---~-~~~~~~~~li~~  260 (589)
                      ...|++++|+..|++....-. .+|    ..++..+...+...|+++.|...+....+..  .   . ....+++.+...
T Consensus       112 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~  191 (378)
T 3q15_A          112 FDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGN  191 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHH
Confidence            788999999999998875321 122    3567788888999999999999999887642  1   1 125678889999


Q ss_pred             HHhcCCHHHHHHHHhhcCC-----CC----hhHHHHHHHHHHHcCCHHHHHHHHHhC-C-----CCCC-HHHHHHHHHHH
Q 043490          261 YARCGSISLSKQVFDKMTY-----HD----LVSWNSILKAYALHGQAKEALQLFSNM-N-----VQPD-SATFVSLLSAC  324 (589)
Q Consensus       261 ~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m-~-----~~p~-~~t~~~ll~a~  324 (589)
                      |...|++++|.+.|++..+     ++    ..+++.+...|...|++++|++.|++. .     ..|+ ..++..+...+
T Consensus       192 y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  271 (378)
T 3q15_A          192 YDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTL  271 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHH
Confidence            9999999999999987752     22    247888999999999999999999998 3     4444 45788888999


Q ss_pred             hccCcHHHHHHHHHHhHHhcCCccC---cchHHHHHHHHhhcCC---HHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCC
Q 043490          325 SHAGLVQEGNKVFHSMLENHGVVPQ---LDHYACMVDLLGRVGR---ILEAEKLIREMPMEPD-SVIWSVLLGSCRKHGE  397 (589)
Q Consensus       325 ~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~p~-~~~~~~ll~~~~~~g~  397 (589)
                      .+.|++++|...++...+...-.++   ...+..+...|...|+   +++|+..+++.+..|+ ...+..+...|...|+
T Consensus       272 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~y~~~g~  351 (378)
T 3q15_A          272 CKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAAVFESSCH  351 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHCCC
Confidence            9999999999999988765332222   2245666677778888   9999999999865554 4567788899999999


Q ss_pred             HHHHHHHHHHHhhc
Q 043490          398 TRLAELAATKLKQL  411 (589)
Q Consensus       398 ~~~a~~~~~~~~~~  411 (589)
                      +++|...++++.+.
T Consensus       352 ~~~A~~~~~~al~~  365 (378)
T 3q15_A          352 FEQAAAFYRKVLKA  365 (378)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999998764

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.09  E-value=9.4e-08  Score=95.45  Aligned_cols=117  Identities=10%  Similarity=0.064  Sum_probs=60.5

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCC--C--CHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCc--HHHHH----HHHHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMA--P--DWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDD--TVIAN----ALIHAY  261 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~--p--~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~--~~~~~----~li~~~  261 (589)
                      ...|++++|...+++.......  +  ...++..+...+...|++++|...++...+..-.++  .....    ..+..+
T Consensus       146 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~  225 (373)
T 1hz4_A          146 WAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYW  225 (373)
T ss_dssp             HHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHH
Confidence            6666666666666665543211  1  123455555556666666666666666554311111  11111    223345


Q ss_pred             HhcCCHHHHHHHHhhcCCCCh-------hHHHHHHHHHHHcCCHHHHHHHHHhC
Q 043490          262 ARCGSISLSKQVFDKMTYHDL-------VSWNSILKAYALHGQAKEALQLFSNM  308 (589)
Q Consensus       262 ~~~g~~~~A~~~~~~~~~~~~-------~~~~~li~~~~~~g~~~~A~~~~~~m  308 (589)
                      ...|++++|...+++...++.       ..+..+...+...|++++|...+++.
T Consensus       226 ~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a  279 (373)
T 1hz4_A          226 QMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEEL  279 (373)
T ss_dssp             HHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            566666666666666553211       13444555556666666666666554

>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=99.06  E-value=7e-10  Score=119.76  Aligned_cols=162  Identities=15%  Similarity=0.159  Sum_probs=123.5

Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHH
Q 043490          248 EDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLS  322 (589)
Q Consensus       248 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~  322 (589)
                      |.+...++.|...|.+.|++++|.+.|++..   ..+..+|+.+...|.+.|++++|++.|++. .+.|+ ..+|..+..
T Consensus         6 P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~~~a~~nLg~   85 (723)
T 4gyw_A            6 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGN   85 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            3346677777777888888888888777765   335667777888888888888888888887 66675 457778888


Q ss_pred             HHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHH
Q 043490          323 ACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETR  399 (589)
Q Consensus       323 a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~  399 (589)
                      ++...|++++|.+.|++.++.   .| +...|..+..+|.+.|++++|++.|++. .+.|+ ...|..+..++...|+++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l---~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQI---NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHH
Confidence            888888888888888877643   44 4567788888888888888888888877 55665 778888888888888888


Q ss_pred             HHHHHHHHHhhcC
Q 043490          400 LAELAATKLKQLE  412 (589)
Q Consensus       400 ~a~~~~~~~~~~~  412 (589)
                      +|.+.++++.++.
T Consensus       163 ~A~~~~~kal~l~  175 (723)
T 4gyw_A          163 DYDERMKKLVSIV  175 (723)
T ss_dssp             THHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC
Confidence            8888888877643

>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=99.06  E-value=3e-09  Score=101.33  Aligned_cols=144  Identities=13%  Similarity=0.115  Sum_probs=93.9

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh------CC-CCcHHHHHHHHHHHHhcCCHHHHH
Q 043490          199 EALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKY------GF-EDDTVIANALIHAYARCGSISLSK  271 (589)
Q Consensus       199 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~------g~-~~~~~~~~~li~~~~~~g~~~~A~  271 (589)
                      +|++++.+......+....++..+...+...|+++.|...+..+++.      +- +....++..+...|...|++++|.
T Consensus        26 ~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  105 (283)
T 3edt_B           26 QALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAE  105 (283)
T ss_dssp             HHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHH
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHH
Confidence            34444444433222234567778888888889999999888887765      22 234567778888888888888888


Q ss_pred             HHHhhcCC-------C----ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CC--------CCC-HHHHHHHHHHHhccCcH
Q 043490          272 QVFDKMTY-------H----DLVSWNSILKAYALHGQAKEALQLFSNM-NV--------QPD-SATFVSLLSACSHAGLV  330 (589)
Q Consensus       272 ~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~--------~p~-~~t~~~ll~a~~~~g~~  330 (589)
                      ..|++...       +    ...+|..+...|...|++++|++.|++. ..        .|+ ..++..+...+...|++
T Consensus       106 ~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  185 (283)
T 3edt_B          106 PLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKY  185 (283)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCH
Confidence            88876541       1    1345666677777777777777777766 22        222 34566666667777777


Q ss_pred             HHHHHHHHHhHH
Q 043490          331 QEGNKVFHSMLE  342 (589)
Q Consensus       331 ~~a~~~~~~~~~  342 (589)
                      ++|.++++...+
T Consensus       186 ~~A~~~~~~~l~  197 (283)
T 3edt_B          186 QDAETLYKEILT  197 (283)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            777777766643

>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=99.04  E-value=6.9e-10  Score=105.81  Aligned_cols=217  Identities=17%  Similarity=0.193  Sum_probs=148.7

Q ss_pred             CcCcHHHHHHHHHHHHH-------hCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC-------C----ChhHHHHHH
Q 043490          228 GLVTERHASAVHSLIAK-------YGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY-------H----DLVSWNSIL  289 (589)
Q Consensus       228 ~~~~~~~a~~i~~~~~~-------~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li  289 (589)
                      ..|+++.|...+++.++       ...+....++..+...|...|++++|...|++...       +    ...+|..+.
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            34444445444444433       22234567888999999999999999999987651       1    245788899


Q ss_pred             HHHHHcCCHHHHHHHHHhC-CC--------CCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhc-----CCcc-CcchH
Q 043490          290 KAYALHGQAKEALQLFSNM-NV--------QPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENH-----GVVP-QLDHY  353 (589)
Q Consensus       290 ~~~~~~g~~~~A~~~~~~m-~~--------~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~-----~~~p-~~~~~  353 (589)
                      ..|...|++++|++.|++. ..        .|+ ..++..+...+...|++++|.++++...+..     +-.| ....+
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            9999999999999999998 22        232 4578888889999999999999998886531     1122 34578


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhC----------CCCCC-HHHHHHHHHHHHHcCC------HHHHHHHHHHHhhcCCCCh
Q 043490          354 ACMVDLLGRVGRILEAEKLIREM----------PMEPD-SVIWSVLLGSCRKHGE------TRLAELAATKLKQLEPGDS  416 (589)
Q Consensus       354 ~~li~~~~~~g~~~~A~~~~~~m----------~~~p~-~~~~~~ll~~~~~~g~------~~~a~~~~~~~~~~~p~~~  416 (589)
                      ..+...|.+.|++++|.+.+++.          ...|. ...|..+.......+.      +..+...++......|...
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  252 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVN  252 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHH
Confidence            88899999999999999999876          11232 3344444333333332      2233333333323335556


Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          417 LGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       417 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      .++..++.+|...|++++|..++++..+
T Consensus       253 ~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          253 TTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6788999999999999999999998764

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.03  E-value=3.3e-09  Score=102.27  Aligned_cols=187  Identities=9%  Similarity=0.015  Sum_probs=97.6

Q ss_pred             hCcCcHHHHHHHHHHHHHh----CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CC----hhHHHHHHHHH
Q 043490          227 AGLVTERHASAVHSLIAKY----GFEDD-TVIANALIHAYARCGSISLSKQVFDKMTY-----HD----LVSWNSILKAY  292 (589)
Q Consensus       227 ~~~~~~~~a~~i~~~~~~~----g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~  292 (589)
                      ...|++++|...+....+.    |-+++ ..+++.+..+|.+.|++++|...|++..+     .+    ..+|+.+...|
T Consensus        48 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~  127 (292)
T 1qqe_A           48 RLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEIL  127 (292)
T ss_dssp             HHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            3445555555555544332    21111 34555666666666666666666655431     11    23556666666


Q ss_pred             HHc-CCHHHHHHHHHhC-CCCCC-------HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcc-----hHHHHHH
Q 043490          293 ALH-GQAKEALQLFSNM-NVQPD-------SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLD-----HYACMVD  358 (589)
Q Consensus       293 ~~~-g~~~~A~~~~~~m-~~~p~-------~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~-----~~~~li~  358 (589)
                      ... |++++|+..|++. .+.|+       ..++..+...+...|++++|...|+...+...-.+...     .|..+..
T Consensus       128 ~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~  207 (292)
T 1qqe_A          128 ENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGL  207 (292)
T ss_dssp             HHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHH
T ss_pred             HHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHH
Confidence            664 7777777666666 22221       23456666666777777777777766654311111111     3455556


Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCCCHH------HHHHHHHHHH--HcCCHHHHHHHHHHHhhcCC
Q 043490          359 LLGRVGRILEAEKLIREM-PMEPDSV------IWSVLLGSCR--KHGETRLAELAATKLKQLEP  413 (589)
Q Consensus       359 ~~~~~g~~~~A~~~~~~m-~~~p~~~------~~~~ll~~~~--~~g~~~~a~~~~~~~~~~~p  413 (589)
                      +|...|++++|...|++. .+.|+..      .+..++.++.  ..+++++|...++++.+++|
T Consensus       208 ~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~  271 (292)
T 1qqe_A          208 CQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDK  271 (292)
T ss_dssp             HHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCH
T ss_pred             HHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHH
Confidence            666667777777777665 3344311      2333444443  23456666666666655555

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.99  E-value=2.8e-08  Score=93.86  Aligned_cols=203  Identities=7%  Similarity=-0.019  Sum_probs=136.7

Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-C---hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----HHH
Q 043490          248 EDDTVIANALIHAYARCGSISLSKQVFDKMTY--H-D---LVSWNSILKAYALHGQAKEALQLFSNM-NVQPD----SAT  316 (589)
Q Consensus       248 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~---~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~t  316 (589)
                      +.+...+-.+...+.+.|++++|...|+++..  | +   ...+..+..+|.+.|++++|+..|++. ...|+    ...
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            34556666777778888888888888887762  2 3   456777777788888888888888887 44442    235


Q ss_pred             HHHHHHHHhc--------cCcHHHHHHHHHHhHHhcCCccCc-chHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHH
Q 043490          317 FVSLLSACSH--------AGLVQEGNKVFHSMLENHGVVPQL-DHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSV  387 (589)
Q Consensus       317 ~~~ll~a~~~--------~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~  387 (589)
                      +..+..++..        .|++++|...|+.+++.   .|+. .....+.......+.+               ...+..
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~p~~~~~~~a~~~~~~~~~~~---------------~~~~~~  153 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR---YPNHELVDDATQKIRELRAKL---------------ARKQYE  153 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH---CTTCTTHHHHHHHHHHHHHHH---------------HHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH---CcCchhHHHHHHHHHHHHHHH---------------HHHHHH
Confidence            5566666666        77888888888777654   2432 2222211111000000               122456


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhcCCCC---hhHHHHHHHHhhhc----------CChHHHHHHHHHHhcCCCccCCcee
Q 043490          388 LLGSCRKHGETRLAELAATKLKQLEPGD---SLGFVQMSNIYCLS----------GSFNKARLIRKEMKGSRVRKYPGLS  454 (589)
Q Consensus       388 ll~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~----------g~~~~a~~~~~~m~~~~~~~~~~~s  454 (589)
                      +...+...|+++.|+..++++++..|++   +..+..++.+|...          |++++|...++++.+...       
T Consensus       154 la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p-------  226 (261)
T 3qky_A          154 AARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFP-------  226 (261)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCT-------
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCC-------
Confidence            7788999999999999999999999874   45788899999876          899999999999876432       


Q ss_pred             eEEECCEEEEEeeCCCCCccHHHHHHHHHHHHHHHHh
Q 043490          455 WIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLKG  491 (589)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~m~~  491 (589)
                                      .++...++...+.++...+.+
T Consensus       227 ----------------~~~~~~~a~~~l~~~~~~~~~  247 (261)
T 3qky_A          227 ----------------DSPLLRTAEELYTRARQRLTE  247 (261)
T ss_dssp             ----------------TCTHHHHHHHHHHHHHHHHHH
T ss_pred             ----------------CChHHHHHHHHHHHHHHHHHH
Confidence                            244555666666666666543

>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=98.98  E-value=6.3e-08  Score=89.29  Aligned_cols=192  Identities=11%  Similarity=0.029  Sum_probs=146.8

Q ss_pred             ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhC
Q 043490          167 NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYG  246 (589)
Q Consensus       167 ~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g  246 (589)
                      |+..|......+             ...|++++|+..|++......+++...+..+..++...|++++|...+...++..
T Consensus         6 ~~~~~~~~g~~~-------------~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~   72 (228)
T 4i17_A            6 DPNQLKNEGNDA-------------LNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN   72 (228)
T ss_dssp             CHHHHHHHHHHH-------------HHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHH-------------HHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC
Confidence            456677777777             8999999999999999887644788888888889999999999999999999876


Q ss_pred             CCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC--CC-Ch-------hHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC--
Q 043490          247 FEDDTVIANALIHAYARCGSISLSKQVFDKMT--YH-DL-------VSWNSILKAYALHGQAKEALQLFSNM-NVQPD--  313 (589)
Q Consensus       247 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~-~~-------~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~--  313 (589)
                       +.+..++..+...|.+.|++++|...|++..  .| +.       ..|..+...+...|++++|++.|++. ...|+  
T Consensus        73 -p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~  151 (228)
T 4i17_A           73 -YNLANAYIGKSAAYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKW  151 (228)
T ss_dssp             -CSHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHH
T ss_pred             -cchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcc
Confidence             6678899999999999999999999999886  23 44       45888888899999999999999999 88887  


Q ss_pred             H-HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC
Q 043490          314 S-ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD  381 (589)
Q Consensus       314 ~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~  381 (589)
                      . ..+..+..++...|     ..+++.+... + ..+...|....  ....+.+++|...+++. ...|+
T Consensus       152 ~~~~~~~l~~~~~~~~-----~~~~~~a~~~-~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~  212 (228)
T 4i17_A          152 KTDALYSLGVLFYNNG-----ADVLRKATPL-A-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPN  212 (228)
T ss_dssp             HHHHHHHHHHHHHHHH-----HHHHHHHGGG-T-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             cHHHHHHHHHHHHHHH-----HHHHHHHHhc-c-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCC
Confidence            3 46666766665443     3444444221 1 11223333332  33456789999999888 45565

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.96  E-value=6e-09  Score=100.47  Aligned_cols=199  Identities=10%  Similarity=-0.004  Sum_probs=148.0

Q ss_pred             cHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CC----hhHHHHHHHHHHHcCCHHHH
Q 043490          231 TERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY-----HD----LVSWNSILKAYALHGQAKEA  301 (589)
Q Consensus       231 ~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A  301 (589)
                      ++++|...+..+               ...|...|++++|...|++...     .+    ..+|+.+...|...|++++|
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A   96 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            488888887765               4467889999999999887652     12    46889999999999999999


Q ss_pred             HHHHHhC-CCCC---C----HHHHHHHHHHHhcc-CcHHHHHHHHHHhHHhcCCccC----cchHHHHHHHHhhcCCHHH
Q 043490          302 LQLFSNM-NVQP---D----SATFVSLLSACSHA-GLVQEGNKVFHSMLENHGVVPQ----LDHYACMVDLLGRVGRILE  368 (589)
Q Consensus       302 ~~~~~~m-~~~p---~----~~t~~~ll~a~~~~-g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~  368 (589)
                      +..|++. .+.|   +    ..++..+...+... |++++|...|++..+-..-..+    ..++..+...|.+.|++++
T Consensus        97 ~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~  176 (292)
T 1qqe_A           97 VDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIE  176 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHH
Confidence            9999988 2222   2    35788889999996 9999999999988653211111    3468888999999999999


Q ss_pred             HHHHHHhC-CCCCC---H-----HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhH-----HHHHHHHhh--hcCCh
Q 043490          369 AEKLIREM-PMEPD---S-----VIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLG-----FVQMSNIYC--LSGSF  432 (589)
Q Consensus       369 A~~~~~~m-~~~p~---~-----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~-----~~~l~~~~~--~~g~~  432 (589)
                      |+..|++. ...|+   .     ..|..+..++...|+++.|...+++.++++|.....     +..++.+|.  ..+++
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~  256 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQL  256 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTH
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHH
Confidence            99999987 22332   1     257778888999999999999999999999865432     345666664  56778


Q ss_pred             HHHHHHHHHHhc
Q 043490          433 NKARLIRKEMKG  444 (589)
Q Consensus       433 ~~a~~~~~~m~~  444 (589)
                      ++|...|+++..
T Consensus       257 ~~A~~~~~~~~~  268 (292)
T 1qqe_A          257 SEHCKEFDNFMR  268 (292)
T ss_dssp             HHHHHHHTTSSC
T ss_pred             HHHHHHhccCCc
Confidence            888888866543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.94  E-value=1.8e-08  Score=95.16  Aligned_cols=199  Identities=12%  Similarity=-0.010  Sum_probs=142.6

Q ss_pred             CCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCc---HHHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-C---hhH
Q 043490          214 PDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDD---TVIANALIHAYARCGSISLSKQVFDKMTY--H-D---LVS  284 (589)
Q Consensus       214 p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~---~~~  284 (589)
                      .+...+-.....+.+.|++++|...+..+++.. +.+   ..++..+...|.+.|++++|...|++...  | +   ..+
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            456677777888889999999999999998874 334   67888899999999999999999999862  3 2   346


Q ss_pred             HHHHHHHHHH--------cCCHHHHHHHHHhC-CCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHH
Q 043490          285 WNSILKAYAL--------HGQAKEALQLFSNM-NVQPDSA-TFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYA  354 (589)
Q Consensus       285 ~~~li~~~~~--------~g~~~~A~~~~~~m-~~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~  354 (589)
                      +..+..++..        .|++++|+..|++. ...|+.. ....+.              .+..+...     ....+.
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~--------------~~~~~~~~-----~~~~~~  152 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQ--------------KIRELRAK-----LARKQY  152 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHH--------------HHHHHHHH-----HHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHH--------------HHHHHHHH-----HHHHHH
Confidence            7778888888        99999999999999 6566532 221111              11111000     011245


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHHc----------CCHHHHHHHHHHHhhcCCCChhH-
Q 043490          355 CMVDLLGRVGRILEAEKLIREM-PMEPD----SVIWSVLLGSCRKH----------GETRLAELAATKLKQLEPGDSLG-  418 (589)
Q Consensus       355 ~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~ll~~~~~~----------g~~~~a~~~~~~~~~~~p~~~~~-  418 (589)
                      .+...|.+.|++++|...|+++ ...|+    ...+..+..++...          |++++|...++++++..|+++.+ 
T Consensus       153 ~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~  232 (261)
T 3qky_A          153 EAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLR  232 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHHH
Confidence            6677888889999999988877 22333    45677777788766          88999999999999999977543 


Q ss_pred             --HHHHHHHhhhcCCh
Q 043490          419 --FVQMSNIYCLSGSF  432 (589)
Q Consensus       419 --~~~l~~~~~~~g~~  432 (589)
                        ...+..++.+.|++
T Consensus       233 ~a~~~l~~~~~~~~~~  248 (261)
T 3qky_A          233 TAEELYTRARQRLTEL  248 (261)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHh
Confidence              33444444444443

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.91  E-value=2.5e-09  Score=91.77  Aligned_cols=138  Identities=9%  Similarity=-0.028  Sum_probs=99.5

Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHH
Q 043490          291 AYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRIL  367 (589)
Q Consensus       291 ~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~  367 (589)
                      .+...|++++|++.+++. ...|+ ...+..+...|.+.|++++|.+.|+..++.   .| +...|..+...|.+.|+++
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~---~p~~~~a~~~lg~~~~~~~~~~   82 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV---QERDPKAHRFLGLLYELEENTD   82 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCchH
Confidence            344556677777777776 55553 335556677777777788887777777643   34 4567777777788888888


Q ss_pred             HHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHH-HHHHHhhcCCCChhHHHHHHHHhhhcCC
Q 043490          368 EAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAEL-AATKLKQLEPGDSLGFVQMSNIYCLSGS  431 (589)
Q Consensus       368 ~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~-~~~~~~~~~p~~~~~~~~l~~~~~~~g~  431 (589)
                      +|+..|++. .+.|+ ...|..+...+.+.|+.++|.+ .++++++++|.++.+|.....++...|+
T Consensus        83 ~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           83 KAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            888887776 44564 7788888888888888876555 4588899999888888888888877775

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.90  E-value=4.7e-08  Score=90.10  Aligned_cols=179  Identities=9%  Similarity=-0.014  Sum_probs=120.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHhhcCC--CC----hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHH----HHHH
Q 043490          251 TVIANALIHAYARCGSISLSKQVFDKMTY--HD----LVSWNSILKAYALHGQAKEALQLFSNM-NVQPDSA----TFVS  319 (589)
Q Consensus       251 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~----t~~~  319 (589)
                      ...+..+...+.+.|++++|...|+++..  |+    ...+..+..+|.+.|++++|+..|++. ...|+..    .+..
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~   83 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHH
Confidence            34555667778888999999999888762  32    246777888888899999999998888 5555432    3444


Q ss_pred             HHHHHhc------------------cCcHHHHHHHHHHhHHhcCCccCcc-hHHHHHHHHhhcCCHHHHHHHHHhCCCCC
Q 043490          320 LLSACSH------------------AGLVQEGNKVFHSMLENHGVVPQLD-HYACMVDLLGRVGRILEAEKLIREMPMEP  380 (589)
Q Consensus       320 ll~a~~~------------------~g~~~~a~~~~~~~~~~~~~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~p  380 (589)
                      +..++..                  .|+.++|...|+.+++.   .|+.. .+.+..    +.+.+....          
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~P~~~~a~~a~~----~l~~~~~~~----------  146 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG---YPNSQYTTDATK----RLVFLKDRL----------  146 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT---CTTCTTHHHHHH----HHHHHHHHH----------
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH---CcCChhHHHHHH----HHHHHHHHH----------
Confidence            4444433                  35666666666666533   23322 111111    000000000          


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCh---hHHHHHHHHhhhcCChHHHHHHHHHHhcCCC
Q 043490          381 DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDS---LGFVQMSNIYCLSGSFNKARLIRKEMKGSRV  447 (589)
Q Consensus       381 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  447 (589)
                       ......+...+.+.|+++.|+..++++++..|+++   .++..++.+|.+.|++++|.+.++.+...+.
T Consensus       147 -~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~  215 (225)
T 2yhc_A          147 -AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSS  215 (225)
T ss_dssp             -HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCS
T ss_pred             -HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCC
Confidence             01113456678899999999999999999999775   5688999999999999999999999887654

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.89  E-value=3.2e-08  Score=82.16  Aligned_cols=127  Identities=17%  Similarity=0.212  Sum_probs=89.5

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHH
Q 043490          317 FVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRK  394 (589)
Q Consensus       317 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~  394 (589)
                      +..+...+...|++++|.++++.+.+..  +.+...+..+...+...|++++|...++++ ...| +...|..+...+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD--PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC--CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHH
Confidence            4455555666666666666666664431  123445566666666777777777777665 2223 46677778888888


Q ss_pred             cCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          395 HGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       395 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      .|++++|...++++.+..|.+..++..++.+|.+.|++++|...++++.+.
T Consensus        82 ~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            888888888888888888888888888888888888888888888877653

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.89  E-value=7.9e-08  Score=91.26  Aligned_cols=172  Identities=8%  Similarity=-0.003  Sum_probs=131.3

Q ss_pred             HHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC---CHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 043490          270 SKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQP---DSATFVSLLSACSHAGLVQEGNKVFHSMLE  342 (589)
Q Consensus       270 A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p---~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  342 (589)
                      |...|++..   .++..++..+..++...|++++|++++.+. +..|   +...+..++..+.+.|+.+.|.+.++.|.+
T Consensus        85 a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~  164 (310)
T 3mv2_B           85 NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN  164 (310)
T ss_dssp             CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            677777665   355666677888899999999999999987 5554   345777888899999999999999999864


Q ss_pred             hcCCcc-----CcchHHHHHHH--HhhcC--CHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc-
Q 043490          343 NHGVVP-----QLDHYACMVDL--LGRVG--RILEAEKLIREM-PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQL-  411 (589)
Q Consensus       343 ~~~~~p-----~~~~~~~li~~--~~~~g--~~~~A~~~~~~m-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-  411 (589)
                      .   .|     +..+...|..+  ....|  +..+|..+|+++ ...|+..+-..++.++.+.|++++|+..++.+.+. 
T Consensus       165 ~---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~  241 (310)
T 3mv2_B          165 A---IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDY  241 (310)
T ss_dssp             H---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHH
T ss_pred             c---CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            3   45     24555556555  33334  899999999998 44466444455556888999999999999988775 


Q ss_pred             ---------CCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          412 ---------EPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       412 ---------~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                               +|.++.++..++..+...|+  +|.++++++++..
T Consensus       242 p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          242 YSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence                     48888888888888877887  8889999888754

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.88  E-value=7e-09  Score=112.36  Aligned_cols=166  Identities=10%  Similarity=-0.022  Sum_probs=133.5

Q ss_pred             HhcCCHHHHHHHHhhcC-----------CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccC
Q 043490          262 ARCGSISLSKQVFDKMT-----------YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAG  328 (589)
Q Consensus       262 ~~~g~~~~A~~~~~~~~-----------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g  328 (589)
                      ...|++++|.+.|++..           ..+...|..+...|.+.|++++|++.|++. ...| +...+..+..++...|
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g  481 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLTG  481 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHT
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHcC
Confidence            67788888888888765           345678888888888999999999999888 6666 4567888888888899


Q ss_pred             cHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHH
Q 043490          329 LVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAA  405 (589)
Q Consensus       329 ~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~  405 (589)
                      ++++|.+.|++..+.   .| +...|..+..+|.+.|++++ ++.|++. ...|+ ...|..+..++...|++++|+..+
T Consensus       482 ~~~~A~~~~~~al~l---~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          482 DYDSATKHFTEVLDT---FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             CHHHHHHHHHHHHHH---STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            999999999888654   45 56678888888999999988 8888877 44554 778888889999999999999999


Q ss_pred             HHHhhcCCCChhHHHHHHHHhhhcCC
Q 043490          406 TKLKQLEPGDSLGFVQMSNIYCLSGS  431 (589)
Q Consensus       406 ~~~~~~~p~~~~~~~~l~~~~~~~g~  431 (589)
                      +++.+++|.+..++..++.+|...|+
T Consensus       558 ~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          558 DEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HhhcccCcccHHHHHHHHHHHHccCC
Confidence            99999999888889899998877665

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.85  E-value=2.3e-08  Score=96.05  Aligned_cols=158  Identities=8%  Similarity=-0.040  Sum_probs=98.5

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHH-HHH
Q 043490          283 VSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACM-VDL  359 (589)
Q Consensus       283 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l-i~~  359 (589)
                      ..+..+...+.+.|++++|+..|++. ...|+ ...+..+...+...|++++|...++.+..   ..|+....... ...
T Consensus       118 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~---~~p~~~~~~~~~~~~  194 (287)
T 3qou_A          118 ELXAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPL---QDQDTRYQGLVAQIE  194 (287)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCG---GGCSHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCch---hhcchHHHHHHHHHH
Confidence            34444444455555555555555555 33442 33444455555555555555555554432   12322211111 122


Q ss_pred             HhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC--hhHHHHHHHHhhhcCChHHH
Q 043490          360 LGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGD--SLGFVQMSNIYCLSGSFNKA  435 (589)
Q Consensus       360 ~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~a  435 (589)
                      +.+.++.++|.+.+++. ...| +...+..+...+...|++++|...++++++.+|.+  ...+..|+.+|...|+.++|
T Consensus       195 l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a  274 (287)
T 3qou_A          195 LLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDAL  274 (287)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHH
T ss_pred             HHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcH
Confidence            44455555566666555 3345 47888889999999999999999999999999877  77899999999999999999


Q ss_pred             HHHHHHHh
Q 043490          436 RLIRKEMK  443 (589)
Q Consensus       436 ~~~~~~m~  443 (589)
                      ...+++..
T Consensus       275 ~~~~r~al  282 (287)
T 3qou_A          275 ASXYRRQL  282 (287)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88887643

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.82  E-value=7.8e-08  Score=79.73  Aligned_cols=129  Identities=19%  Similarity=0.298  Sum_probs=92.4

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHh
Q 043490          284 SWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLG  361 (589)
Q Consensus       284 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~  361 (589)
                      +|..+...+...|++++|+.+|+++ ...| +...+..+...+...|++++|.++++.+.+..  +.+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC--CCchHHHHHHHHHHH
Confidence            4566667777777777777777777 3333 45566667777777778888888777775431  224456677777788


Q ss_pred             hcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC
Q 043490          362 RVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPG  414 (589)
Q Consensus       362 ~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  414 (589)
                      +.|++++|.+.++++ ...| +...|..+...+...|++++|...++++.+.+|.
T Consensus        81 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  135 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR  135 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTT
T ss_pred             HhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCC
Confidence            888888888888776 2233 4777888888888889999999999888887774

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.81  E-value=1.2e-07  Score=90.07  Aligned_cols=240  Identities=10%  Similarity=0.017  Sum_probs=164.2

Q ss_pred             HHHhcCCHHHHHHHHhhCCCCChh-HHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 043490          146 NMYSKSCADEAWKVFENMEFRNVI-SWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLK  224 (589)
Q Consensus       146 ~~y~~g~~~~A~~lf~~m~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  224 (589)
                      +.|--|.+..+..-...+...+.. .---+.++|             ...|++...         ..-.|....+..+..
T Consensus        22 n~fy~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~-------------iAlg~~~~~---------~~~~~~~~a~~~la~   79 (310)
T 3mv2_B           22 QNYYTGNFVQCLQEIEKFSKVTDNTLLFYKAKTL-------------LALGQYQSQ---------DPTSKLGKVLDLYVQ   79 (310)
T ss_dssp             HHHTTTCHHHHTHHHHTSSCCCCHHHHHHHHHHH-------------HHTTCCCCC---------CSSSTTHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHhcCccchHHHHHHHHHHH-------------HHcCCCccC---------CCCCHHHHHHHHHHH
Confidence            344448888888766666432222 222344667             555554421         012334333333332


Q ss_pred             HHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CChhHHHHHHHHHHHcCCHH
Q 043490          225 ACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY-----HDLVSWNSILKAYALHGQAK  299 (589)
Q Consensus       225 a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~  299 (589)
                       |...+    +...++...+.+ +++......+...|...|++++|++++.+...     .+...+..++..|.+.|+.+
T Consensus        80 -~~~~~----a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d  153 (310)
T 3mv2_B           80 -FLDTK----NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVS  153 (310)
T ss_dssp             -HHTTT----CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHH
T ss_pred             -Hhccc----HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHH
Confidence             22322    566677666655 45566667888999999999999999998743     34567888899999999999


Q ss_pred             HHHHHHHhC-CCCC-----CHHHHHHHHHHH--hccC--cHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHH
Q 043490          300 EALQLFSNM-NVQP-----DSATFVSLLSAC--SHAG--LVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEA  369 (589)
Q Consensus       300 ~A~~~~~~m-~~~p-----~~~t~~~ll~a~--~~~g--~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  369 (589)
                      .|.+.+++| ...|     +..+...+..++  ...|  ++.+|..+|+++.++   .|+...-..++.++.+.|++++|
T Consensus       154 ~A~k~l~~~~~~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eA  230 (310)
T 3mv2_B          154 TASTIFDNYTNAIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEA  230 (310)
T ss_dssp             HHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHhcCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHH
Confidence            999999999 7788     356666666663  3334  899999999998654   34433344555589999999999


Q ss_pred             HHHHHhC-CC----------CCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhH
Q 043490          370 EKLIREM-PM----------EPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLG  418 (589)
Q Consensus       370 ~~~~~~m-~~----------~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  418 (589)
                      .+.++.+ ..          .|+ +.+...++......|+  .|.++++++.+..|+++.+
T Consensus       231 e~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i  289 (310)
T 3mv2_B          231 QGIVELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFI  289 (310)
T ss_dssp             HHHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHH
T ss_pred             HHHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHH
Confidence            9999865 21          254 7777677766677787  8899999999999988754

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.77  E-value=2.9e-07  Score=81.04  Aligned_cols=155  Identities=12%  Similarity=0.009  Sum_probs=101.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCc
Q 043490          254 ANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDSATFVSLLSACSHAGL  329 (589)
Q Consensus       254 ~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~~g~  329 (589)
                      ...+...+.+.|++++|...|++..   ..+...|..+...|...|++++|+..|++. ...|+.. +..+...+.    
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~-~~~~~~~~~----   83 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEYQDNS-YKSLIAKLE----   83 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGCCHH-HHHHHHHHH----
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccCChH-HHHHHHHHH----
Confidence            3445566677777777777777766   235566777777777777777777777777 5555332 221111000    


Q ss_pred             HHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 043490          330 VQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATK  407 (589)
Q Consensus       330 ~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~  407 (589)
                                                    +.+.+...+|...+++. ...| +...+..+...+...|++++|...+++
T Consensus        84 ------------------------------~~~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~  133 (176)
T 2r5s_A           84 ------------------------------LHQQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWN  133 (176)
T ss_dssp             ------------------------------HHHHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ------------------------------HHhhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence                                          00000111233444433 2245 477888888889999999999999999


Q ss_pred             HhhcCCCC--hhHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          408 LKQLEPGD--SLGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       408 ~~~~~p~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      +++.+|..  ...+..++.+|...|+.++|...+++..
T Consensus       134 ~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A          134 ILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             HHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            99988754  5588889999999999999998887654

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.77  E-value=1.1e-07  Score=103.01  Aligned_cols=186  Identities=13%  Similarity=0.086  Sum_probs=150.1

Q ss_pred             hCcCcHHHHHHHHHHHH--------HhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHc
Q 043490          227 AGLVTERHASAVHSLIA--------KYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALH  295 (589)
Q Consensus       227 ~~~~~~~~a~~i~~~~~--------~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~  295 (589)
                      ...|+.++|.+.++.++        +.. +.+...+..+...|.+.|++++|...|++..   ..+...|..+..+|...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHc
Confidence            78899999999999998        432 5667889999999999999999999999887   45778999999999999


Q ss_pred             CCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHH
Q 043490          296 GQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKL  372 (589)
Q Consensus       296 g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~  372 (589)
                      |++++|++.|++. ...|+ ...+..+..++...|++++ .+.|+...+.   .| +...|..+..+|.+.|++++|.+.
T Consensus       481 g~~~~A~~~~~~al~l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~---~P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTFPGELAPKLALAATAELAGNTDE-HKFYQTVWST---NDGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHh---CCchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999999 77774 5688889999999999999 9999988754   45 556889999999999999999999


Q ss_pred             HHhC-CCCCC-HHHHHHHHHHHHHcCC-----HHHHHHHHHHHhhcCCCChh
Q 043490          373 IREM-PMEPD-SVIWSVLLGSCRKHGE-----TRLAELAATKLKQLEPGDSL  417 (589)
Q Consensus       373 ~~~m-~~~p~-~~~~~~ll~~~~~~g~-----~~~a~~~~~~~~~~~p~~~~  417 (589)
                      |++. ...|+ ...|..+..++...++     .+...++.+.+.++.+.++.
T Consensus       557 ~~~al~l~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~~~~~~~~  608 (681)
T 2pzi_A          557 LDEVPPTSRHFTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEALPPTEPR  608 (681)
T ss_dssp             HHTSCTTSTTHHHHHHHHHHHTC-------CCHHHHHHHHHHHHTSCTTSTT
T ss_pred             HHhhcccCcccHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhhCCCCcHH
Confidence            9998 67787 6778778888766555     34444555555555544433

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.75  E-value=7e-08  Score=102.44  Aligned_cols=157  Identities=13%  Similarity=0.075  Sum_probs=123.9

Q ss_pred             cCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHH
Q 043490          264 CGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFH  338 (589)
Q Consensus       264 ~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~  338 (589)
                      .|++++|.+.|++..   ..+...|..+...|.+.|++++|++.|++. ...|+ ...+..+..++...|++++|.+.++
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~   81 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLLQ   81 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            478899999999887   345678999999999999999999999999 77775 5688889999999999999999999


Q ss_pred             HhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHc---CCHHHHHHHHHHHhhcC
Q 043490          339 SMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKH---GETRLAELAATKLKQLE  412 (589)
Q Consensus       339 ~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~---g~~~~a~~~~~~~~~~~  412 (589)
                      +..+.   .| +...+..+...|.+.|++++|.+.+++. ...| +...+..+...+...   |+.++|...++++++.+
T Consensus        82 ~al~~---~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           82 QASDA---APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHhc---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            98764   34 4668889999999999999999999988 4445 478899999999999   99999999999999999


Q ss_pred             CCChhHHHHHH
Q 043490          413 PGDSLGFVQMS  423 (589)
Q Consensus       413 p~~~~~~~~l~  423 (589)
                      |.+...+..+.
T Consensus       159 p~~~~~~~~l~  169 (568)
T 2vsy_A          159 VGAVEPFAFLS  169 (568)
T ss_dssp             CCCSCHHHHTT
T ss_pred             CcccChHHHhC
Confidence            98888877665

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.72  E-value=2.2e-07  Score=84.40  Aligned_cols=123  Identities=11%  Similarity=0.046  Sum_probs=88.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcC
Q 043490          288 ILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVG  364 (589)
Q Consensus       288 li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g  364 (589)
                      +...|.+.|++++|+..|++. ...|+ ...+..+..++...|++++|.+.|+..++.   .| +...+..+...|...|
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~~~  136 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQL---EADNLAANIFLGNYYYLTA  136 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHHh
Confidence            777788888888888888888 66664 567778888888888888888888887653   45 4557777777776554


Q ss_pred             C--HHHHHHHHHhCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC
Q 043490          365 R--ILEAEKLIREMPMEPD--SVIWSVLLGSCRKHGETRLAELAATKLKQLEPG  414 (589)
Q Consensus       365 ~--~~~A~~~~~~m~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  414 (589)
                      .  .+.+...++... .|+  ...|..+..++...|++++|+..+++++++.|+
T Consensus       137 ~~~~~~~~~~~~~~~-~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~  189 (208)
T 3urz_A          137 EQEKKKLETDYKKLS-SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPS  189 (208)
T ss_dssp             HHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCC
T ss_pred             HHHHHHHHHHHHHHh-CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC
Confidence            3  445566666652 344  334444566677788999999999999999994

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.71  E-value=2.1e-07  Score=90.21  Aligned_cols=217  Identities=10%  Similarity=-0.027  Sum_probs=151.8

Q ss_pred             HcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHH
Q 043490          193 KMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQ  272 (589)
Q Consensus       193 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  272 (589)
                      ..|++++|.+++++..+... ..      +   +...++++.|...+..+               ...|...|++++|..
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~-~~------~---~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLK-TS------F---MKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHC-CC------S---SSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHcc-cc------c---cCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            35778899999888765321 11      0   11146777777776654               456777888888888


Q ss_pred             HHhhcCC-----CC----hhHHHHHHHHHHHcCCHHHHHHHHHhC-CC-----CCC--HHHHHHHHHHHhccCcHHHHHH
Q 043490          273 VFDKMTY-----HD----LVSWNSILKAYALHGQAKEALQLFSNM-NV-----QPD--SATFVSLLSACSHAGLVQEGNK  335 (589)
Q Consensus       273 ~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-----~p~--~~t~~~ll~a~~~~g~~~~a~~  335 (589)
                      .|.+..+     .+    ..+|+.+...|...|++++|+..|++. .+     .|.  ..++..+...+.. |++++|.+
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            8877651     12    347888888899999999999888877 11     122  3567788888888 99999999


Q ss_pred             HHHHhHHhcCCcc----CcchHHHHHHHHhhcCCHHHHHHHHHhC-CC---CCC----HHHHHHHHHHHHHcCCHHHHHH
Q 043490          336 VFHSMLENHGVVP----QLDHYACMVDLLGRVGRILEAEKLIREM-PM---EPD----SVIWSVLLGSCRKHGETRLAEL  403 (589)
Q Consensus       336 ~~~~~~~~~~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~---~p~----~~~~~~ll~~~~~~g~~~~a~~  403 (589)
                      .|+...+-..-..    ...++..+...|.+.|++++|++.|++. .+   .++    ...+..+...+...|+++.|..
T Consensus       137 ~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~  216 (307)
T 2ifu_A          137 LYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQK  216 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            9988765321111    1356788899999999999999999887 11   122    2366677777888899999999


Q ss_pred             HHHHHhhcCCCChhH-----HHHHHHHhhhcCChHHHHH
Q 043490          404 AATKLKQLEPGDSLG-----FVQMSNIYCLSGSFNKARL  437 (589)
Q Consensus       404 ~~~~~~~~~p~~~~~-----~~~l~~~~~~~g~~~~a~~  437 (589)
                      .+++.. +.|....+     ...++.+| ..|+.+.+..
T Consensus       217 ~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          217 CVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            999999 88854332     34555555 5677766655

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.71  E-value=2.8e-08  Score=85.07  Aligned_cols=122  Identities=11%  Similarity=-0.050  Sum_probs=101.7

Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcC
Q 043490          320 LLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHG  396 (589)
Q Consensus       320 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g  396 (589)
                      |...+...|++++|...++...   ...| +...+..+...|.+.|++++|++.|++. .+.|+ ..+|..+...+...|
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~---~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~   79 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGST---PSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEE   79 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHS---CSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHcChHHHHHHHHHHhc---ccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            3445566789999999988764   3344 3456778899999999999999999988 55664 889999999999999


Q ss_pred             CHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHH-HHHHhc
Q 043490          397 ETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLI-RKEMKG  444 (589)
Q Consensus       397 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~-~~~m~~  444 (589)
                      ++++|+..++++++++|.++.++..++.+|.+.|++++|.+. +++..+
T Consensus        80 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~  128 (150)
T 4ga2_A           80 NTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAK  128 (150)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999887765 466654

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.70  E-value=4.2e-07  Score=82.49  Aligned_cols=174  Identities=13%  Similarity=0.056  Sum_probs=97.6

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPDWC-TFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLS  270 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  270 (589)
                      .+.|++++|+..|++....  .|+.. .+.. . ....                 .........+.+...|.+.|++++|
T Consensus        15 ~~~g~~~~A~~~~~~al~~--~p~~~~~~~~-~-~~~~-----------------~~~~~~~~~~~lg~~~~~~g~~~~A   73 (208)
T 3urz_A           15 IEAGQNGQAVSYFRQTIAL--NIDRTEMYYW-T-NVDK-----------------NSEISSKLATELALAYKKNRNYDKA   73 (208)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CHHHHHHHHH-H-HSCT-----------------TSHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHh--CCCChHHHHH-h-hhcc-----------------hhhhhHHHHHHHHHHHHHCCCHHHH
Confidence            7889999999999998874  34432 2222 0 0000                 0011122334466667777777777


Q ss_pred             HHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCc--HHHHHHHHHHhHHh
Q 043490          271 KQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGL--VQEGNKVFHSMLEN  343 (589)
Q Consensus       271 ~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~--~~~a~~~~~~~~~~  343 (589)
                      ...|++..   ..+...|..+...|...|++++|+..|++. .+.|+ ..++..+..++...|.  .+.+...+....  
T Consensus        74 ~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~--  151 (208)
T 3urz_A           74 YLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLS--  151 (208)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC-----
T ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHh--
Confidence            77776655   335566777777777777777777777777 55554 4456666655544433  233344443332  


Q ss_pred             cCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHHHHHHH
Q 043490          344 HGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPDSVIWSVLL  389 (589)
Q Consensus       344 ~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll  389 (589)
                       ...|....+..+..++...|++++|...|++. ...|+......+.
T Consensus       152 -~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~~~~~~l~  197 (208)
T 3urz_A          152 -SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPSTEAQKTLD  197 (208)
T ss_dssp             -CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCHHHHHHHH
T ss_pred             -CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCHHHHHHHH
Confidence             11222222333444555667777777777766 5667755544443

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.70  E-value=2e-07  Score=98.87  Aligned_cols=144  Identities=12%  Similarity=0.043  Sum_probs=97.8

Q ss_pred             cCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHH
Q 043490          229 LVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLF  305 (589)
Q Consensus       229 ~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~  305 (589)
                      .|++++|.+.++++.+.. +.+...+..+...|.+.|++++|.+.|++..   ..+...|..+...|...|++++|++.|
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            467788888888877664 5567788888888888888888888888765   235667888888888888888888888


Q ss_pred             HhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhc---CCHHHHHHHHHhC
Q 043490          306 SNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRV---GRILEAEKLIREM  376 (589)
Q Consensus       306 ~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~---g~~~~A~~~~~~m  376 (589)
                      ++. ...|+ ...+..+..++...|++++|.+.++...+.   .| +...+..+...|...   |+.++|.+.+++.
T Consensus        81 ~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A           81 QQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQL---LPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            888 55564 567778888888888888888888887654   33 455777788888888   8888888888776

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.67  E-value=8.2e-08  Score=82.00  Aligned_cols=97  Identities=14%  Similarity=-0.049  Sum_probs=83.2

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhh
Q 043490          350 LDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYC  427 (589)
Q Consensus       350 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  427 (589)
                      ...+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..|+++.+++|+++.+|..+..+|.
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHH
Confidence            445666777778888888888888877 4455 48889999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHhcCC
Q 043490          428 LSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       428 ~~g~~~~a~~~~~~m~~~~  446 (589)
                      +.|++++|...|++..+..
T Consensus       116 ~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          116 RLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HTTCHHHHHHHHHHHHHHC
T ss_pred             HcCCHHHHHHHHHHHHHhC
Confidence            9999999999999887643

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.66  E-value=6.7e-07  Score=85.69  Aligned_cols=157  Identities=10%  Similarity=0.014  Sum_probs=79.4

Q ss_pred             HHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC--CChhHHHH-HHHHHH
Q 043490          217 CTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY--HDLVSWNS-ILKAYA  293 (589)
Q Consensus       217 ~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~-li~~~~  293 (589)
                      ..+..+...+...|++++|...++.+++.. +.+...+..+...|.+.|++++|...|+++..  |+...... ....+.
T Consensus       118 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~~~l~  196 (287)
T 3qou_A          118 ELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQIELL  196 (287)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHHHHHH
Confidence            344445555556666666666666666554 44555566666666666666666666666552  33222111 122244


Q ss_pred             HcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHH
Q 043490          294 LHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEK  371 (589)
Q Consensus       294 ~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  371 (589)
                      ..++.++|+..|++. ...|+ ...+..+..++...|++++|...|..+++...-..+...+..++..|...|+.++|..
T Consensus       197 ~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~  276 (287)
T 3qou_A          197 XQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALAS  276 (287)
T ss_dssp             HHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHH
T ss_pred             hhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHH
Confidence            445555555555555 44443 3445555555555555555555555554431111113344455555555555555444


Q ss_pred             HHH
Q 043490          372 LIR  374 (589)
Q Consensus       372 ~~~  374 (589)
                      .++
T Consensus       277 ~~r  279 (287)
T 3qou_A          277 XYR  279 (287)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.65  E-value=5.9e-05  Score=77.89  Aligned_cols=208  Identities=10%  Similarity=0.011  Sum_probs=105.6

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhc
Q 043490          198 EEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKM  277 (589)
Q Consensus       198 ~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  277 (589)
                      +++..+|+++.... +-+...|...+.-+.+.|+.+.|..+++..++.  |.+...+..    |+...+.++.   ++. 
T Consensus       196 ~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~---~~~-  264 (493)
T 2uy1_A          196 SRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAV---YGD-  264 (493)
T ss_dssp             HHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHH---HHH-
T ss_pred             HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHH---HHH-
Confidence            44566777776642 344556666666666777888888888888777  444433322    2221111111   111 


Q ss_pred             CCCChhHHHHHHHHHHHcCCHHHHHHHHHhC--CCCC---CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcch
Q 043490          278 TYHDLVSWNSILKAYALHGQAKEALQLFSNM--NVQP---DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDH  352 (589)
Q Consensus       278 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p---~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~  352 (589)
                                +...+.          .++.-  +..+   ....|...+....+.+..+.|+++|+.. +..+  .+...
T Consensus       265 ----------l~~~~~----------~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~~--~~~~v  321 (493)
T 2uy1_A          265 ----------LKRKYS----------MGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNEG--VGPHV  321 (493)
T ss_dssp             ----------HHHHTC--------------------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTSC--CCHHH
T ss_pred             ----------HHHHHH----------hhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCCC--CChHH
Confidence                      111100          00000  0001   1133445555555556677777777665 2211  12223


Q ss_pred             HHHHHHHHhhcC-CHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhc
Q 043490          353 YACMVDLLGRVG-RILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLS  429 (589)
Q Consensus       353 ~~~li~~~~~~g-~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  429 (589)
                      |.....+-.+.+ +.+.|..+|+.. ..-| +...|...+.-....|+.+.|..+|+++.    .....|...+..-...
T Consensus       322 ~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~~----k~~~lw~~~~~fE~~~  397 (493)
T 2uy1_A          322 FIYCAFIEYYATGSRATPYNIFSSGLLKHPDSTLLKEEFFLFLLRIGDEENARALFKRLE----KTSRMWDSMIEYEFMV  397 (493)
T ss_dssp             HHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC----CBHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH----HHHHHHHHHHHHHHHC
Confidence            332222222223 577777777665 1112 24445556666666777777777777762    2445566666666666


Q ss_pred             CChHHHHHHHHHHh
Q 043490          430 GSFNKARLIRKEMK  443 (589)
Q Consensus       430 g~~~~a~~~~~~m~  443 (589)
                      |+.+.+.++++++.
T Consensus       398 G~~~~~r~v~~~~~  411 (493)
T 2uy1_A          398 GSMELFRELVDQKM  411 (493)
T ss_dssp             SCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH
Confidence            77777777776655

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.64  E-value=2.5e-07  Score=88.35  Aligned_cols=190  Identities=9%  Similarity=-0.041  Sum_probs=128.0

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHH
Q 043490          250 DTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSAC  324 (589)
Q Consensus       250 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~  324 (589)
                      +...+..+...|.+.|++++|...|++..   ..+...|..+...|.+.|++++|+..+++. ...|+ ...+..+..++
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQ   82 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            45566677777888888888888887765   336677888888888888888888888888 66664 45777788888


Q ss_pred             hccCcHHHHHHHHHHhHHhcCCccC-cchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 043490          325 SHAGLVQEGNKVFHSMLENHGVVPQ-LDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAEL  403 (589)
Q Consensus       325 ~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~  403 (589)
                      ...|++++|.+.|+...+.   .|+ ...+...+....+......... .......++......+ ..+ ..|+.++|.+
T Consensus        83 ~~~g~~~~A~~~~~~al~l---~p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~l-~~l-~~~~~~~A~~  156 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAYSL---AKEQRLNFGDDIPSALRIAKKKRWNS-IEERRIHQESELHSYL-TRL-IAAERERELE  156 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---HHHTTCCCCSHHHHHHHHHHHHHHHH-HHHTCCCCCCHHHHHH-HHH-HHHHHHHHHT
T ss_pred             HHcCCHHHHHHHHHHHHHh---CccchhhHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHH-HHH-HHHHHHHHHH
Confidence            8888999998888877543   232 1122222222222222222222 1222223344443333 223 2688899999


Q ss_pred             HHHHHhhcCCCChhHHHHHHHHhhhc-CChHHHHHHHHHHhcC
Q 043490          404 AATKLKQLEPGDSLGFVQMSNIYCLS-GSFNKARLIRKEMKGS  445 (589)
Q Consensus       404 ~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~~  445 (589)
                      .++++.+.+|++......+...+.+. +.+++|.++|.+..+.
T Consensus       157 ~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          157 ECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             TTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            99999999998877777777777776 7789999999988753

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.64  E-value=8.5e-07  Score=81.56  Aligned_cols=183  Identities=13%  Similarity=0.010  Sum_probs=131.1

Q ss_pred             CHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCC-C-cHHHHHHHHHHHHhcCCHHHHHHHHhhcC--CCC-h---hHHH
Q 043490          215 DWCTFSIVLKACAGLVTERHASAVHSLIAKYGFE-D-DTVIANALIHAYARCGSISLSKQVFDKMT--YHD-L---VSWN  286 (589)
Q Consensus       215 ~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~-~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~-~---~~~~  286 (589)
                      +...+..+...+...|++++|...++.+++..-. + ....+..+...|.+.|++++|...|++..  .|+ .   .++.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            3445556667788999999999999999986421 1 24577888999999999999999999986  232 2   2455


Q ss_pred             HHHHHHHH------------------cCCHHHHHHHHHhC-CCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhcCC
Q 043490          287 SILKAYAL------------------HGQAKEALQLFSNM-NVQPDSA-TFVSLLSACSHAGLVQEGNKVFHSMLENHGV  346 (589)
Q Consensus       287 ~li~~~~~------------------~g~~~~A~~~~~~m-~~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  346 (589)
                      .+..++..                  .|+.++|+..|+++ ...|+.. ........          ..+...+.     
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~~a~~a~~~l----------~~~~~~~~-----  147 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQYTTDATKRL----------VFLKDRLA-----  147 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTTCTTHHHHHHHH----------HHHHHHHH-----
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcCChhHHHHHHHH----------HHHHHHHH-----
Confidence            55555554                  57899999999999 7778754 22211110          01111110     


Q ss_pred             ccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCh
Q 043490          347 VPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD----SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDS  416 (589)
Q Consensus       347 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  416 (589)
                          .....+...|.+.|++++|...|+++ ...|+    ...+..+..++.+.|+.++|...++.+....|++.
T Consensus       148 ----~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~  218 (225)
T 2yhc_A          148 ----KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTL  218 (225)
T ss_dssp             ----HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCC
T ss_pred             ----HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCch
Confidence                01234567888999999999999987 33343    35788899999999999999999999998888654

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.63  E-value=3.3e-07  Score=75.68  Aligned_cols=113  Identities=11%  Similarity=0.023  Sum_probs=76.0

Q ss_pred             CCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHH
Q 043490          310 VQPDS-ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIW  385 (589)
Q Consensus       310 ~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~  385 (589)
                      +.|+. ..+......+.+.|++++|.+.|+..++.   .| +...|..+..+|.+.|++++|++.|++. .+.|+ ...|
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~   84 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKR---DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGY   84 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHH
Confidence            44443 35566666777777777777777766543   33 4556666777777777777777777666 33443 6677


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHH
Q 043490          386 SVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNI  425 (589)
Q Consensus       386 ~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  425 (589)
                      ..+..++...|++++|+..|+++++++|.+..++..|.++
T Consensus        85 ~~lg~~~~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~  124 (126)
T 4gco_A           85 IRKAACLVAMREWSKAQRAYEDALQVDPSNEEAREGVRNC  124 (126)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHh
Confidence            7777777777777777777777777777777666665543

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.62  E-value=1.2e-06  Score=79.63  Aligned_cols=160  Identities=9%  Similarity=-0.063  Sum_probs=108.7

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccC----cHHHHHHHHHHhHHhcCCccCcchHHH
Q 043490          281 DLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDSATFVSLLSACSHAG----LVQEGNKVFHSMLENHGVVPQLDHYAC  355 (589)
Q Consensus       281 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~~g----~~~~a~~~~~~~~~~~~~~p~~~~~~~  355 (589)
                      ++.++..+...|...+++++|++.|++. .. -+...+..|...+.. +    +.++|.++|+...+.    -+...+..
T Consensus        17 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~-g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~----g~~~a~~~   90 (212)
T 3rjv_A           17 DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQ-GDGDALALLAQLKIR-NPQQADYPQARQLAEKAVEA----GSKSGEIV   90 (212)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT-TCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHT----TCHHHHHH
T ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHC----CCHHHHHH
Confidence            4444444555555555555555555555 11 134455555555555 4    677777777766432    24456666


Q ss_pred             HHHHHhh----cCCHHHHHHHHHhC-CCCCC---HHHHHHHHHHHHH----cCCHHHHHHHHHHHhhcCCCChhHHHHHH
Q 043490          356 MVDLLGR----VGRILEAEKLIREM-PMEPD---SVIWSVLLGSCRK----HGETRLAELAATKLKQLEPGDSLGFVQMS  423 (589)
Q Consensus       356 li~~~~~----~g~~~~A~~~~~~m-~~~p~---~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  423 (589)
                      |..+|..    .+++++|++.|++. ...|+   ...+..|...|..    .++.++|...+++..+. |.++.++..|.
T Consensus        91 Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~a~~~Lg  169 (212)
T 3rjv_A           91 LARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL-SRTGYAEYWAG  169 (212)
T ss_dssp             HHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT-SCTTHHHHHHH
T ss_pred             HHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc-CCCHHHHHHHH
Confidence            6677766    77888888888877 43443   7788888888888    78899999999999887 55677888898


Q ss_pred             HHhhhc-C-----ChHHHHHHHHHHhcCCC
Q 043490          424 NIYCLS-G-----SFNKARLIRKEMKGSRV  447 (589)
Q Consensus       424 ~~~~~~-g-----~~~~a~~~~~~m~~~~~  447 (589)
                      .+|... |     ++++|...+++..+.|.
T Consensus       170 ~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          170 MMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            888764 3     89999999998877664

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.62  E-value=3.2e-06  Score=80.96  Aligned_cols=208  Identities=13%  Similarity=0.145  Sum_probs=108.6

Q ss_pred             HHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcC--CHHHHHHHHhhcC---CCChhHHHHHHHHH----HHc---CCHHHH
Q 043490          234 HASAVHSLIAKYGFEDDTVIANALIHAYARCG--SISLSKQVFDKMT---YHDLVSWNSILKAY----ALH---GQAKEA  301 (589)
Q Consensus       234 ~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~~~---~~~~~~~~~li~~~----~~~---g~~~~A  301 (589)
                      +|.+..+.++... +.+..+|+.--..+...|  +++++++.++.+.   ..+..+|+.--..+    ...   ++++++
T Consensus        51 ~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~~~E  129 (306)
T 3dra_A           51 RALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDPYRE  129 (306)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCTHHH
T ss_pred             HHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCHHHH
Confidence            4444444444443 334444444444444444  5555555555544   22334444433333    333   455556


Q ss_pred             HHHHHhC-CCCC-CHHHHHHHHHHHhccCcHH--HHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCC------HHHHHH
Q 043490          302 LQLFSNM-NVQP-DSATFVSLLSACSHAGLVQ--EGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGR------ILEAEK  371 (589)
Q Consensus       302 ~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~--~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~------~~~A~~  371 (589)
                      +++++++ ...| |..+|..-...+.+.|.++  ++.+.++.+.+..  .-|-..|+.-...+.+.|+      ++++++
T Consensus       130 L~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d--~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~  207 (306)
T 3dra_A          130 FDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD--LKNNSAWSHRFFLLFSKKHLATDNTIDEELN  207 (306)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHSSGGGCCHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhccccchhhhHHHHHH
Confidence            6655555 3334 3445554444444455554  5555555555431  1133344433344444444      566666


Q ss_pred             HHHhC-CCCC-CHHHHHHHHHHHHHcCCHH-HHHHHHHHHhhcC---CCChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          372 LIREM-PMEP-DSVIWSVLLGSCRKHGETR-LAELAATKLKQLE---PGDSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       372 ~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~-~a~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      .++++ ...| |...|+.+-..+.+.|+.. ....+.+++.+++   |.++.++..++.+|.+.|+.++|.++++.+.+
T Consensus       208 ~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          208 YVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             HHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            66555 2233 4666766666666666533 3444555555544   56666777777777777777777777777654

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.61  E-value=6.7e-07  Score=81.21  Aligned_cols=125  Identities=10%  Similarity=-0.041  Sum_probs=93.1

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHc
Q 043490          318 VSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKH  395 (589)
Q Consensus       318 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~  395 (589)
                      ..+...+...|++++|.+.|+..     +.|+...+..+...|.+.|++++|.+.+++. ...| +...|..+..++...
T Consensus        10 ~~~g~~~~~~~~~~~A~~~~~~a-----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~~~   84 (213)
T 1hh8_A           10 WNEGVLAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQT   84 (213)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHH-----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHc
Confidence            34444555666666666666543     2445556666666666777777777766665 2234 477888888899999


Q ss_pred             CCHHHHHHHHHHHhhcCCCCh----------------hHHHHHHHHhhhcCChHHHHHHHHHHhcCCC
Q 043490          396 GETRLAELAATKLKQLEPGDS----------------LGFVQMSNIYCLSGSFNKARLIRKEMKGSRV  447 (589)
Q Consensus       396 g~~~~a~~~~~~~~~~~p~~~----------------~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  447 (589)
                      |++++|...++++.+..|.+.                .++..++.+|.+.|++++|...+++..+...
T Consensus        85 ~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  152 (213)
T 1hh8_A           85 EKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  152 (213)
T ss_dssp             TCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             ccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCc
Confidence            999999999999999887766                8899999999999999999999999887543

>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=98.61  E-value=1.2e-07  Score=80.93  Aligned_cols=97  Identities=11%  Similarity=0.015  Sum_probs=83.4

Q ss_pred             CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHh
Q 043490          349 QLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIY  426 (589)
Q Consensus       349 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  426 (589)
                      +...+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..++++++++|+++.++..++.+|
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~   99 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECL   99 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            3445666777888888888888888877 3345 5888889999999999999999999999999999999999999999


Q ss_pred             hhcCChHHHHHHHHHHhcC
Q 043490          427 CLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       427 ~~~g~~~~a~~~~~~m~~~  445 (589)
                      ...|++++|...|++..+.
T Consensus       100 ~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            9999999999999988754

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.60  E-value=4.8e-06  Score=79.95  Aligned_cols=156  Identities=6%  Similarity=-0.103  Sum_probs=112.3

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCC---CCHH----HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCc----chHHH
Q 043490          288 ILKAYALHGQAKEALQLFSNM-NVQ---PDSA----TFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQL----DHYAC  355 (589)
Q Consensus       288 li~~~~~~g~~~~A~~~~~~m-~~~---p~~~----t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~----~~~~~  355 (589)
                      .+..+...|++++|.+++++. ...   |+..    .+..+...+...|++++|.+.|+...+...-.++.    .+++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            356677788888888888887 322   2221    23345566667778888888888876532212222    25788


Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-----C--CC-CC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC------ChhHHH
Q 043490          356 MVDLLGRVGRILEAEKLIREM-----P--ME-PD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPG------DSLGFV  420 (589)
Q Consensus       356 li~~~~~~g~~~~A~~~~~~m-----~--~~-p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~------~~~~~~  420 (589)
                      +...|...|++++|+..|+++     .  .. |. ..++..+...|.+.|++++|...+++++++.+.      -..+|.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            888888889988888888776     1  11 22 447888999999999999999999998875432      256789


Q ss_pred             HHHHHhhhcCC-hHHHHHHHHHHh
Q 043490          421 QMSNIYCLSGS-FNKARLIRKEMK  443 (589)
Q Consensus       421 ~l~~~~~~~g~-~~~a~~~~~~m~  443 (589)
                      .++.+|.+.|+ +++|.+.+++..
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHH
Confidence            99999999995 699999888764

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.60  E-value=1.7e-05  Score=75.91  Aligned_cols=227  Identities=11%  Similarity=0.027  Sum_probs=177.1

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhCcC--cHHHHHHHHHHHHHhCCCCcHHHHHHHHHHH----Hhc
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPDW-CTFSIVLKACAGLV--TERHASAVHSLIAKYGFEDDTVIANALIHAY----ARC  264 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~~--~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~----~~~  264 (589)
                      .+....++|++++.+++..  .|+. ..|+.--..+...+  +++++.+.++.++... +.+..+|+.-...+    .+.
T Consensus        44 ~~~e~s~~aL~~t~~~L~~--nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l  120 (306)
T 3dra_A           44 KAEEYSERALHITELGINE--LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELN  120 (306)
T ss_dssp             HTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHT
T ss_pred             HcCCCCHHHHHHHHHHHHH--CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhc
Confidence            4445567999999999885  4554 45666666677777  9999999999999886 66667777555555    555


Q ss_pred             ---CCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHH--HHHHHHHhC-CCCC-CHHHHHHHHHHHhccCc-----
Q 043490          265 ---GSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAK--EALQLFSNM-NVQP-DSATFVSLLSACSHAGL-----  329 (589)
Q Consensus       265 ---g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~--~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~-----  329 (589)
                         +++++++.+++++.   .+|..+|+.-.-.+.+.|.++  ++++.++++ ...| |...|+.-.....+.+.     
T Consensus       121 ~~~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~N~sAW~~R~~ll~~l~~~~~~~  200 (306)
T 3dra_A          121 NNDFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLKNNSAWSHRFFLLFSKKHLATDN  200 (306)
T ss_dssp             TTCCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHSSGGGCCHH
T ss_pred             cccCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccccchhh
Confidence               78999999999987   567789998888888889888  999999999 6666 56677777666777776     


Q ss_pred             -HHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHH-HHHHHHhC-CC----CCCHHHHHHHHHHHHHcCCHHHH
Q 043490          330 -VQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILE-AEKLIREM-PM----EPDSVIWSVLLGSCRKHGETRLA  401 (589)
Q Consensus       330 -~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~-A~~~~~~m-~~----~p~~~~~~~ll~~~~~~g~~~~a  401 (589)
                       ++++.+.+..++..   .| |...|+.+-..+.+.|+..+ +.++..+. ..    ..+...+..+...+.+.|+.++|
T Consensus       201 ~~~eEl~~~~~aI~~---~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A  277 (306)
T 3dra_A          201 TIDEELNYVKDKIVK---CPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNES  277 (306)
T ss_dssp             HHHHHHHHHHHHHHH---CSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHH
T ss_pred             hHHHHHHHHHHHHHh---CCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHH
Confidence             89999999888754   44 67788888888888888544 55677766 22    23688999999999999999999


Q ss_pred             HHHHHHHhh-cCCCChhHHHHHHH
Q 043490          402 ELAATKLKQ-LEPGDSLGFVQMSN  424 (589)
Q Consensus       402 ~~~~~~~~~-~~p~~~~~~~~l~~  424 (589)
                      .++++.+.+ .+|.....|...++
T Consensus       278 ~~~~~~l~~~~Dpir~~yW~~~~~  301 (306)
T 3dra_A          278 RTVYDLLKSKYNPIRSNFWDYQIS  301 (306)
T ss_dssp             HHHHHHHHHTTCGGGHHHHHHHHH
T ss_pred             HHHHHHHHhccChHHHHHHHHHHh
Confidence            999999986 79977666665443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.56  E-value=2.9e-07  Score=76.01  Aligned_cols=100  Identities=13%  Similarity=0.091  Sum_probs=89.3

Q ss_pred             CccC-cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHH
Q 043490          346 VVPQ-LDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQM  422 (589)
Q Consensus       346 ~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  422 (589)
                      +.|+ ...+......|.+.|++++|++.|++. ...| +...|..+..++...|++++|+..++++++++|.++.+|..+
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l   87 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRK   87 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHH
Confidence            3453 346777888999999999999999987 4455 588999999999999999999999999999999999999999


Q ss_pred             HHHhhhcCChHHHHHHHHHHhcC
Q 043490          423 SNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       423 ~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      +.+|...|++++|.+.|++..+.
T Consensus        88 g~~~~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           88 AACLVAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHH
Confidence            99999999999999999998764

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.55  E-value=5.9e-07  Score=79.03  Aligned_cols=152  Identities=12%  Similarity=0.071  Sum_probs=100.2

Q ss_pred             HHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC--CChhHHHHHHHH-HHHcC
Q 043490          220 SIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY--HDLVSWNSILKA-YALHG  296 (589)
Q Consensus       220 ~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~-~~~~g  296 (589)
                      ......+...|+++.|...++.+++.. |.+...+..+...|.+.|++++|...|++...  |+...+..+... +...+
T Consensus        10 ~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~   88 (176)
T 2r5s_A           10 LKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEYQDNSYKSLIAKLELHQQA   88 (176)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccCChHHHHHHHHHHHHhhc
Confidence            344455677888888888888877654 56778888899999999999999999999873  333333222111 12222


Q ss_pred             CHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccC---cchHHHHHHHHhhcCCHHHHHH
Q 043490          297 QAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ---LDHYACMVDLLGRVGRILEAEK  371 (589)
Q Consensus       297 ~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~li~~~~~~g~~~~A~~  371 (589)
                      ...+|+..|++. ...|+ ...+..+..++...|++++|...|+.+.+.   .|+   ...+..+...|...|+.++|..
T Consensus        89 ~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~a~~~l~~~~~~~g~~~~A~~  165 (176)
T 2r5s_A           89 AESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKV---NLGAQDGEVKKTFMDILSALGQGNAIAS  165 (176)
T ss_dssp             TSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT---CTTTTTTHHHHHHHHHHHHHCSSCHHHH
T ss_pred             ccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHh---CcccChHHHHHHHHHHHHHhCCCCcHHH
Confidence            333466777776 55564 556667777777777777777777776533   343   3356666666666777666666


Q ss_pred             HHHh
Q 043490          372 LIRE  375 (589)
Q Consensus       372 ~~~~  375 (589)
                      .|++
T Consensus       166 ~y~~  169 (176)
T 2r5s_A          166 KYRR  169 (176)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6653

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.53  E-value=2.6e-06  Score=77.23  Aligned_cols=143  Identities=10%  Similarity=-0.061  Sum_probs=97.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHH
Q 043490          254 ANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQ  331 (589)
Q Consensus       254 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~  331 (589)
                      +..+...|...|++++|...|++...++...|..+...|...|++++|++.|++. ...| +...+..+..++...|+++
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~   88 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYD   88 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcccHH
Confidence            4455666777788888888887777777777777777777777777777777777 4444 3456666777777777777


Q ss_pred             HHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 043490          332 EGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQ  410 (589)
Q Consensus       332 ~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  410 (589)
                      +|.+.|+...+.   .|+.....     +...|           +...|+ ...|..+..++...|++++|...++++.+
T Consensus        89 ~A~~~~~~al~~---~~~~~~~~-----~~~~~-----------~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  149 (213)
T 1hh8_A           89 LAIKDLKEALIQ---LRGNQLID-----YKILG-----------LQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  149 (213)
T ss_dssp             HHHHHHHHHHHT---TTTCSEEE-----CGGGT-----------BCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh---CCCccHHH-----HHHhc-----------cccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            777777766543   22111000     00000           012343 57788888999999999999999999999


Q ss_pred             cCCCC
Q 043490          411 LEPGD  415 (589)
Q Consensus       411 ~~p~~  415 (589)
                      ..|.+
T Consensus       150 ~~p~~  154 (213)
T 1hh8_A          150 MKSEP  154 (213)
T ss_dssp             TCCSG
T ss_pred             cCccc
Confidence            99865

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.52  E-value=3.1e-06  Score=81.29  Aligned_cols=159  Identities=6%  Similarity=-0.088  Sum_probs=103.3

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CH------HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccC----cch
Q 043490          285 WNSILKAYALHGQAKEALQLFSNM-NVQP-DS------ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ----LDH  352 (589)
Q Consensus       285 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~  352 (589)
                      +...+..+...|++++|++.+++. ...| +.      ..+..+...+...|++++|.+.++...+...-..+    ..+
T Consensus        78 l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 2qfc_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHH
Confidence            334455566666666666666655 2222 11      12233444556667777777777766532111111    236


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-------CCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC------Chh
Q 043490          353 YACMVDLLGRVGRILEAEKLIREM-------PMEPD--SVIWSVLLGSCRKHGETRLAELAATKLKQLEPG------DSL  417 (589)
Q Consensus       353 ~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~------~~~  417 (589)
                      |+.+...|...|++++|...|++.       +..+.  ..++..+...|...|++++|...+++++++.+.      -..
T Consensus       158 ~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~  237 (293)
T 2qfc_A          158 ENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQ  237 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHH
Confidence            667777777788887777777665       21111  257888888999999999999999998765421      156


Q ss_pred             HHHHHHHHhhhcCChHHH-HHHHHHHh
Q 043490          418 GFVQMSNIYCLSGSFNKA-RLIRKEMK  443 (589)
Q Consensus       418 ~~~~l~~~~~~~g~~~~a-~~~~~~m~  443 (589)
                      +|..++.+|.+.|++++| ...+++..
T Consensus       238 ~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          238 LYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            788999999999999999 77677654

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.51  E-value=5.9e-06  Score=75.07  Aligned_cols=135  Identities=12%  Similarity=0.016  Sum_probs=71.6

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcC----CHHHHHHHH
Q 043490          199 EALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCG----SISLSKQVF  274 (589)
Q Consensus       199 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g----~~~~A~~~~  274 (589)
                      +|++.|++..+.|   +...+..+-..+...++.++|...+....+.|   +...+..|..+|.. +    ++++|.+.|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            3455555555543   44555555555555666666666666666654   44555556666655 4    566666666


Q ss_pred             hhcC-CCChhHHHHHHHHHHH----cCCHHHHHHHHHhC-CCCCC---HHHHHHHHHHHhc----cCcHHHHHHHHHHh
Q 043490          275 DKMT-YHDLVSWNSILKAYAL----HGQAKEALQLFSNM-NVQPD---SATFVSLLSACSH----AGLVQEGNKVFHSM  340 (589)
Q Consensus       275 ~~~~-~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m-~~~p~---~~t~~~ll~a~~~----~g~~~~a~~~~~~~  340 (589)
                      ++.. ..+..++..|...|..    .++.++|++.|++. ...|.   ..++..|...|..    .++.++|.++|+..
T Consensus        77 ~~A~~~g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A  155 (212)
T 3rjv_A           77 EKAVEAGSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGS  155 (212)
T ss_dssp             HHHHHTTCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHH
Confidence            6554 2344455555555544    45555555555555 33332   3444444444444    44455555555444

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.50  E-value=1.3e-06  Score=75.48  Aligned_cols=126  Identities=12%  Similarity=-0.027  Sum_probs=96.9

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHH
Q 043490          316 TFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCR  393 (589)
Q Consensus       316 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~  393 (589)
                      .+..+...+...|++++|...|+...+..  +.+...+..+...|...|++++|.+.+++. ...| +...|..+...+.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            45556666777778888888777765431  224566777777888888888888888776 3334 4778888999999


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCChhHHHHH--HHHhhhcCChHHHHHHHHHHh
Q 043490          394 KHGETRLAELAATKLKQLEPGDSLGFVQM--SNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       394 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l--~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      ..|++++|...++++.+..|.+...+..+  +..+.+.|++++|.+.+....
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            99999999999999999999888877544  444888899999999988764

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.49  E-value=6.8e-07  Score=83.69  Aligned_cols=135  Identities=13%  Similarity=-0.035  Sum_probs=98.0

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccC--cchHHHHHHHHh
Q 043490          285 WNSILKAYALHGQAKEALQLFSNM-NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ--LDHYACMVDLLG  361 (589)
Q Consensus       285 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~li~~~~  361 (589)
                      +-.....+...|++++|.++|+.+ ...|+......+...+.+.+++++|+..|+...+. . .|.  ...+..+..++.
T Consensus       105 ~LayA~~L~~~g~y~eA~~~l~~~~~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~-~-d~~~~~~a~~~LG~al~  182 (282)
T 4f3v_A          105 TMGFAACEAAQGNYADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW-P-DKFLAGAAGVAHGVAAA  182 (282)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTSSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC-S-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc-C-CcccHHHHHHHHHHHHH
Confidence            344567778888899999998888 55676555555556778888999998888754211 1 111  235677788888


Q ss_pred             hcCCHHHHHHHHHhC---CCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHH
Q 043490          362 RVGRILEAEKLIREM---PMEPD--SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQM  422 (589)
Q Consensus       362 ~~g~~~~A~~~~~~m---~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  422 (589)
                      +.|++++|++.|++.   +..|.  ...+.....++.+.|+.++|...|+++...+|. ...+..|
T Consensus       183 ~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL  247 (282)
T 4f3v_A          183 NLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAAL  247 (282)
T ss_dssp             HTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHH
T ss_pred             HCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHH
Confidence            899999999999887   22253  346677788889999999999999999999996 5554444

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.48  E-value=2.9e-06  Score=68.98  Aligned_cols=114  Identities=18%  Similarity=0.195  Sum_probs=84.4

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 043490          315 ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSC  392 (589)
Q Consensus       315 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~  392 (589)
                      .++..+...+...|++++|.+.++.+.+..  +.+...+..+...|.+.|++++|...++++ ...| +..+|..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHH
Confidence            456666677777777777777777775432  224556677777777888888888877776 2233 577888888888


Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcC
Q 043490          393 RKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSG  430 (589)
Q Consensus       393 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  430 (589)
                      ...|++++|...++++.+..|.++..+..+..++...|
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            99999999999999999988888888888877776544

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.47  E-value=1.1e-06  Score=74.26  Aligned_cols=95  Identities=9%  Similarity=-0.017  Sum_probs=78.9

Q ss_pred             chHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhh
Q 043490          351 DHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCL  428 (589)
Q Consensus       351 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  428 (589)
                      ..+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|...++++++++|.++..+..++.+|..
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~   98 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHLQ   98 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Confidence            34555666677778888888877776 3345 578888889999999999999999999999999999999999999999


Q ss_pred             cCChHHHHHHHHHHhcC
Q 043490          429 SGSFNKARLIRKEMKGS  445 (589)
Q Consensus       429 ~g~~~~a~~~~~~m~~~  445 (589)
                      .|++++|.+.+++..+.
T Consensus        99 ~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           99 LGDLDGAESGFYSARAL  115 (142)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            99999999999987654

>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=98.46  E-value=8.1e-07  Score=87.23  Aligned_cols=93  Identities=11%  Similarity=-0.056  Sum_probs=80.8

Q ss_pred             chHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhh
Q 043490          351 DHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCL  428 (589)
Q Consensus       351 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  428 (589)
                      ..|..+..+|.+.|++++|+..+++. .+.| +...|..+..++...|++++|+..|+++++++|.+..++..+..++.+
T Consensus       197 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~  276 (336)
T 1p5q_A          197 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQR  276 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Confidence            57778888888889999998888887 4445 488899999999999999999999999999999999999999999999


Q ss_pred             cCChHHH-HHHHHHHh
Q 043490          429 SGSFNKA-RLIRKEMK  443 (589)
Q Consensus       429 ~g~~~~a-~~~~~~m~  443 (589)
                      .|++++| ...++.|.
T Consensus       277 ~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          277 IRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999998 44666554

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.46  E-value=9.6e-06  Score=83.78  Aligned_cols=204  Identities=11%  Similarity=-0.061  Sum_probs=127.9

Q ss_pred             cHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcC--C-----HHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHH
Q 043490          231 TERHASAVHSLIAKYGFEDDTVIANALIHAYARCG--S-----ISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKE  300 (589)
Q Consensus       231 ~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g--~-----~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~  300 (589)
                      .+..|+.++..+...--..+...|...++.--..+  -     .+.+..+|+++.   ..+...|-..+.-+.+.|+.++
T Consensus       152 ~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~p~~~~lW~~ya~~~~~~~~~~~  231 (493)
T 2uy1_A          152 IFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSFYYAEEVYFFYSEYLIGIGQKEK  231 (493)
T ss_dssp             HHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHH
Confidence            34445555555443210113345655555432221  1     344667788766   3456788888888899999999


Q ss_pred             HHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcC--------C---ccCcchHHHHHHHHhhcCCHHH
Q 043490          301 ALQLFSNM-NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHG--------V---VPQLDHYACMVDLLGRVGRILE  368 (589)
Q Consensus       301 A~~~~~~m-~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~--------~---~p~~~~~~~li~~~~~~g~~~~  368 (589)
                      |..+|++. +. |....+......+...+.      +++.+.+.+-        .   .....+|...+..+.+.+.++.
T Consensus       232 ar~i~erAi~~-P~~~~l~~~y~~~~e~~~------~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~  304 (493)
T 2uy1_A          232 AKKVVERGIEM-SDGMFLSLYYGLVMDEEA------VYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLEL  304 (493)
T ss_dssp             HHHHHHHHHHH-CCSSHHHHHHHHHTTCTH------HHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHH
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHhhcchhH------HHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHH
Confidence            99999999 66 776543322211112121      1233322210        0   0112456666777778889999


Q ss_pred             HHHHHHhCCCCC--CHHHHHHHHHHHHH-cCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHH
Q 043490          369 AEKLIREMPMEP--DSVIWSVLLGSCRK-HGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEM  442 (589)
Q Consensus       369 A~~~~~~m~~~p--~~~~~~~ll~~~~~-~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  442 (589)
                      |..+|++.. .|  +...|......-.. .++.+.|..+|+.+.+..|+++..+...++...+.|+.+.|+.+|++.
T Consensus       305 AR~i~~~A~-~~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          305 FRKLFIELG-NEGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDSTLLKEEFFLFLLRIGDEENARALFKRL  380 (493)
T ss_dssp             HHHHHHHHT-TSCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHS
T ss_pred             HHHHHHHhh-CCCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999999882 23  34455432222222 346999999999999988887777777888888999999999999997

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.44  E-value=1.7e-06  Score=71.06  Aligned_cols=117  Identities=8%  Similarity=-0.034  Sum_probs=89.8

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHH
Q 043490          314 SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGS  391 (589)
Q Consensus       314 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~  391 (589)
                      ...+..+...+...|++++|.+.++...+..  +.+...+..+...|...|++++|.+.+++. ...| +...|..+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELN--PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHH
Confidence            3456666667777777888887777765432  224556777777778888888888887776 3334 47788888889


Q ss_pred             HHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCCh
Q 043490          392 CRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSF  432 (589)
Q Consensus       392 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  432 (589)
                      +...|++++|...++++.+..|.+...+..+..++.+.|++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            99999999999999999999998888888999988888775

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.44  E-value=4.9e-06  Score=79.86  Aligned_cols=160  Identities=9%  Similarity=-0.078  Sum_probs=118.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-Ch------hHHHHHHHHHHHcCCHHHHHHHHHhC-CCC-----CC--H
Q 043490          252 VIANALIHAYARCGSISLSKQVFDKMTY--H-DL------VSWNSILKAYALHGQAKEALQLFSNM-NVQ-----PD--S  314 (589)
Q Consensus       252 ~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~------~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-----p~--~  314 (589)
                      ..+...+..+...|++++|.+.++...+  + ..      ..+..+...+...|++++|+..|++. ...     +.  .
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            3455667788899999999998876541  1 11      22344556677889999999999887 221     22  3


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccC-----cchHHHHHHHHhhcCCHHHHHHHHHhC-------CCCCC-
Q 043490          315 ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ-----LDHYACMVDLLGRVGRILEAEKLIREM-------PMEPD-  381 (589)
Q Consensus       315 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~-  381 (589)
                      .+++.+...|...|++++|..+|+...+.....|+     ..++..+...|.+.|++++|++.+++.       +.... 
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            47888899999999999999999988632222232     257888899999999999999999876       11111 


Q ss_pred             HHHHHHHHHHHHHcCCHHHH-HHHHHHHhhc
Q 043490          382 SVIWSVLLGSCRKHGETRLA-ELAATKLKQL  411 (589)
Q Consensus       382 ~~~~~~ll~~~~~~g~~~~a-~~~~~~~~~~  411 (589)
                      ..+|..+...|...|++++| ...++++..+
T Consensus       236 ~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          236 GQLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            67888899999999999999 7778887653

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.43  E-value=7.6e-07  Score=86.26  Aligned_cols=193  Identities=9%  Similarity=-0.028  Sum_probs=147.6

Q ss_pred             CcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHh-cCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHH
Q 043490          228 GLVTERHASAVHSLIAKYGFEDDTVIANALIHAYAR-CGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFS  306 (589)
Q Consensus       228 ~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  306 (589)
                      ..|++++|.+++++..+.. +..          +.+ .++++.|...|.+.           ...|...|++++|.+.|.
T Consensus         3 ~~~~~~eA~~~~~~a~k~~-~~~----------~~~~~~~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~   60 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYL-KTS----------FMKWKPDYDSAASEYAKA-----------AVAFKNAKQLEQAKDAYL   60 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHH-CCC----------SSSCSCCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHc-ccc----------ccCCCCCHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHH
Confidence            4578889999998887653 111          122 58899998888764           567889999999999999


Q ss_pred             hC-CC-----CC-C-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCC--cc--CcchHHHHHHHHhhcCCHHHHHHHHH
Q 043490          307 NM-NV-----QP-D-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGV--VP--QLDHYACMVDLLGRVGRILEAEKLIR  374 (589)
Q Consensus       307 ~m-~~-----~p-~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~--~p--~~~~~~~li~~~~~~g~~~~A~~~~~  374 (589)
                      +. .+     .| . ..+|..+...|...|++++|...|+...+-+.-  .|  ...++..+...|.+ |++++|++.|+
T Consensus        61 ~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~  139 (307)
T 2ifu_A           61 QEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQ  139 (307)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHH
Confidence            88 21     11 1 347888889999999999999999887543211  11  13567888889988 99999999998


Q ss_pred             hC-CCCC---C----HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC------hhHHHHHHHHhhhcCChHHHHHHHH
Q 043490          375 EM-PMEP---D----SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGD------SLGFVQMSNIYCLSGSFNKARLIRK  440 (589)
Q Consensus       375 ~m-~~~p---~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~~~~~  440 (589)
                      +. .+.|   +    ..++..+...+...|++++|+..+++++++.|.+      ...+..++.++...|++++|...++
T Consensus       140 ~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~  219 (307)
T 2ifu_A          140 QAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVR  219 (307)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            77 1111   1    4678889999999999999999999999876533      2356778888999999999999999


Q ss_pred             HHh
Q 043490          441 EMK  443 (589)
Q Consensus       441 ~m~  443 (589)
                      +..
T Consensus       220 ~al  222 (307)
T 2ifu_A          220 ESY  222 (307)
T ss_dssp             HHT
T ss_pred             HHh
Confidence            887

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.42  E-value=1.7e-06  Score=71.53  Aligned_cols=114  Identities=11%  Similarity=0.001  Sum_probs=76.9

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHH
Q 043490          315 ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGS  391 (589)
Q Consensus       315 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~  391 (589)
                      ..+..+...+...|++++|.+.|+...+.   .| +...+..+...|...|++++|.+.+++. ...| +...|..+...
T Consensus        17 ~~~~~~~~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~   93 (133)
T 2lni_A           17 LMVKNKGNECFQKGDYPQAMKHYTEAIKR---NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHTTCSHHHHHHHHHHHTT---CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            45555555566666666666666655422   23 3445556666666666666666666655 2233 46777888888


Q ss_pred             HHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCC
Q 043490          392 CRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGS  431 (589)
Q Consensus       392 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  431 (589)
                      +...|++++|...++++.+..|.+...+..+..++.+.|+
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            8888888888888888888888887888888888776653

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.40  E-value=3.7e-06  Score=66.88  Aligned_cols=99  Identities=12%  Similarity=0.050  Sum_probs=85.6

Q ss_pred             CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC--ChhHHHHHHH
Q 043490          349 QLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPG--DSLGFVQMSN  424 (589)
Q Consensus       349 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~  424 (589)
                      +...+..+...+.+.|++++|...+++. ...| +...|..+...+...|++++|...++++.+..|.  +...+..++.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            4556777888888899999999988877 3334 5788889999999999999999999999999998  8999999999


Q ss_pred             Hhhhc-CChHHHHHHHHHHhcCCC
Q 043490          425 IYCLS-GSFNKARLIRKEMKGSRV  447 (589)
Q Consensus       425 ~~~~~-g~~~~a~~~~~~m~~~~~  447 (589)
                      +|.+. |++++|.+.+++..+...
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHHhCCHHHHHHHHHHHhhccc
Confidence            99999 999999999999887554

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.40  E-value=2.9e-07  Score=82.78  Aligned_cols=96  Identities=10%  Similarity=-0.106  Sum_probs=71.9

Q ss_pred             chHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhh
Q 043490          351 DHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCL  428 (589)
Q Consensus       351 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  428 (589)
                      ..+..+..+|.+.|++++|+..+++. ...| +...|..+..++...|+++.|...++++++++|.+..++..+..++..
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  168 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNK  168 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHH
Confidence            46667777888888888888888877 3344 478888999999999999999999999999999999999999999988


Q ss_pred             cCChHHHH-HHHHHHhcCC
Q 043490          429 SGSFNKAR-LIRKEMKGSR  446 (589)
Q Consensus       429 ~g~~~~a~-~~~~~m~~~~  446 (589)
                      .|+.+++. ..+..|...+
T Consensus       169 ~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          169 LKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             HHHHHC-------------
T ss_pred             HHHHHHHHHHHHHHHhccc
Confidence            88877776 5555554433

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.38  E-value=4.6e-06  Score=78.06  Aligned_cols=181  Identities=9%  Similarity=-0.048  Sum_probs=134.6

Q ss_pred             hcCCHHHHHHHHhhcC---CCChhHHHHH-------HHHHHHcCCHHHHHHHHHhC-CCCCCHH----------------
Q 043490          263 RCGSISLSKQVFDKMT---YHDLVSWNSI-------LKAYALHGQAKEALQLFSNM-NVQPDSA----------------  315 (589)
Q Consensus       263 ~~g~~~~A~~~~~~~~---~~~~~~~~~l-------i~~~~~~g~~~~A~~~~~~m-~~~p~~~----------------  315 (589)
                      ..++.+.|.+.|.+..   ......|+.+       ...+...++..+++..+++- ++.|+..                
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~~~   97 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDITYP   97 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCEEE
T ss_pred             cCCCHHHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCcccccccc
Confidence            4678888888888776   2344677777       45566656666666666666 6555321                


Q ss_pred             ------HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCC----HHHH
Q 043490          316 ------TFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPD----SVIW  385 (589)
Q Consensus       316 ------t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~----~~~~  385 (589)
                            ....+...+...|++++|.+.|+.+..   ..|+......+...+.+.|++++|+..|+.....|+    ...+
T Consensus        98 v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~---~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a~  174 (282)
T 4f3v_A           98 VTSPLAITMGFAACEAAQGNYADAMEALEAAPV---AGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGAAG  174 (282)
T ss_dssp             CSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCC---TTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHHHH
T ss_pred             cCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHHHH
Confidence                  223456677889999999999987743   235333666667789999999999999997743343    2467


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhcC--CC-ChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          386 SVLLGSCRKHGETRLAELAATKLKQLE--PG-DSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       386 ~~ll~~~~~~g~~~~a~~~~~~~~~~~--p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      ..+..++...|++++|+..|++.....  |. .+.....+..++.+.|+.++|..+|+++...+
T Consensus       175 ~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          175 VAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            788899999999999999999998543  43 34577889999999999999999999998643

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.37  E-value=1.3e-06  Score=71.38  Aligned_cols=96  Identities=16%  Similarity=0.077  Sum_probs=84.5

Q ss_pred             chHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhh
Q 043490          351 DHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCL  428 (589)
Q Consensus       351 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  428 (589)
                      ..+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..++++++++|.++.++..++.+|..
T Consensus        18 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           18 ENPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN   97 (121)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            34566777888999999999999888 4456 588999999999999999999999999999999999999999999999


Q ss_pred             cCChHHHHHHHHHHhcCC
Q 043490          429 SGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       429 ~g~~~~a~~~~~~m~~~~  446 (589)
                      .|++++|...+++..+..
T Consensus        98 ~g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           98 EHNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHHC--
T ss_pred             cCCHHHHHHHHHHHHHhC
Confidence            999999999999987654

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.36  E-value=1.4e-06  Score=74.25  Aligned_cols=104  Identities=10%  Similarity=-0.023  Sum_probs=76.0

Q ss_pred             CCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHH
Q 043490          309 NVQPDS-ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVI  384 (589)
Q Consensus       309 ~~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~  384 (589)
                      .+.|+. ..+..+...+.+.|++++|...|+...+.   .| +...|..+..+|.+.|++++|++.|++. .+.|+ ...
T Consensus        30 ~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~---~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~  106 (151)
T 3gyz_A           30 AIPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIY---DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTP  106 (151)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHH
Confidence            555643 35666666777777777777777777643   34 4556777777777888888888877777 44454 677


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC
Q 043490          385 WSVLLGSCRKHGETRLAELAATKLKQLEPGD  415 (589)
Q Consensus       385 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  415 (589)
                      |..+..++...|++++|...|++++++.|++
T Consensus       107 ~~~lg~~~~~lg~~~eA~~~~~~al~l~~~~  137 (151)
T 3gyz_A          107 VFHTGQCQLRLKAPLKAKECFELVIQHSNDE  137 (151)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCCH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCH
Confidence            8888888888888888888888888888754

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.35  E-value=8.7e-05  Score=71.00  Aligned_cols=199  Identities=8%  Similarity=-0.072  Sum_probs=136.4

Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHH---HHHHHHHHHhcCCHHHHHHHHhhcCCC
Q 043490          204 FRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVI---ANALIHAYARCGSISLSKQVFDKMTYH  280 (589)
Q Consensus       204 ~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~---~~~li~~~~~~g~~~~A~~~~~~~~~~  280 (589)
                      +.++......|+..++..+...+.-.-+         .+.......+...   +...+..+.+.|++++|...+++..+.
T Consensus        34 ~s~~e~g~~~~~~~~l~~i~~~l~~~~~---------~~~~~~~~~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~~  104 (293)
T 3u3w_A           34 VSRIESGAVYPSMDILQGIAAKLQIPII---------HFYEVLIYSDIERKKQFKDQVIMLCKQKRYKEIYNKVWNELKK  104 (293)
T ss_dssp             HHHHHTTSCCCCHHHHHHHHHHHTCCTH---------HHHHTTTSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHCCCCCCCHHHHHHHHHHhCcCHH---------HHhCCCCCCcchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhcc
Confidence            3334333356777777777766643221         1111111222222   233467788999999999999986532


Q ss_pred             ---Ch-----h-HHHHHHHHHHHcCCHHHHHHHHHhC-CC---CCC----HHHHHHHHHHHhccCcHHHHHHHHHHhHHh
Q 043490          281 ---DL-----V-SWNSILKAYALHGQAKEALQLFSNM-NV---QPD----SATFVSLLSACSHAGLVQEGNKVFHSMLEN  343 (589)
Q Consensus       281 ---~~-----~-~~~~li~~~~~~g~~~~A~~~~~~m-~~---~p~----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  343 (589)
                         +.     . .+..+...+...|++++|+..|++. ..   .++    ..+++.+..+|...|++++|..+|+.+.+.
T Consensus       105 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~  184 (293)
T 3u3w_A          105 EEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQ  184 (293)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence               11     1 2334666677788999999999998 21   223    236888999999999999999999988742


Q ss_pred             c----CCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-------CCCCC-HHHHHHHHHHHHHcCC-HHHHHHHHHHHh
Q 043490          344 H----GVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-------PMEPD-SVIWSVLLGSCRKHGE-TRLAELAATKLK  409 (589)
Q Consensus       344 ~----~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~-~~~~~~ll~~~~~~g~-~~~a~~~~~~~~  409 (589)
                      .    +..+ ...++..+...|.+.|++++|.+.+++.       +..+. ..+|..+..++...|+ +++|...++++.
T Consensus       185 ~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          185 LEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            2    1112 2237888999999999999999999876       22233 6788999999999995 699999999887


Q ss_pred             hc
Q 043490          410 QL  411 (589)
Q Consensus       410 ~~  411 (589)
                      ++
T Consensus       265 ~i  266 (293)
T 3u3w_A          265 FF  266 (293)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>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=98.35  E-value=2e-06  Score=70.77  Aligned_cols=94  Identities=13%  Similarity=-0.029  Sum_probs=76.5

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhc
Q 043490          352 HYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLS  429 (589)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  429 (589)
                      .+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..++++++++|.++.+|..++.+|...
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~   85 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAV   85 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence            4555666677778888888777776 3344 4788888888899999999999999999999998888999999999999


Q ss_pred             CChHHHHHHHHHHhcC
Q 043490          430 GSFNKARLIRKEMKGS  445 (589)
Q Consensus       430 g~~~~a~~~~~~m~~~  445 (589)
                      |++++|...+++..+.
T Consensus        86 ~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           86 KEYASALETLDAARTK  101 (126)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             hCHHHHHHHHHHHHHh
Confidence            9999999999887654

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.34  E-value=1.3e-06  Score=76.79  Aligned_cols=120  Identities=5%  Similarity=0.070  Sum_probs=93.8

Q ss_pred             hccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHH-HHHcCCH--H
Q 043490          325 SHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGS-CRKHGET--R  399 (589)
Q Consensus       325 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~-~~~~g~~--~  399 (589)
                      ...|++++|...++...+..  +.+...+..+...|...|++++|...|++. ...| +...|..+..+ +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN--PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC--CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchH
Confidence            34577788888887776542  235567888888888888888888888877 3334 57778888888 7788998  9


Q ss_pred             HHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          400 LAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       400 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      +|...++++.+.+|.++..+..++.+|...|++++|...+++..+..
T Consensus        99 ~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           99 QTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            99999999999999999999999999999999999999999887654

>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=98.31  E-value=2e-06  Score=73.15  Aligned_cols=111  Identities=13%  Similarity=0.025  Sum_probs=83.6

Q ss_pred             HHhC-CCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC
Q 043490          305 FSNM-NVQPDS-ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEP  380 (589)
Q Consensus       305 ~~~m-~~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p  380 (589)
                      |+++ .+.|+. ..+..+...+...|++++|...|+..+..   .| +...|..+..+|.+.|++++|++.|++. ...|
T Consensus        10 ~~~al~~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p   86 (148)
T 2vgx_A           10 IAMLNEISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVL---DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDI   86 (148)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHcCCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHc---CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            4444 555543 45666777777888888888888877643   34 5567777788888888888888888877 3345


Q ss_pred             -CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhH
Q 043490          381 -DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLG  418 (589)
Q Consensus       381 -~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  418 (589)
                       +...|..+..++...|++++|...+++++++.|+++..
T Consensus        87 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~  125 (148)
T 2vgx_A           87 XEPRFPFHAAECLLQXGELAEAESGLFLAQELIANXPEF  125 (148)
T ss_dssp             TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCGGG
T ss_pred             CCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCCcc
Confidence             46788888899999999999999999999998876654

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.30  E-value=4.9e-06  Score=74.58  Aligned_cols=58  Identities=14%  Similarity=0.084  Sum_probs=27.8

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHhC-------CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHh
Q 043490          283 VSWNSILKAYALHGQAKEALQLFSNM-------NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSM  340 (589)
Q Consensus       283 ~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~  340 (589)
                      .++..+...|...|++++|+..|++.       +..| ...++..+...+...|++++|.+.++..
T Consensus        27 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a   92 (203)
T 3gw4_A           27 GARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEE   92 (203)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34444455555555555555555444       1111 1234444555555555555555555544

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.29  E-value=3.9e-06  Score=80.02  Aligned_cols=190  Identities=7%  Similarity=-0.084  Sum_probs=129.1

Q ss_pred             CHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHH
Q 043490          215 DWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY---HDLVSWNSILKA  291 (589)
Q Consensus       215 ~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~  291 (589)
                      +...+..+...+...|++++|...+..+++.. +.+...+..+...|.+.|++++|...+++..+   .+...|..+..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~   81 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   81 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            45566777778888999999999999998875 55788899999999999999999999998773   456788999999


Q ss_pred             HHHcCCHHHHHHHHHhC-CCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHH
Q 043490          292 YALHGQAKEALQLFSNM-NVQPDS-ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEA  369 (589)
Q Consensus       292 ~~~~g~~~~A~~~~~~m-~~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  369 (589)
                      |...|++++|+..|++. .+.|+. ..+...+....   ...++.... .. .......+......+...  ..|+.++|
T Consensus        82 ~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~---~~~~~~~~~-~~-~~~~~~~~~~i~~~l~~l--~~~~~~~A  154 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSAL---RIAKKKRWN-SI-EERRIHQESELHSYLTRL--IAAERERE  154 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHH---HHHHHHHHH-HH-HHTCCCCCCHHHHHHHHH--HHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHH---HHHHHHHHH-HH-HHHHHhhhHHHHHHHHHH--HHHHHHHH
Confidence            99999999999999988 443421 01111111111   111112221 22 222344455554444333  37899999


Q ss_pred             HHHHHhC-CCCCCHH-HHHHHHHHHHHc-CCHHHHHHHHHHHhhcC
Q 043490          370 EKLIREM-PMEPDSV-IWSVLLGSCRKH-GETRLAELAATKLKQLE  412 (589)
Q Consensus       370 ~~~~~~m-~~~p~~~-~~~~ll~~~~~~-g~~~~a~~~~~~~~~~~  412 (589)
                      .+.+++. ...|+.. ....+...+.+. +.+++|.++|+++.+..
T Consensus       155 ~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~~  200 (281)
T 2c2l_A          155 LEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEKR  200 (281)
T ss_dssp             HTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCTT
T ss_pred             HHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence            9999877 6677643 334444444444 66788999998887643

>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=98.28  E-value=4.8e-06  Score=69.32  Aligned_cols=97  Identities=10%  Similarity=-0.050  Sum_probs=81.6

Q ss_pred             CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHh
Q 043490          349 QLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIY  426 (589)
Q Consensus       349 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  426 (589)
                      +...+..+...+...|++++|...|++. ...| +...|..+...+...|+++.|...++++++.+|.++.++..++.+|
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~   87 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQ   87 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHHH
Confidence            4556677777788888888888888776 3344 4788888999999999999999999999999999999999999999


Q ss_pred             hhcCChHHHHHHHHHHhcC
Q 043490          427 CLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       427 ~~~g~~~~a~~~~~~m~~~  445 (589)
                      ...|++++|...+++..+.
T Consensus        88 ~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           88 LEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHH
Confidence            9999999999999988754

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.27  E-value=3.5e-06  Score=70.98  Aligned_cols=116  Identities=11%  Similarity=0.009  Sum_probs=86.5

Q ss_pred             HHHhC-CCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCC
Q 043490          304 LFSNM-NVQPDS-ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PME  379 (589)
Q Consensus       304 ~~~~m-~~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~  379 (589)
                      .|++. .+.|+. ..+..+...+...|++++|...|+.....   .| +...|..+..+|.+.|++++|...|++. ...
T Consensus         6 ~l~~al~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   82 (142)
T 2xcb_A            6 TLAMLRGLSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCML---DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMD   82 (142)
T ss_dssp             ---CCTTCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hHHHHHcCCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            44555 556643 35566677778888888888888887654   34 5567778888888899999999888887 334


Q ss_pred             C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHH
Q 043490          380 P-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQM  422 (589)
Q Consensus       380 p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  422 (589)
                      | +...|..+..++...|++++|...+++++++.|.++......
T Consensus        83 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~  126 (142)
T 2xcb_A           83 INEPRFPFHAAECHLQLGDLDGAESGFYSARALAAAQPAHEALA  126 (142)
T ss_dssp             TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCGGGHHHH
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCcchHHHH
Confidence            5 367788888999999999999999999999988776654443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.26  E-value=3.3e-06  Score=73.11  Aligned_cols=95  Identities=12%  Similarity=0.063  Sum_probs=65.5

Q ss_pred             chHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhh
Q 043490          351 DHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCL  428 (589)
Q Consensus       351 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  428 (589)
                      ..+..+...|.+.|++++|++.|++. ...| +...|..+..++...|++++|+..++++++++|.+...|..+..+|..
T Consensus        12 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~   91 (164)
T 3sz7_A           12 DKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLARFD   91 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            34555556666666666666666665 3334 466677777777777777777777777777777777777777777777


Q ss_pred             cCChHHHHHHHHHHhcC
Q 043490          429 SGSFNKARLIRKEMKGS  445 (589)
Q Consensus       429 ~g~~~~a~~~~~~m~~~  445 (589)
                      .|++++|...+++..+.
T Consensus        92 ~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           92 MADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHh
Confidence            77777777777776643

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.26  E-value=1.6e-05  Score=66.95  Aligned_cols=112  Identities=13%  Similarity=-0.038  Sum_probs=71.7

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccC----cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHH
Q 043490          314 SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ----LDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSV  387 (589)
Q Consensus       314 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~  387 (589)
                      ...+..+...+...|++++|.+.|+...+   ..|+    ...+..+...|...|++++|.+.+++. ...| +...|..
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  104 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYR  104 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHH
Confidence            34455555555556666666666655542   2343    345555666666666666666666655 2234 4667777


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhh
Q 043490          388 LLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCL  428 (589)
Q Consensus       388 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  428 (589)
                      +..++...|++++|...++++.+.+|.+...+..+..+..+
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  145 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNISGP  145 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHCS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHhh
Confidence            78888888888888888888888888777766666655443

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.25  E-value=8.7e-05  Score=71.82  Aligned_cols=209  Identities=10%  Similarity=0.084  Sum_probs=127.8

Q ss_pred             HHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcC-CHHHHHHHHhhcC---CCChhHHHHHHHHHHHc-C-CHHHHHHHHH
Q 043490          233 RHASAVHSLIAKYGFEDDTVIANALIHAYARCG-SISLSKQVFDKMT---YHDLVSWNSILKAYALH-G-QAKEALQLFS  306 (589)
Q Consensus       233 ~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~-g-~~~~A~~~~~  306 (589)
                      ++|.++.+.++... +.+..+|+.--..+...| .++++++.++.+.   .++..+|+.-...+.+. + ++++++++++
T Consensus        71 e~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~~~~  149 (349)
T 3q7a_A           71 ERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIEYIH  149 (349)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHHHHH
Confidence            45566666666554 445555665555555566 4777777777665   34556666666555555 5 6677777777


Q ss_pred             hC-CCCC-CHHHHHHHHHHHhccCcHH--------HHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCC-------HHHH
Q 043490          307 NM-NVQP-DSATFVSLLSACSHAGLVQ--------EGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGR-------ILEA  369 (589)
Q Consensus       307 ~m-~~~p-~~~t~~~ll~a~~~~g~~~--------~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~-------~~~A  369 (589)
                      ++ ...| |..+|+.-.....+.|.++        ++.+.++.+.+..  .-|...|+.....+.+.++       ++++
T Consensus       150 k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d--p~N~SAW~~R~~lL~~l~~~~~~~~~~~eE  227 (349)
T 3q7a_A          150 GSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD--GRNNSAWGWRWYLRVSRPGAETSSRSLQDE  227 (349)
T ss_dssp             HHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHTTSTTCCCCHHHHHHH
T ss_pred             HHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhccccccchHHHHHH
Confidence            77 5555 4445554444444444444        6777777776541  2255566666666666665       6777


Q ss_pred             HHHHHhC-CCCC-CHHHHHHHHHHHHHcCCH--------------------HHHHHHHHHHhhcC------CCChhHHHH
Q 043490          370 EKLIREM-PMEP-DSVIWSVLLGSCRKHGET--------------------RLAELAATKLKQLE------PGDSLGFVQ  421 (589)
Q Consensus       370 ~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~--------------------~~a~~~~~~~~~~~------p~~~~~~~~  421 (589)
                      ++.++++ ...| |...|+.+-..+.+.|+.                    .........+....      +.++.+...
T Consensus       228 Le~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~  307 (349)
T 3q7a_A          228 LIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEY  307 (349)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHHH
Confidence            7777766 3344 577887777767666553                    22222222222222      456777889


Q ss_pred             HHHHhhhcCChHHHHHHHHHHhc
Q 043490          422 MSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       422 l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      |+++|...|+.++|.++++.+.+
T Consensus       308 l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          308 LADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHh
Confidence            99999999999999999999863

>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=98.24  E-value=1.2e-05  Score=64.43  Aligned_cols=109  Identities=8%  Similarity=-0.030  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 043490          315 ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSC  392 (589)
Q Consensus       315 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~  392 (589)
                      ..+..+...+...|++++|.+.++......  +.+...+..+...|.+.|++++|...+++. ...| +...|..+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLD--PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            344455555556666666666666554321  113445555555566666666666666555 2223 355666666666


Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHH
Q 043490          393 RKHGETRLAELAATKLKQLEPGDSLGFVQMSNI  425 (589)
Q Consensus       393 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  425 (589)
                      ...|++++|...++++.+.+|.++..+..+..+
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  115 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHEANNPQLKEGLQNM  115 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHh
Confidence            666777777777777766666665555554443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.24  E-value=1e-05  Score=65.62  Aligned_cols=97  Identities=16%  Similarity=0.236  Sum_probs=86.9

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhh
Q 043490          350 LDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYC  427 (589)
Q Consensus       350 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  427 (589)
                      ...+..+...+.+.|++++|.+.++++ ...| +..+|..+...+...|++++|...++++.+..|.++.++..++.+|.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~   88 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHH
Confidence            456778889999999999999999988 3334 58889999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHhcCC
Q 043490          428 LSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       428 ~~g~~~~a~~~~~~m~~~~  446 (589)
                      ..|++++|...++++.+..
T Consensus        89 ~~~~~~~A~~~~~~~~~~~  107 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALELD  107 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHHC
T ss_pred             HhcCHHHHHHHHHHHHHhC
Confidence            9999999999999987643

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.23  E-value=1.2e-05  Score=69.22  Aligned_cols=91  Identities=10%  Similarity=-0.086  Sum_probs=35.9

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHH--HHHHH
Q 043490          316 TFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWS--VLLGS  391 (589)
Q Consensus       316 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~--~ll~~  391 (589)
                      ++..+...+...|++++|.+.++...+..  +.+...+..+...|.+.|++++|.+.+++. ...| +...+.  .+...
T Consensus        49 ~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~  126 (166)
T 1a17_A           49 YYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNK  126 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            33333444444444444444444433221  112233444444444444444444444443 1112 122222  22222


Q ss_pred             HHHcCCHHHHHHHHHHH
Q 043490          392 CRKHGETRLAELAATKL  408 (589)
Q Consensus       392 ~~~~g~~~~a~~~~~~~  408 (589)
                      +...|++++|...+++.
T Consensus       127 ~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A          127 IVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccch
Confidence            44445555555555544

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.22  E-value=7.2e-06  Score=67.60  Aligned_cols=97  Identities=19%  Similarity=0.059  Sum_probs=87.9

Q ss_pred             CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHh
Q 043490          349 QLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIY  426 (589)
Q Consensus       349 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  426 (589)
                      +...+..+...+.+.|++++|.+.|++. ...| +...|..+...+...|++++|...++++.+..|.+..++..++.+|
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~   94 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            3456778889999999999999999987 5556 5888999999999999999999999999999999999999999999


Q ss_pred             hhcCChHHHHHHHHHHhcC
Q 043490          427 CLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       427 ~~~g~~~~a~~~~~~m~~~  445 (589)
                      .+.|++++|.+.+++..+.
T Consensus        95 ~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHh
Confidence            9999999999999988754

>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=98.21  E-value=1.1e-05  Score=64.71  Aligned_cols=97  Identities=19%  Similarity=0.195  Sum_probs=86.6

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhh
Q 043490          350 LDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYC  427 (589)
Q Consensus       350 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  427 (589)
                      ...+..+...+...|++++|...+++. ...| +...|..+...+...|++++|...++++.+..|.++..+..++.+|.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            345677788899999999999999988 3344 58889999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHhcCC
Q 043490          428 LSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       428 ~~g~~~~a~~~~~~m~~~~  446 (589)
                      ..|++++|...+++..+.+
T Consensus        84 ~~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTTC
T ss_pred             HHhhHHHHHHHHHHHHHcC
Confidence            9999999999999987654

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.19  E-value=0.00043  Score=66.98  Aligned_cols=225  Identities=12%  Similarity=0.056  Sum_probs=164.0

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhCcC-cHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhc-C-CH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPD-WCTFSIVLKACAGLV-TERHASAVHSLIAKYGFEDDTVIANALIHAYARC-G-SI  267 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~~-~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~-g-~~  267 (589)
                      .+.+..++|++++.+++..  .|+ ...|+.--..+...+ +++++..+++.+++.. +.+..+|+.-...+.+. + ++
T Consensus        65 ~~~e~se~AL~lt~~~L~~--nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~  141 (349)
T 3q7a_A           65 AKEEKSERALELTEIIVRM--NPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDP  141 (349)
T ss_dssp             HTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCC
T ss_pred             HhCCCCHHHHHHHHHHHHh--CchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCCh
Confidence            5566778999999999985  454 445565555555667 5999999999999876 67788888777777776 7 88


Q ss_pred             HHHHHHHhhcCC---CChhHHHHHHHHHHHcCCHH--------HHHHHHHhC-CCCC-CHHHHHHHHHHHhccCc-----
Q 043490          268 SLSKQVFDKMTY---HDLVSWNSILKAYALHGQAK--------EALQLFSNM-NVQP-DSATFVSLLSACSHAGL-----  329 (589)
Q Consensus       268 ~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~--------~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~-----  329 (589)
                      ++++++++++.+   +|..+|+.-.-.+.+.|..+        ++++.++++ ...| |...|+.....+.+.+.     
T Consensus       142 ~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~N~SAW~~R~~lL~~l~~~~~~~  221 (349)
T 3q7a_A          142 VSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGRNNSAWGWRWYLRVSRPGAETSS  221 (349)
T ss_dssp             HHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHTTSTTCCCCH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccccccch
Confidence            999999999884   46678887666666666555        899999999 6666 66788887777777775     


Q ss_pred             --HHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCH--------------------HHHHHHHHhC-CC-------
Q 043490          330 --VQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRI--------------------LEAEKLIREM-PM-------  378 (589)
Q Consensus       330 --~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~--------------------~~A~~~~~~m-~~-------  378 (589)
                        ++++.+.+...+..   .| |...|+-+-..+.+.|+.                    .+..++..++ +.       
T Consensus       222 ~~~~eELe~~~~aI~~---~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  298 (349)
T 3q7a_A          222 RSLQDELIYILKSIHL---IPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTP  298 (349)
T ss_dssp             HHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCC
T ss_pred             HHHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccC
Confidence              78888888887654   45 666777777777776653                    3444555444 21       


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHh-hcCCCChhHHHHH
Q 043490          379 EPDSVIWSVLLGSCRKHGETRLAELAATKLK-QLEPGDSLGFVQM  422 (589)
Q Consensus       379 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~-~~~p~~~~~~~~l  422 (589)
                      .++...+..|+..|...|+.++|.++++.+. +.+|-....|.-.
T Consensus       299 ~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw~~~  343 (349)
T 3q7a_A          299 LPVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYWEFR  343 (349)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHHHHH
Confidence            2568889999999999999999999999986 6778554444433

>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=98.19  E-value=1.3e-05  Score=65.79  Aligned_cols=109  Identities=9%  Similarity=-0.064  Sum_probs=81.9

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHH
Q 043490          315 ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGS  391 (589)
Q Consensus       315 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~  391 (589)
                      ..+..+...+...|++++|...|+..++.   .| +...|..+..+|.+.|++++|+..+++. .+.|+ ...|..+..+
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~   81 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKR---APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            35566666777778888888888777643   33 4567777788888888888888888777 44454 7788888899


Q ss_pred             HHHcCCHHHHHHHHHHHhhcC------CCChhHHHHHHHHh
Q 043490          392 CRKHGETRLAELAATKLKQLE------PGDSLGFVQMSNIY  426 (589)
Q Consensus       392 ~~~~g~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~~  426 (589)
                      +...|++++|...++++.+++      |.+......+..+.
T Consensus        82 ~~~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~  122 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKAS  122 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHH
Confidence            999999999999999999988      76666665555443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.18  E-value=1.5e-05  Score=67.10  Aligned_cols=97  Identities=15%  Similarity=0.068  Sum_probs=88.1

Q ss_pred             CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHH
Q 043490          349 QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD----SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMS  423 (589)
Q Consensus       349 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  423 (589)
                      +...+..+...+.+.|++++|.+.|++. ...|+    ...|..+...+...|++++|...++++.+..|.+...+..++
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a  106 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRS  106 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHH
Confidence            4456778888999999999999999988 66777    678888999999999999999999999999999999999999


Q ss_pred             HHhhhcCChHHHHHHHHHHhcC
Q 043490          424 NIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       424 ~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      .+|...|++++|...+++..+.
T Consensus       107 ~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          107 QALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHc
Confidence            9999999999999999988764

>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=98.17  E-value=5.4e-06  Score=68.32  Aligned_cols=93  Identities=5%  Similarity=-0.057  Sum_probs=76.2

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCh-------hHHHHH
Q 043490          352 HYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDS-------LGFVQM  422 (589)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~-------~~~~~l  422 (589)
                      .+..+...|.+.|++++|++.|++. .+.|+ ...|..+..+|...|++++|+..++++++++|.+.       .+|..+
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~l   89 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRA   89 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHH
Confidence            4556677788888888888888876 44554 78889999999999999999999999998887543       367788


Q ss_pred             HHHhhhcCChHHHHHHHHHHhc
Q 043490          423 SNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       423 ~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      ..+|...|++++|++.|++..+
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh
Confidence            8899999999999999988654

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.16  E-value=1.4e-05  Score=71.55  Aligned_cols=113  Identities=13%  Similarity=-0.019  Sum_probs=60.8

Q ss_pred             CCHHHHHH---HHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHH
Q 043490          151 SCADEAWK---VFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQRE----GMAP-DWCTFSIV  222 (589)
Q Consensus       151 g~~~~A~~---lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~t~~~l  222 (589)
                      |++++|.+   ++..-+......++.+...+             ...|++++|+..|++....    +..| ....+..+
T Consensus         6 g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~-------------~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   72 (203)
T 3gw4_A            6 HDYALAERQAQALLAHPATASGARFMLGYVY-------------AFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQV   72 (203)
T ss_dssp             -CHHHHHHHHHHHHTSTTTHHHHHHHHHHHH-------------HHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHhcCChHHHHHHHHHHHHHH-------------HHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            77888888   55553434556677777777             6667777777766665441    1111 22344555


Q ss_pred             HHHHhCcCcHHHHHHHHHHHHHh----CCC--CcHHHHHHHHHHHHhcCCHHHHHHHHhh
Q 043490          223 LKACAGLVTERHASAVHSLIAKY----GFE--DDTVIANALIHAYARCGSISLSKQVFDK  276 (589)
Q Consensus       223 l~a~~~~~~~~~a~~i~~~~~~~----g~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~  276 (589)
                      ...+...|+++.|...+....+.    +-.  ....++..+...|...|++++|...+++
T Consensus        73 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~  132 (203)
T 3gw4_A           73 GMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEK  132 (203)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            55556666666666666555443    101  1123344455555555555555555444

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.15  E-value=5.8e-05  Score=76.60  Aligned_cols=160  Identities=10%  Similarity=-0.043  Sum_probs=112.6

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC----CCCCCHH----HHHHHHHHHhccCcHHHHHHHHHHhHHhc---CCcc-Ccc
Q 043490          284 SWNSILKAYALHGQAKEALQLFSNM----NVQPDSA----TFVSLLSACSHAGLVQEGNKVFHSMLENH---GVVP-QLD  351 (589)
Q Consensus       284 ~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~~~----t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~~p-~~~  351 (589)
                      ++..+...|...|++++|.+.+.+.    +..++..    ..+.+-..+...|+.+++.+++.......   +..+ ...
T Consensus        57 al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  136 (434)
T 4b4t_Q           57 SILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHS  136 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHH
Confidence            3566778888888888888888877    2222221    22223334445788888888887764322   1111 234


Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-------CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC---CCC----h
Q 043490          352 HYACMVDLLGRVGRILEAEKLIREM-------PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLE---PGD----S  416 (589)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---p~~----~  416 (589)
                      ++..+...|...|++++|..++++.       .-+|. ..++..++..|...|++++|..+++++....   +.+    .
T Consensus       137 ~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  216 (434)
T 4b4t_Q          137 LSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVA  216 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHH
Confidence            6778889999999999999998876       11232 5678888999999999999999999887643   222    2


Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          417 LGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       417 ~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      ..+..+...+...|++++|.+.+.+..
T Consensus       217 ~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          217 ELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             HHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            456778888999999999998887664

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.13  E-value=1.9e-05  Score=68.23  Aligned_cols=106  Identities=15%  Similarity=0.028  Sum_probs=84.3

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHH
Q 043490          314 SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLG  390 (589)
Q Consensus       314 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~  390 (589)
                      ...+..+...+...|++++|.+.|+..++.   .| +...|..+...|.+.|++++|+..|++. .+.|+ ...|..+..
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~   87 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSI---APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            345666777777888888888888877654   34 5567778888888888888888888877 44454 888999999


Q ss_pred             HHHHcCCHHHHHHHHHHHhhcCCCChhHHHHH
Q 043490          391 SCRKHGETRLAELAATKLKQLEPGDSLGFVQM  422 (589)
Q Consensus       391 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  422 (589)
                      ++...|++++|...++++++++|.+...+...
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~  119 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAEGNGGSDAMKR  119 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHSSSCCHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCCchHHHHHH
Confidence            99999999999999999999999887765443

>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=98.12  E-value=0.0005  Score=66.18  Aligned_cols=223  Identities=12%  Similarity=0.078  Sum_probs=123.6

Q ss_pred             HHcCCH-HHHHHHHHHHHHcCCCCCHHH-HHHHHHHHhCcCc----------HHHHHHHHHHHHHhCCCCcHHHHHHHHH
Q 043490          192 AKMKNE-EEALFLFRQLQREGMAPDWCT-FSIVLKACAGLVT----------ERHASAVHSLIAKYGFEDDTVIANALIH  259 (589)
Q Consensus       192 ~~~g~~-~~A~~~~~~m~~~g~~p~~~t-~~~ll~a~~~~~~----------~~~a~~i~~~~~~~g~~~~~~~~~~li~  259 (589)
                      .+.|.+ ++|++++.++...  .|+..| |+.--..+...+.          ++.+..+++.++... +-+..+|+.-.-
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~--nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~w  116 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCW  116 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            344444 5889999998874  455443 3322222222222          567777777777765 567777776666


Q ss_pred             HHHhcC--CHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCC-HHHHHHHHHhC-CCCC-CHHHHHHHHHHHhcc----
Q 043490          260 AYARCG--SISLSKQVFDKMT---YHDLVSWNSILKAYALHGQ-AKEALQLFSNM-NVQP-DSATFVSLLSACSHA----  327 (589)
Q Consensus       260 ~~~~~g--~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~-~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~----  327 (589)
                      .+.+.|  .++++..+++++.   .+|..+|+.-.-.+...|. .+++++.++++ ...| |...|+.....+.+.    
T Consensus       117 lL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~N~SAW~~R~~ll~~l~~~~  196 (331)
T 3dss_A          117 LLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQP  196 (331)
T ss_dssp             HHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHHSCCC
T ss_pred             HHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhhhcc
Confidence            666666  3778888887776   4566777777777777777 57788888777 5555 445555444443332    


Q ss_pred             ----------CcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhc-----------CCHHHHHHHHHhC-CCCCCHHH
Q 043490          328 ----------GLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRV-----------GRILEAEKLIREM-PMEPDSVI  384 (589)
Q Consensus       328 ----------g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~-----------g~~~~A~~~~~~m-~~~p~~~~  384 (589)
                                +.++++.+.+...+..   .| |...|+-+-..+.+.           +.++++++.++++ ...||. .
T Consensus       197 ~~~~~~~~~~~~~~eEle~~~~ai~~---~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~pd~-~  272 (331)
T 3dss_A          197 DSGPQGRLPENVLLKELELVQNAFFT---DPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEPEN-K  272 (331)
T ss_dssp             ------CCCHHHHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCTTC-H
T ss_pred             ccccccccchHHHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCccc-c
Confidence                      3456666666655432   33 444444444444333           3355555555555 334442 2


Q ss_pred             HHHHHHH-----HHHcCCHHHHHHHHHHHhhcCCCChhHHHH
Q 043490          385 WSVLLGS-----CRKHGETRLAELAATKLKQLEPGDSLGFVQ  421 (589)
Q Consensus       385 ~~~ll~~-----~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  421 (589)
                      |..+-.+     ....|..++....+.++.+++|....-|.-
T Consensus       273 w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d  314 (331)
T 3dss_A          273 WCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDD  314 (331)
T ss_dssp             HHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHH
T ss_pred             hHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHH
Confidence            3211111     112344555555566666666544443433

>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=98.11  E-value=1.8e-05  Score=81.17  Aligned_cols=95  Identities=12%  Similarity=-0.012  Sum_probs=77.4

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhh
Q 043490          350 LDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYC  427 (589)
Q Consensus       350 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  427 (589)
                      ...|..+..+|.+.|++++|+..+++. .+.| +...|..+..+|...|++++|+..|+++++++|.+..++..+..++.
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~  396 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQK  396 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            357788888899999999999999887 4445 48889999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHH-HHHHHhc
Q 043490          428 LSGSFNKARL-IRKEMKG  444 (589)
Q Consensus       428 ~~g~~~~a~~-~~~~m~~  444 (589)
                      +.|+++++.+ .++.|..
T Consensus       397 ~~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          397 KAKEHNERDRRIYANMFK  414 (457)
T ss_dssp             HHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHHHHHh
Confidence            9999998864 5566644

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.10  E-value=1.6e-05  Score=65.04  Aligned_cols=97  Identities=12%  Similarity=0.063  Sum_probs=87.0

Q ss_pred             CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHh
Q 043490          349 QLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIY  426 (589)
Q Consensus       349 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  426 (589)
                      +...+..+...+...|++++|.+.+++. ...| +...|..+...+...|++++|...++++.+..|.++..+..++.+|
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            4456777888999999999999999987 3344 5888999999999999999999999999999999999999999999


Q ss_pred             hhcCChHHHHHHHHHHhcC
Q 043490          427 CLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       427 ~~~g~~~~a~~~~~~m~~~  445 (589)
                      ...|++++|...+++..+.
T Consensus        91 ~~~~~~~~A~~~~~~~~~~  109 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALEL  109 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHhc
Confidence            9999999999999988764

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.09  E-value=1.6e-05  Score=69.55  Aligned_cols=112  Identities=7%  Similarity=0.027  Sum_probs=53.0

Q ss_pred             cCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHH-HHHcCCH--HHHH
Q 043490          229 LVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKA-YALHGQA--KEAL  302 (589)
Q Consensus       229 ~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~-~~~~g~~--~~A~  302 (589)
                      .|+++.|...+...++.. +.+...+..+...|...|++++|...|++..   ..+...|..+... |...|++  ++|+
T Consensus        23 ~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~A~  101 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQTR  101 (177)
T ss_dssp             ----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHHHH
T ss_pred             ccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHHHH
Confidence            344444444444444443 3344455555555555555555555555443   2234444444444 4455554  5555


Q ss_pred             HHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhH
Q 043490          303 QLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSML  341 (589)
Q Consensus       303 ~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~  341 (589)
                      ..|++. ...|+ ...+..+...+...|++++|...|+.+.
T Consensus       102 ~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al  142 (177)
T 2e2e_A          102 AMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVM  142 (177)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            555555 33332 3344444455555555555555555544

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.06  E-value=1.8e-05  Score=64.90  Aligned_cols=91  Identities=15%  Similarity=0.074  Sum_probs=63.7

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC-CCCCC-H---HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC---hhHHHHHHHHh
Q 043490          355 CMVDLLGRVGRILEAEKLIREM-PMEPD-S---VIWSVLLGSCRKHGETRLAELAATKLKQLEPGD---SLGFVQMSNIY  426 (589)
Q Consensus       355 ~li~~~~~~g~~~~A~~~~~~m-~~~p~-~---~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~  426 (589)
                      .+...+.+.|++++|.+.|++. ...|+ .   ..+..+..++...|++++|...++++.+..|++   +.++..++.+|
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~   86 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQ   86 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHH
Confidence            3445566667777777766665 22232 2   466667777778888888888888888877776   66677788888


Q ss_pred             hhcCChHHHHHHHHHHhcC
Q 043490          427 CLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       427 ~~~g~~~~a~~~~~~m~~~  445 (589)
                      ...|++++|...+++..+.
T Consensus        87 ~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            8888888888888777653

>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=98.05  E-value=2.5e-05  Score=64.84  Aligned_cols=100  Identities=7%  Similarity=-0.118  Sum_probs=74.2

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHH
Q 043490          313 DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLG  390 (589)
Q Consensus       313 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~  390 (589)
                      +...+..+...+...|++++|...|+..+...  +.+...+..+...|...|++++|...+++. ...| +...|..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHH
Confidence            45566777777777777777777777765432  224556777777778888888888877776 3344 4778888888


Q ss_pred             HHHHcCCHHHHHHHHHHHhhcCCC
Q 043490          391 SCRKHGETRLAELAATKLKQLEPG  414 (589)
Q Consensus       391 ~~~~~g~~~~a~~~~~~~~~~~p~  414 (589)
                      ++...|+++.|...++++.++.|+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHChh
Confidence            889999999999999998887775

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.02  E-value=5.4e-06  Score=67.14  Aligned_cols=82  Identities=16%  Similarity=0.082  Sum_probs=55.2

Q ss_pred             cCCHHHHHHHHHhC-CC---CCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHH
Q 043490          363 VGRILEAEKLIREM-PM---EPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARL  437 (589)
Q Consensus       363 ~g~~~~A~~~~~~m-~~---~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  437 (589)
                      .|++++|+..|++. ..   .|+ ...|..+...+...|++++|+..++++++.+|.++.++..++.+|.+.|++++|..
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHH
Confidence            45566666666655 33   243 55667777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHhc
Q 043490          438 IRKEMKG  444 (589)
Q Consensus       438 ~~~~m~~  444 (589)
                      .+++..+
T Consensus        83 ~~~~al~   89 (117)
T 3k9i_A           83 LLLKIIA   89 (117)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7776654

>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=98.02  E-value=0.00057  Score=65.79  Aligned_cols=212  Identities=10%  Similarity=0.069  Sum_probs=153.7

Q ss_pred             HHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCC----------HHHHHHHHhhcC---CCChhHHHHHHHHHHHcCC-
Q 043490          232 ERHASAVHSLIAKYGFEDDTVIANALIHAYARCGS----------ISLSKQVFDKMT---YHDLVSWNSILKAYALHGQ-  297 (589)
Q Consensus       232 ~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~----------~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~-  297 (589)
                      -++|..+.+.++..+ |.+..+|+.--..+...|.          +++++.+++.+.   .++..+|+.-...+...|+ 
T Consensus        46 s~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~  124 (331)
T 3dss_A           46 DESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEP  124 (331)
T ss_dssp             SHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSC
T ss_pred             CHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcc
Confidence            347888888888765 5556666654444433333          678888888876   4677899988888888884 


Q ss_pred             -HHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCc-HHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhc----------
Q 043490          298 -AKEALQLFSNM-NVQP-DSATFVSLLSACSHAGL-VQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRV----------  363 (589)
Q Consensus       298 -~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~-~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~----------  363 (589)
                       +++++++++++ ...| |..+|+.-...+...|. ++++.+.+..+++..  .-|...|+.....+.+.          
T Consensus       125 ~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~--p~N~SAW~~R~~ll~~l~~~~~~~~~~  202 (331)
T 3dss_A          125 NWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN--FSNYSSWHYRSCLLPQLHPQPDSGPQG  202 (331)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHHSCCC------
T ss_pred             cHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHhhhcccccccc
Confidence             89999999999 6666 66678777777777787 689999999887652  23555666666555554          


Q ss_pred             ----CCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHc-----------CCHHHHHHHHHHHhhcCCCChhHHHHHHHH-
Q 043490          364 ----GRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKH-----------GETRLAELAATKLKQLEPGDSLGFVQMSNI-  425 (589)
Q Consensus       364 ----g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~-----------g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~-  425 (589)
                          +.++++++.+.+. ...| |...|+.+-..+.+.           +.++++++.++++++++|++.-++..++.. 
T Consensus       203 ~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~~  282 (331)
T 3dss_A          203 RLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLM  282 (331)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHHH
Confidence                4588899998887 3445 588898766666555           457899999999999999886655544432 


Q ss_pred             --hhhcCChHHHHHHHHHHhcCC
Q 043490          426 --YCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       426 --~~~~g~~~~a~~~~~~m~~~~  446 (589)
                        ....|..+++...+.++.+-+
T Consensus       283 ~~~~~~~~~~~~~~~l~~l~~~D  305 (331)
T 3dss_A          283 RALDPLLYEKETLQYFSTLKAVD  305 (331)
T ss_dssp             HHHCTTTTHHHHHHHHHHHHHHC
T ss_pred             HhhcccccHHHHHHHHHHHHHhC
Confidence              235688889999999887643

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.01  E-value=2.3e-05  Score=66.27  Aligned_cols=63  Identities=11%  Similarity=-0.127  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhc-------CCCChhHH----HHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          382 SVIWSVLLGSCRKHGETRLAELAATKLKQL-------EPGDSLGF----VQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       382 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-------~p~~~~~~----~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      ...|..+..++.+.|++++|+..+++++++       +|++...|    .....++...|++++|+..|++..+
T Consensus        57 a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           57 AFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            348888888999999999999999999988       99999999    9999999999999999999998765

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.99  E-value=1.2e-05  Score=82.87  Aligned_cols=116  Identities=13%  Similarity=-0.011  Sum_probs=89.8

Q ss_pred             HHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCH
Q 043490          322 SACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGET  398 (589)
Q Consensus       322 ~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~  398 (589)
                      ..+...|++++|.+.+++..+.   .| +...|..+..+|.+.|++++|++.+++. ...|+ ...|..+..+|...|++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence            3455678888888888877654   34 4567788888888888888888888877 44554 78888889999999999


Q ss_pred             HHHHHHHHHHhhcCCCChhHHHHHHHH--hhhcCChHHHHHHHH
Q 043490          399 RLAELAATKLKQLEPGDSLGFVQMSNI--YCLSGSFNKARLIRK  440 (589)
Q Consensus       399 ~~a~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~a~~~~~  440 (589)
                      ++|+..++++.+.+|.+...+..+..+  +.+.|++++|.+.++
T Consensus        91 ~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           91 RAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999999999888888888777  888899999998887

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.98  E-value=0.00012  Score=59.92  Aligned_cols=101  Identities=17%  Similarity=0.115  Sum_probs=73.5

Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhcCCccCc----chHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HHHHHHHH
Q 043490          319 SLLSACSHAGLVQEGNKVFHSMLENHGVVPQL----DHYACMVDLLGRVGRILEAEKLIREM-PMEPD----SVIWSVLL  389 (589)
Q Consensus       319 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~ll  389 (589)
                      .+...+...|++++|.+.|+.+.+.   .|+.    ..+..+...|.+.|++++|...|++. ...|+    ...+..+.
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la   83 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLEL---YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHH---CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHH
Confidence            3445666778888888888777654   2332    36667777788888888888888776 22333    56677888


Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHH
Q 043490          390 GSCRKHGETRLAELAATKLKQLEPGDSLGFVQM  422 (589)
Q Consensus       390 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  422 (589)
                      .++...|++++|...++++.+..|+++......
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~  116 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQYPGSDAARVAQ  116 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTSHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCCChHHHHHH
Confidence            889999999999999999999998776554443

>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=97.98  E-value=3.1e-05  Score=63.71  Aligned_cols=88  Identities=15%  Similarity=0.136  Sum_probs=42.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC--------HHHHHHHH
Q 043490          254 ANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD--------SATFVSLL  321 (589)
Q Consensus       254 ~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~--------~~t~~~ll  321 (589)
                      +..|...|.+.|++++|...|++..   +.+...|+.+..+|.+.|++++|++.|++. .+.|+        ..+|..+.
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg   90 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRAG   90 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHH
Confidence            3445555555555555555555443   223445555555555555555555555554 22221        12344444


Q ss_pred             HHHhccCcHHHHHHHHHHhH
Q 043490          322 SACSHAGLVQEGNKVFHSML  341 (589)
Q Consensus       322 ~a~~~~g~~~~a~~~~~~~~  341 (589)
                      .++...|++++|.+.|+..+
T Consensus        91 ~~~~~~~~~~~A~~~~~kal  110 (127)
T 4gcn_A           91 NAFQKQNDLSLAVQWFHRSL  110 (127)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHH
Confidence            45555555555555555443

>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=97.98  E-value=8.1e-05  Score=72.83  Aligned_cols=158  Identities=11%  Similarity=0.026  Sum_probs=94.9

Q ss_pred             CCHHHHHHHHhhCCC--C-ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 043490          151 SCADEAWKVFENMEF--R-NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACA  227 (589)
Q Consensus       151 g~~~~A~~lf~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  227 (589)
                      +++++|...|+...+  | +...|..+...|             .+.|++++|+..|++.....  |+...         
T Consensus       127 ~~~~~A~~~~~~a~~~~p~~a~~~~~~g~~~-------------~~~g~~~~A~~~y~~Al~~~--p~~~~---------  182 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEEKLEQSTIVKERGTVY-------------FKEGKYKQALLQYKKIVSWL--EYESS---------  182 (336)
T ss_dssp             EEEECCCCGGGCCHHHHHHHHHHHHHHHHHH-------------HHHTCHHHHHHHHHHHHHHT--TTCCC---------
T ss_pred             eecccccchhcCCHHHHHHHHHHHHHHHHHH-------------HHCCCHHHHHHHHHHHHHHh--hcccc---------
Confidence            344444444444332  2 345677777888             88999999999999887753  22100         


Q ss_pred             CcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHH
Q 043490          228 GLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQL  304 (589)
Q Consensus       228 ~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~  304 (589)
                       . ..+.+.++-        +....++..+...|.+.|++++|...|++..   ..+..+|..+..+|...|++++|+..
T Consensus       183 -~-~~~~~~~~~--------~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~  252 (336)
T 1p5q_A          183 -F-SNEEAQKAQ--------ALRLASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARAD  252 (336)
T ss_dssp             -C-CSHHHHHHH--------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             -C-ChHHHHHHH--------HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHH
Confidence             0 001111110        1123456666667777777777777776655   33556677777777777777777777


Q ss_pred             HHhC-CCCCC-HHHHHHHHHHHhccCcHHHH-HHHHHHhHH
Q 043490          305 FSNM-NVQPD-SATFVSLLSACSHAGLVQEG-NKVFHSMLE  342 (589)
Q Consensus       305 ~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a-~~~~~~~~~  342 (589)
                      |++. .+.|+ ...+..+..++...|+.+++ .+.+..|..
T Consensus       253 ~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          253 FQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             HHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777 55553 45666666677777777776 445555543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.96  E-value=2.8e-05  Score=66.94  Aligned_cols=64  Identities=9%  Similarity=0.052  Sum_probs=56.9

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          382 SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       382 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      ...|..+..+|.+.|+++.|+..++++++++|.++.+|..++.+|...|++++|...+++..+.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            5678888888999999999999999999999999999999999999999999999999887654

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.96  E-value=5.2e-05  Score=75.17  Aligned_cols=89  Identities=10%  Similarity=-0.032  Sum_probs=78.8

Q ss_pred             CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHh
Q 043490          349 QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIY  426 (589)
Q Consensus       349 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  426 (589)
                      +...|..+..+|.+.|++++|++.+++. ...|+ ...|..+..+|...|++++|...++++++++|.+...+..+..++
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~  351 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVK  351 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3457888889999999999999999888 66665 888999999999999999999999999999999999999999999


Q ss_pred             hhcCChHHHHH
Q 043490          427 CLSGSFNKARL  437 (589)
Q Consensus       427 ~~~g~~~~a~~  437 (589)
                      ...++.+++.+
T Consensus       352 ~~~~~~~~a~k  362 (370)
T 1ihg_A          352 QKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            98888877765

>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=97.95  E-value=3.4e-05  Score=63.08  Aligned_cols=94  Identities=9%  Similarity=0.050  Sum_probs=76.2

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC-------hhHHHHH
Q 043490          352 HYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGD-------SLGFVQM  422 (589)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-------~~~~~~l  422 (589)
                      .+..+...+...|++++|...|++. ...| +...|..+...+...|++++|...++++.+..|.+       ..++..+
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            4556666777777888888777766 2233 57788888889999999999999999998887655       7788999


Q ss_pred             HHHhhhcCChHHHHHHHHHHhcC
Q 043490          423 SNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       423 ~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      +.+|...|++++|.+.+++..+.
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHh
Confidence            99999999999999999988763

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.95  E-value=5.9e-05  Score=64.17  Aligned_cols=128  Identities=13%  Similarity=0.022  Sum_probs=77.4

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhcCCccC----cchHHHHHHHHhhcCCHHHHHHHHHhC----CCCCC----HHH
Q 043490          317 FVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ----LDHYACMVDLLGRVGRILEAEKLIREM----PMEPD----SVI  384 (589)
Q Consensus       317 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~----~~~  384 (589)
                      +..+...+...|++++|.+.++...+...-.++    ...+..+...|...|++++|.+.+++.    +..++    ..+
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            344444445555555555555444322110011    124555556666666666666666554    10111    446


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhhcCC------CChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          385 WSVLLGSCRKHGETRLAELAATKLKQLEP------GDSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       385 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p------~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      +..+...+...|++++|...+++..+..+      ....++..++.+|...|++++|.+.+++..+
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            67777788888888888888888776421      1245677888999999999999998887653

>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=97.94  E-value=2.9e-05  Score=63.50  Aligned_cols=109  Identities=9%  Similarity=-0.068  Sum_probs=69.4

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CC----CCC----HHHHH
Q 043490          316 TFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PM----EPD----SVIWS  386 (589)
Q Consensus       316 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~----~p~----~~~~~  386 (589)
                      .+..+...+...|++++|...|+...+..  +.+...+..+...|...|++++|...+++. ..    .++    ..+|.
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD--PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            44555555666666666666666654431  223445566666666666666666666655 11    122    56777


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhh
Q 043490          387 VLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYC  427 (589)
Q Consensus       387 ~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  427 (589)
                      .+...+...|+++.|...++++.+..| ++.....+..+..
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~  123 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQAEK  123 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHHHH
Confidence            788888888888888888888888877 5665555554443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.93  E-value=3.6e-05  Score=60.92  Aligned_cols=100  Identities=15%  Similarity=0.093  Sum_probs=74.4

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC---CHHHHHHHHH
Q 043490          315 ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP---DSVIWSVLLG  390 (589)
Q Consensus       315 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p---~~~~~~~ll~  390 (589)
                      ..+..+...+...|++++|...++...+..  +.+...+..+...|.+.|++++|.+.+++. ...|   +...|..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            7 EEYYLEGVLQYDAGNYTESIDLFEKAIQLD--PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             TGGGGHHHHHHSSCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            455566667777788888888887776532  224556777777888888888888888776 3334   4778888888


Q ss_pred             HHHHc-CCHHHHHHHHHHHhhcCCCCh
Q 043490          391 SCRKH-GETRLAELAATKLKQLEPGDS  416 (589)
Q Consensus       391 ~~~~~-g~~~~a~~~~~~~~~~~p~~~  416 (589)
                      .+... |++++|.+.++++.+..|+++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            88899 999999999999988888653

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.92  E-value=0.00012  Score=75.09  Aligned_cols=123  Identities=14%  Similarity=0.092  Sum_probs=92.9

Q ss_pred             HhccCcHHHHHHHHHHhHHhcC--Ccc----CcchHHHHHHHHhhcCCHHHHHHHHHhC---------CCCCC-HHHHHH
Q 043490          324 CSHAGLVQEGNKVFHSMLENHG--VVP----QLDHYACMVDLLGRVGRILEAEKLIREM---------PMEPD-SVIWSV  387 (589)
Q Consensus       324 ~~~~g~~~~a~~~~~~~~~~~~--~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m---------~~~p~-~~~~~~  387 (589)
                      +...|++++|..++++.++...  +.|    ...+++.|..+|...|++++|+.++++.         +..|+ ..+++.
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            4467788888877766654321  112    1346777888888888888888887765         33455 677899


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhh-----cCCCChhH---HHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          388 LLGSCRKHGETRLAELAATKLKQ-----LEPGDSLG---FVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       388 ll~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~~---~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      |...|...|++++|+.+++++++     ++|+.+.+   ...|..++...|++++|..++.++++.-
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~  465 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAA  465 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999875     56766554   4577888899999999999999998644

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.91  E-value=4.5e-05  Score=62.10  Aligned_cols=96  Identities=9%  Similarity=0.002  Sum_probs=69.1

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHH
Q 043490          317 FVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCR  393 (589)
Q Consensus       317 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~  393 (589)
                      +..+...+.+.|++++|...|+..++.   .| +...|..+..++.+.|++++|+..|++. .+.|+ ...|..+..++.
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~   96 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQK---EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHT   96 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            444555667778888888888777653   34 5566777777888888888888888777 44554 778888888888


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCC
Q 043490          394 KHGETRLAELAATKLKQLEPGD  415 (589)
Q Consensus       394 ~~g~~~~a~~~~~~~~~~~p~~  415 (589)
                      ..|++++|...++++++.+|.+
T Consensus        97 ~~g~~~~A~~~~~~al~~~P~~  118 (121)
T 1hxi_A           97 NEHNANAALASLRAWLLSQPQY  118 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC-----
T ss_pred             HcCCHHHHHHHHHHHHHhCcCC
Confidence            8999999999999998888854

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.90  E-value=0.0002  Score=72.50  Aligned_cols=185  Identities=9%  Similarity=-0.044  Sum_probs=133.5

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCC----------------HHHHHHHHHHHhCcCcHHHHHHHHHHHHHhC-CCCcH---
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPD----------------WCTFSIVLKACAGLVTERHASAVHSLIAKYG-FEDDT---  251 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~----------------~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g-~~~~~---  251 (589)
                      .+.|++++|++.|.+..+......                ...+..+...|...|++++|.+.+..+.+.- -.++.   
T Consensus        15 ~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   94 (434)
T 4b4t_Q           15 VNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTV   94 (434)
T ss_dssp             HHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHH
Confidence            678999999999999887532211                1247778889999999999999998876531 11222   


Q ss_pred             -HHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CC----hhHHHHHHHHHHHcCCHHHHHHHHHhC-----CC--CCC-
Q 043490          252 -VIANALIHAYARCGSISLSKQVFDKMTY-----HD----LVSWNSILKAYALHGQAKEALQLFSNM-----NV--QPD-  313 (589)
Q Consensus       252 -~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m-----~~--~p~-  313 (589)
                       .+.+.+...+...|+.+.|..++.....     .+    ..++..+...|...|++++|..++++.     +.  +|. 
T Consensus        95 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~  174 (434)
T 4b4t_Q           95 KVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSL  174 (434)
T ss_dssp             HHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhH
Confidence             2344455556667899999998877641     11    347788899999999999999999987     22  222 


Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccC-----cchHHHHHHHHhhcCCHHHHHHHHHhC
Q 043490          314 SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ-----LDHYACMVDLLGRVGRILEAEKLIREM  376 (589)
Q Consensus       314 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m  376 (589)
                      ..++..++..|...|++++|..+++.......-.++     ...+..+...+...|++++|...|.+.
T Consensus       175 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a  242 (434)
T 4b4t_Q          175 VDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFES  242 (434)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            347788888999999999999999877543221222     235667777888899999998877655

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.90  E-value=5.7e-05  Score=77.77  Aligned_cols=115  Identities=8%  Similarity=0.022  Sum_probs=74.7

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHH
Q 043490          257 LIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQ  331 (589)
Q Consensus       257 li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~  331 (589)
                      +...|.+.|++++|.+.|++..   ..+..+|..+..+|.+.|++++|++.|++. .+.|+ ..++..+..++...|+++
T Consensus        12 lg~~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           12 QANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             SSSSTTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence            3445667778888888887765   335667777777788888888888888777 55553 456777777777778888


Q ss_pred             HHHHHHHHhHHhcCCcc-CcchHHHHHHH--HhhcCCHHHHHHHHH
Q 043490          332 EGNKVFHSMLENHGVVP-QLDHYACMVDL--LGRVGRILEAEKLIR  374 (589)
Q Consensus       332 ~a~~~~~~~~~~~~~~p-~~~~~~~li~~--~~~~g~~~~A~~~~~  374 (589)
                      +|.+.|++..+.   .| +...+..+..+  +.+.|++++|++.++
T Consensus        92 eA~~~~~~al~~---~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           92 AALRDYETVVKV---KPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHH---STTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            888877777654   23 23344444444  666677777777776

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.87  E-value=5.6e-05  Score=64.34  Aligned_cols=60  Identities=10%  Similarity=-0.092  Sum_probs=36.1

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-------CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Q 043490          352 HYACMVDLLGRVGRILEAEKLIREM-------PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQL  411 (589)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  411 (589)
                      .+..+...+...|++++|.+.+++.       +..+ ...++..+...+...|++++|...+++..++
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            3444555555555555555555544       1111 1345666777778888888888888877654

>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=97.85  E-value=3.9e-05  Score=68.56  Aligned_cols=151  Identities=9%  Similarity=0.006  Sum_probs=76.9

Q ss_pred             CCHHHHHHHHhhCCC---CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 043490          151 SCADEAWKVFENMEF---RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACA  227 (589)
Q Consensus       151 g~~~~A~~lf~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  227 (589)
                      |+++.+...++.-..   .....|..+...+             .+.|++++|+..|++.....  |+...+...     
T Consensus        18 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~-------------~~~~~~~~A~~~~~~al~~~--~~~~~~~~~-----   77 (198)
T 2fbn_A           18 YFQGAKKSIYDYTDEEKVQSAFDIKEEGNEF-------------FKKNEINEAIVKYKEALDFF--IHTEEWDDQ-----   77 (198)
T ss_dssp             ----CCCSGGGCCHHHHHHHHHHHHHHHHHH-------------HHTTCHHHHHHHHHHHHHTT--TTCTTCCCH-----
T ss_pred             hhccccCchhhCCHHHHHHHHHHHHHHHHHH-------------HHcCCHHHHHHHHHHHHHHH--hcccccchh-----
Confidence            566666655554332   1334566666677             88899999999999988742  211000000     


Q ss_pred             CcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHH
Q 043490          228 GLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQL  304 (589)
Q Consensus       228 ~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~  304 (589)
                         ....-.   .       .....++..+...|.+.|++++|...+++..   ..+..+|..+..+|...|++++|++.
T Consensus        78 ---~~~~~~---~-------~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~  144 (198)
T 2fbn_A           78 ---ILLDKK---K-------NIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKEN  144 (198)
T ss_dssp             ---HHHHHH---H-------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             ---hHHHHH---H-------HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHH
Confidence               000000   0       0012344555555666666666666665544   23445566666666666666666666


Q ss_pred             HHhC-CCCCC-HHHHHHHHHHHhccCcHHHHH
Q 043490          305 FSNM-NVQPD-SATFVSLLSACSHAGLVQEGN  334 (589)
Q Consensus       305 ~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~  334 (589)
                      |++. .+.|+ ...+..+..++...++.+++.
T Consensus       145 ~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~  176 (198)
T 2fbn_A          145 LYKAASLNPNNLDIRNSYELCVNKLKEARKKD  176 (198)
T ss_dssp             HHHHHHHSTTCHHHHHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHCCCcHHHHHHHHHHHHHHHHHHHHH
Confidence            6666 44443 334444555555555555544

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.83  E-value=2.8e-05  Score=65.76  Aligned_cols=68  Identities=13%  Similarity=0.034  Sum_probs=52.7

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-C-------CCCC-HHHH----HHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhH
Q 043490          352 HYACMVDLLGRVGRILEAEKLIREM-P-------MEPD-SVIW----SVLLGSCRKHGETRLAELAATKLKQLEPGDSLG  418 (589)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~~~m-~-------~~p~-~~~~----~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  418 (589)
                      .|..+..++.+.|++++|+..+++. .       +.|+ ...|    .....++...|++++|+..|++++++.|.|...
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~  138 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGE  138 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHH
Confidence            5566666666666666666666555 3       3887 6788    899999999999999999999999999977654


Q ss_pred             H
Q 043490          419 F  419 (589)
Q Consensus       419 ~  419 (589)
                      +
T Consensus       139 ~  139 (159)
T 2hr2_A          139 T  139 (159)
T ss_dssp             C
T ss_pred             H
Confidence            3

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.82  E-value=1.9e-05  Score=77.44  Aligned_cols=146  Identities=12%  Similarity=-0.019  Sum_probs=79.8

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHh
Q 043490          283 VSWNSILKAYALHGQAKEALQLFSNM-NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLG  361 (589)
Q Consensus       283 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~  361 (589)
                      ..|..+...+.+.|++++|+..|++. ...|+...       +...++.+++...+.           ...|..+..+|.
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~-------~~~~~~~~~~~~~l~-----------~~~~~nla~~~~  241 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFM-------FQLYGKYQDMALAVK-----------NPCHLNIAACLI  241 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHHH-------HTCCHHHHHHHHHHH-----------THHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccchh-------hhhcccHHHHHHHHH-----------HHHHHHHHHHHH
Confidence            45666777777888888888888887 66665442       223344444332221           126777888888


Q ss_pred             hcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHh-hhcCChHHHHHH
Q 043490          362 RVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIY-CLSGSFNKARLI  438 (589)
Q Consensus       362 ~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~~~a~~~  438 (589)
                      +.|++++|+..+++. ...| +...|..+..+|...|++++|...++++++++|.+..++..|..+. ...+..+.+.+.
T Consensus       242 ~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~~~  321 (338)
T 2if4_A          242 KLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQKEM  321 (338)
T ss_dssp             TTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----------------------------
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999988877 4445 4788888889999999999999999999999998888888877773 345667777778


Q ss_pred             HHHHhcCC
Q 043490          439 RKEMKGSR  446 (589)
Q Consensus       439 ~~~m~~~~  446 (589)
                      +.+|....
T Consensus       322 ~~~~l~~~  329 (338)
T 2if4_A          322 YKGIFKGK  329 (338)
T ss_dssp             --------
T ss_pred             HHHhhCCC
Confidence            87776543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.81  E-value=6.4e-05  Score=64.65  Aligned_cols=73  Identities=19%  Similarity=0.077  Sum_probs=60.4

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCh-hHHHHH
Q 043490          350 LDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDS-LGFVQM  422 (589)
Q Consensus       350 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~-~~~~~l  422 (589)
                      ...|..+..+|.+.|++++|+..+++. .+.|+ ...|..+..++...|++++|...++++++++|.++ .....+
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l  138 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREM  138 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence            346778888899999999999998887 44554 88899999999999999999999999999999877 333333

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.78  E-value=2.4e-05  Score=63.17  Aligned_cols=92  Identities=11%  Similarity=0.042  Sum_probs=66.8

Q ss_pred             cCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHH
Q 043490          327 AGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAEL  403 (589)
Q Consensus       327 ~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~  403 (589)
                      .|++++|...|+..++...-.| +...+..+...|.+.|++++|++.|++. ...|+ ...+..+..++...|++++|+.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHH
Confidence            5677778888877753200023 4556777888888888888888888877 33454 7788888999999999999999


Q ss_pred             HHHHHhhcCCCChhH
Q 043490          404 AATKLKQLEPGDSLG  418 (589)
Q Consensus       404 ~~~~~~~~~p~~~~~  418 (589)
                      .++++++..|.++..
T Consensus        83 ~~~~al~~~p~~~~~   97 (117)
T 3k9i_A           83 LLLKIIAETSDDETI   97 (117)
T ss_dssp             HHHHHHHHHCCCHHH
T ss_pred             HHHHHHHhCCCcHHH
Confidence            999999998877654

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.76  E-value=8.9e-06  Score=64.74  Aligned_cols=91  Identities=15%  Similarity=0.003  Sum_probs=70.5

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC------hhHHHH
Q 043490          350 LDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGD------SLGFVQ  421 (589)
Q Consensus       350 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~  421 (589)
                      ...+..+...+.+.|++++|.+.|++. ...| +...|..+..++...|++++|+..++++++++|.+      ...+..
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~   83 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQYR   83 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHHH
Confidence            345566677777788888888888776 3344 47888889999999999999999999999999987      667777


Q ss_pred             HHHHhhhcCChHHHHHHHH
Q 043490          422 MSNIYCLSGSFNKARLIRK  440 (589)
Q Consensus       422 l~~~~~~~g~~~~a~~~~~  440 (589)
                      +..++...|++++|...++
T Consensus        84 ~~~~~~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           84 LELAQGAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHHHHHHHCCCCCSSSSS
T ss_pred             HHHHHHHHHhHhhhHhHHH
Confidence            8888887777766655444

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.71  E-value=0.0011  Score=69.62  Aligned_cols=165  Identities=8%  Similarity=-0.012  Sum_probs=127.6

Q ss_pred             HHHHHHHHhhcC---CCChhHHHHHHHHHHHcCC----------HHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccC--c
Q 043490          267 ISLSKQVFDKMT---YHDLVSWNSILKAYALHGQ----------AKEALQLFSNM-NVQP-DSATFVSLLSACSHAG--L  329 (589)
Q Consensus       267 ~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g--~  329 (589)
                      .++|.+.++.+.   ..+..+|+.--..+...|+          ++++++.++++ ...| +..+|..-..++.+.+  +
T Consensus        45 ~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~~~~  124 (567)
T 1dce_A           45 DESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPN  124 (567)
T ss_dssp             SHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCC
T ss_pred             CHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHccccc
Confidence            456677777665   3345677776666666666          78888888888 6666 4567887777778888  6


Q ss_pred             HHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcC-CHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHc----------
Q 043490          330 VQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVG-RILEAEKLIREM-PMEP-DSVIWSVLLGSCRKH----------  395 (589)
Q Consensus       330 ~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g-~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~----------  395 (589)
                      ++++.+.++.+.+.   .| +...|+.-...+.+.| .++++++.++++ ...| |...|+.....+.+.          
T Consensus       125 ~~~el~~~~k~l~~---d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~~  201 (567)
T 1dce_A          125 WARELELCARFLEA---DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQG  201 (567)
T ss_dssp             HHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             HHHHHHHHHHHHhh---ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccccccc
Confidence            79999999888764   33 5566777777777888 889999999888 5556 488898888777663          


Q ss_pred             ----CCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHH
Q 043490          396 ----GETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNK  434 (589)
Q Consensus       396 ----g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  434 (589)
                          +.++++.+.+++++..+|.+..+|.-+...+.+.|+.++
T Consensus       202 ~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          202 RLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                557999999999999999999999999999999888555

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.68  E-value=6.2e-05  Score=73.70  Aligned_cols=149  Identities=9%  Similarity=0.002  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHhhcCC--CChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC
Q 043490          251 TVIANALIHAYARCGSISLSKQVFDKMTY--HDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAG  328 (589)
Q Consensus       251 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g  328 (589)
                      ...+..+...|.+.|++++|...|++...  |+..       .+...|+.+++...+.       ...|..+..++.+.|
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~-------~~~~~~~~~~~~~~l~-------~~~~~nla~~~~~~g  244 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDF-------MFQLYGKYQDMALAVK-------NPCHLNIAACLIKLK  244 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHH-------HHTCCHHHHHHHHHHH-------THHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccch-------hhhhcccHHHHHHHHH-------HHHHHHHHHHHHHcC
Confidence            45677888899999999999999998662  3222       1222333444443332       136777777888888


Q ss_pred             cHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHH-HHHcCCHHHHHHH
Q 043490          329 LVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGS-CRKHGETRLAELA  404 (589)
Q Consensus       329 ~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~-~~~~g~~~~a~~~  404 (589)
                      ++++|...++..++.   .| +...|..+..+|...|++++|...|++. .+.|+ ...+..|... ....+..+.+...
T Consensus       245 ~~~~A~~~~~~al~~---~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~~~  321 (338)
T 2if4_A          245 RYDEAIGHCNIVLTE---EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQKEM  321 (338)
T ss_dssp             CCHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----------------------------
T ss_pred             CHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888887653   34 5567888888888999999999988887 55665 4455555444 2344667788888


Q ss_pred             HHHHhhcCCCCh
Q 043490          405 ATKLKQLEPGDS  416 (589)
Q Consensus       405 ~~~~~~~~p~~~  416 (589)
                      ++++.+..|.++
T Consensus       322 ~~~~l~~~p~~~  333 (338)
T 2if4_A          322 YKGIFKGKDEGG  333 (338)
T ss_dssp             ------------
T ss_pred             HHHhhCCCCCCC
Confidence            888888887553

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.68  E-value=0.00012  Score=58.79  Aligned_cols=78  Identities=12%  Similarity=0.057  Sum_probs=65.8

Q ss_pred             HHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          368 EAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       368 ~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      +|++.|++. ...| +...|..+...+...|++++|+..++++++.+|.+..+|..++.+|...|++++|...+++..+.
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~   82 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAA   82 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            345555555 4455 47888889999999999999999999999999999999999999999999999999999987653

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.64  E-value=0.00023  Score=53.90  Aligned_cols=80  Identities=18%  Similarity=0.210  Sum_probs=61.5

Q ss_pred             chHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhh
Q 043490          351 DHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCL  428 (589)
Q Consensus       351 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  428 (589)
                      ..+..+...|.+.|++++|...+++. ...| +...|..+...+...|++++|...++++.+.+|.++.++..+..++.+
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~   89 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQK   89 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHh
Confidence            45566666777777777777777766 2234 477788888888889999999999999999888888888888887765


Q ss_pred             cC
Q 043490          429 SG  430 (589)
Q Consensus       429 ~g  430 (589)
                      .|
T Consensus        90 ~g   91 (91)
T 1na3_A           90 QG   91 (91)
T ss_dssp             HC
T ss_pred             cC
Confidence            54

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.63  E-value=0.00024  Score=55.39  Aligned_cols=64  Identities=14%  Similarity=0.051  Sum_probs=60.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          381 DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       381 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      +...|..+...+...|++++|+..++++++.+|.++.+|..++.+|...|++++|...+++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4788999999999999999999999999999999999999999999999999999999998765

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.53  E-value=0.00041  Score=71.03  Aligned_cols=114  Identities=12%  Similarity=0.031  Sum_probs=87.2

Q ss_pred             HHhhcCCHHHHHHHHHhC---------CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhh-----cCCCCh---hHHH
Q 043490          359 LLGRVGRILEAEKLIREM---------PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQ-----LEPGDS---LGFV  420 (589)
Q Consensus       359 ~~~~~g~~~~A~~~~~~m---------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~p~~~---~~~~  420 (589)
                      .+...|++++|+.++++.         +-.|+ ..+++.|..+|...|++++|+.+++++++     ++|+++   .+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            456789999999998776         23344 67899999999999999999999999875     455554   4578


Q ss_pred             HHHHHhhhcCChHHHHHHHHHHhcCCCccCCceeeEEECCEEEEEeeCCCCCccHHHHHHHHHHHHHHHH
Q 043490          421 QMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLK  490 (589)
Q Consensus       421 ~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~m~  490 (589)
                      .|+.+|...|++++|..++++..+--..                 .. ...||...++...+.+...+++
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~-----------------~l-G~~Hp~~~~~~~~l~~~~~e~~  449 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLV-----------------TH-GPSHPITKDLEAMRMQTEMELR  449 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHH-----------------HT-CTTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHH-----------------Hh-CCCChHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999987642110                 11 2468988888777766665554

>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=97.47  E-value=0.00052  Score=69.17  Aligned_cols=116  Identities=12%  Similarity=0.127  Sum_probs=88.9

Q ss_pred             HHHHhhcCCHHHHHHHHHhC---------CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhh-----cCCCCh---hH
Q 043490          357 VDLLGRVGRILEAEKLIREM---------PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQ-----LEPGDS---LG  418 (589)
Q Consensus       357 i~~~~~~g~~~~A~~~~~~m---------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~p~~~---~~  418 (589)
                      +..+.+.|++++|++++++.         +..|+ ..+++.|..+|...|++++|+.+++++++     ++|.++   .+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            45566788999999888765         12233 56889999999999999999999999875     345444   45


Q ss_pred             HHHHHHHhhhcCChHHHHHHHHHHhcCCCccCCceeeEEECCEEEEEeeCCCCCccHHHHHHHHHHHHHHHH
Q 043490          419 FVQMSNIYCLSGSFNKARLIRKEMKGSRVRKYPGLSWIEIENRVHEFASGGKRHPQREAIFKKLEELIGQLK  490 (589)
Q Consensus       419 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~m~  490 (589)
                      +..|+.+|...|++++|..++++..+--.                  ..-...||...++...|.+...+|+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i~~------------------~~lG~~Hp~~~~~~~~l~~~~~e~~  427 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDIMR------------------VTHGREHSLIEDLILLLEECDANIR  427 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHH------------------HHTCTTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHH------------------HhcCCCChHHHHHHHHHHHHHHHHh
Confidence            78999999999999999999998764211                  0113479999998888888877775

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.46  E-value=0.0012  Score=67.37  Aligned_cols=140  Identities=14%  Similarity=0.056  Sum_probs=85.1

Q ss_pred             hhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCC
Q 043490          168 VISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGF  247 (589)
Q Consensus       168 ~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~  247 (589)
                      ...|..+...|             .+.|++++|+..|++..+..  |+...          .. -+...++-        
T Consensus       268 a~~~~~~G~~~-------------~~~g~~~~A~~~y~~Al~~~--p~~~~----------~~-~~~~~~~~--------  313 (457)
T 1kt0_A          268 AAIVKEKGTVY-------------FKGGKYMQAVIQYGKIVSWL--EMEYG----------LS-EKESKASE--------  313 (457)
T ss_dssp             HHHHHHHHHHH-------------HHTTCHHHHHHHHHHHHHHH--TTCCS----------CC-HHHHHHHH--------
T ss_pred             HHHHHHHHHHH-------------HhCCCHHHHHHHHHHHHHHh--ccccc----------CC-hHHHHHHH--------
Confidence            34566777777             88889999999988887632  22100          00 01100000        


Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCH-HHHHHHHH
Q 043490          248 EDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPDS-ATFVSLLS  322 (589)
Q Consensus       248 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-~t~~~ll~  322 (589)
                      +....+|..+..+|.+.|++++|...|++..   ..+..+|..+..+|...|++++|+..|++. .+.|+. ..+..+..
T Consensus       314 ~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~  393 (457)
T 1kt0_A          314 SFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISM  393 (457)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            1123456667777777777777777777665   345667777777777778888888888777 666643 45666666


Q ss_pred             HHhccCcHHHHH-HHHHHhH
Q 043490          323 ACSHAGLVQEGN-KVFHSML  341 (589)
Q Consensus       323 a~~~~g~~~~a~-~~~~~~~  341 (589)
                      ++...++.+++. ..+..|.
T Consensus       394 ~~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          394 CQKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            666777776655 3444443

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.45  E-value=0.00036  Score=69.09  Aligned_cols=65  Identities=8%  Similarity=-0.049  Sum_probs=60.9

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          381 DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       381 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      +...|..+..+|.+.|++++|+..++++++++|.++.+|..++.+|...|++++|...+++..+.
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l  336 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  336 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            36788899999999999999999999999999999999999999999999999999999988764

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.44  E-value=8.3e-05  Score=62.68  Aligned_cols=86  Identities=12%  Similarity=0.062  Sum_probs=67.4

Q ss_pred             hhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCC----------HHHHHHHHHHHhhcCCCChhHHHHHHHHhhh
Q 043490          361 GRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGE----------TRLAELAATKLKQLEPGDSLGFVQMSNIYCL  428 (589)
Q Consensus       361 ~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~----------~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  428 (589)
                      .|.+++++|.+.+++. ...| +...|..+..++...++          +++|+..|+++++++|++..+|..+.++|..
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~   92 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTS   92 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHH
Confidence            3455667777776666 3344 46667666666666654          5699999999999999999999999999998


Q ss_pred             cC-----------ChHHHHHHHHHHhcCC
Q 043490          429 SG-----------SFNKARLIRKEMKGSR  446 (589)
Q Consensus       429 ~g-----------~~~~a~~~~~~m~~~~  446 (589)
                      .|           ++++|.+.|++..+.+
T Consensus        93 lg~l~P~~~~a~g~~~eA~~~~~kAl~l~  121 (158)
T 1zu2_A           93 FAFLTPDETEAKHNFDLATQFFQQAVDEQ  121 (158)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             hcccCcchhhhhccHHHHHHHHHHHHHhC
Confidence            75           8999999999988654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.36  E-value=0.0013  Score=50.32  Aligned_cols=69  Identities=16%  Similarity=0.002  Sum_probs=61.3

Q ss_pred             CCHHHHHHHHHHHHHcCC---HHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCCc
Q 043490          380 PDSVIWSVLLGSCRKHGE---TRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVR  448 (589)
Q Consensus       380 p~~~~~~~ll~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  448 (589)
                      +|...+..+..++...++   .++|..+++++++.+|.++.+...+...+.+.|++++|+..|+++.+.+..
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            467888888888865555   799999999999999999999999999999999999999999999887653

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.31  E-value=0.00084  Score=52.85  Aligned_cols=67  Identities=15%  Similarity=0.061  Sum_probs=61.9

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          380 PDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       380 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      ++...|..+...+...|++++|...++++++..|.++..+..++.+|.+.|++++|...+++..+..
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   68 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT   68 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            3567788899999999999999999999999999999999999999999999999999999988654

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.16  E-value=0.0052  Score=50.95  Aligned_cols=112  Identities=8%  Similarity=-0.113  Sum_probs=87.3

Q ss_pred             CcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHH
Q 043490          328 GLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRK----HGETRLAEL  403 (589)
Q Consensus       328 g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~----~g~~~~a~~  403 (589)
                      +++++|.++|+...+. |   +....  |..+|...+.+++|.+.|++.--.-+...+..|...|..    .+++++|..
T Consensus         9 ~d~~~A~~~~~~aa~~-g---~~~a~--lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~   82 (138)
T 1klx_A            9 KDLKKAIQYYVKACEL-N---EMFGC--LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQ   82 (138)
T ss_dssp             HHHHHHHHHHHHHHHT-T---CTTHH--HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHH
T ss_pred             cCHHHHHHHHHHHHcC-C---CHhhh--HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHH
Confidence            4678888888877553 3   22233  777777778888888888887223467788888888887    789999999


Q ss_pred             HHHHHhhcCCCChhHHHHHHHHhhh----cCChHHHHHHHHHHhcCCC
Q 043490          404 AATKLKQLEPGDSLGFVQMSNIYCL----SGSFNKARLIRKEMKGSRV  447 (589)
Q Consensus       404 ~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~  447 (589)
                      .+++..+.  .++.++..|..+|..    .+++++|.+.+++..+.|.
T Consensus        83 ~~~~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           83 YYSKACGL--NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcC--CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            99998876  367888899999988    8999999999998887765

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.15  E-value=0.00047  Score=58.06  Aligned_cols=86  Identities=14%  Similarity=0.102  Sum_probs=57.3

Q ss_pred             CcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCC----------HHHHHHHHHhC-CCCCC-HHHHHHHHHHHHH
Q 043490          328 GLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGR----------ILEAEKLIREM-PMEPD-SVIWSVLLGSCRK  394 (589)
Q Consensus       328 g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~----------~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~  394 (589)
                      +.+++|.+.++..++.   .| +...|..+..++...++          +++|+..|++. .+.|+ ...|..+..+|..
T Consensus        16 ~~feeA~~~~~~Ai~l---~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~   92 (158)
T 1zu2_A           16 LLFEQIRQDAENTYKS---NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTS   92 (158)
T ss_dssp             HHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHH
Confidence            4455555555555432   23 34455555555555444          45777777776 55665 6778888888877


Q ss_pred             c-----------CCHHHHHHHHHHHhhcCCCCh
Q 043490          395 H-----------GETRLAELAATKLKQLEPGDS  416 (589)
Q Consensus       395 ~-----------g~~~~a~~~~~~~~~~~p~~~  416 (589)
                      .           |++++|++.|+++++++|++.
T Consensus        93 lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~  125 (158)
T 1zu2_A           93 FAFLTPDETEAKHNFDLATQFFQQAVDEQPDNT  125 (158)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             hcccCcchhhhhccHHHHHHHHHHHHHhCCCCH
Confidence            6           489999999999999999764

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.07  E-value=0.002  Score=48.40  Aligned_cols=64  Identities=19%  Similarity=0.251  Sum_probs=59.7

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          382 SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       382 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      ...|..+...+...|++++|...++++.+..|.++.++..++.+|.+.|++++|...+++..+.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            5678888899999999999999999999999999999999999999999999999999988764

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.06  E-value=0.0016  Score=65.45  Aligned_cols=83  Identities=8%  Similarity=-0.066  Sum_probs=66.8

Q ss_pred             hcCCHHHHHHHHHhC---------CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhh-----cCCCCh---hHHHHHH
Q 043490          362 RVGRILEAEKLIREM---------PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQ-----LEPGDS---LGFVQMS  423 (589)
Q Consensus       362 ~~g~~~~A~~~~~~m---------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~p~~~---~~~~~l~  423 (589)
                      ..|++++|+.++++.         +-.|+ ..+++.|..+|...|++++|+.+++++++     ++|+++   .+++.|+
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            346788888887665         23344 57889999999999999999999999875     445444   4588999


Q ss_pred             HHhhhcCChHHHHHHHHHHhc
Q 043490          424 NIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       424 ~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      .+|...|++++|..++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999998764

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.05  E-value=0.013  Score=48.52  Aligned_cols=106  Identities=11%  Similarity=0.032  Sum_probs=61.1

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHh----cCCHHHH
Q 043490          195 KNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYAR----CGSISLS  270 (589)
Q Consensus       195 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~A  270 (589)
                      +++++|++.|++..+.| .|+..    +-..+...+..+.|.+.+....+.|   +...+..|..+|..    .+++++|
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            34566777777766665 33333    4444555556666777777666654   45556666666666    5666666


Q ss_pred             HHHHhhcC-CCChhHHHHHHHHHHH----cCCHHHHHHHHHhC
Q 043490          271 KQVFDKMT-YHDLVSWNSILKAYAL----HGQAKEALQLFSNM  308 (589)
Q Consensus       271 ~~~~~~~~-~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m  308 (589)
                      .+.|++.. ..+..++..|...|..    .++.++|++.|++.
T Consensus        81 ~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~A  123 (138)
T 1klx_A           81 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKA  123 (138)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHH
Confidence            66666554 2344555555555555    45555555555544

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.02  E-value=0.051  Score=56.86  Aligned_cols=167  Identities=11%  Similarity=0.064  Sum_probs=111.3

Q ss_pred             HcCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhCcCc----------HHHHHHHHHHHHHhCCCCcHHHHHHHHHHH
Q 043490          193 KMKNEEEALFLFRQLQREGMAPDW-CTFSIVLKACAGLVT----------ERHASAVHSLIAKYGFEDDTVIANALIHAY  261 (589)
Q Consensus       193 ~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~~~----------~~~a~~i~~~~~~~g~~~~~~~~~~li~~~  261 (589)
                      .....++|++.++++...  .|+. ..|+.--.++...++          ++++.+.++.+++.. +-+..+|+.-.-.+
T Consensus        41 ~~~~~eeal~~~~~~l~~--nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l  117 (567)
T 1dce_A           41 AGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLL  117 (567)
T ss_dssp             TTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            334557889999998875  3443 345444444444455          888888888888876 66777888777778


Q ss_pred             HhcC--CHHHHHHHHhhcC---CCChhHHHHHHHHHHHcC-CHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhcc------
Q 043490          262 ARCG--SISLSKQVFDKMT---YHDLVSWNSILKAYALHG-QAKEALQLFSNM-NVQP-DSATFVSLLSACSHA------  327 (589)
Q Consensus       262 ~~~g--~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~------  327 (589)
                      .+.|  +++++.+.++++.   .+|..+|+.-...+.+.| .++++++.++++ ...| |..+|+.....+.+.      
T Consensus       118 ~~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~  197 (567)
T 1dce_A          118 SRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDS  197 (567)
T ss_dssp             HTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCS
T ss_pred             HHcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccc
Confidence            8888  6788988888887   456778888888888888 788888888888 6666 455666555554432      


Q ss_pred             --------CcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCC
Q 043490          328 --------GLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGR  365 (589)
Q Consensus       328 --------g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~  365 (589)
                              +.++++.+.+......   .| +...|..+-..+.+.++
T Consensus       198 ~~~~~~~~~~~~eel~~~~~ai~~---~P~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          198 GPQGRLPENVLLKELELVQNAFFT---DPNDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             SSCCSSCHHHHHHHHHHHHHHHHH---CSSCSHHHHHHHHHHSCCCC
T ss_pred             cccccccHHHHHHHHHHHHHHHhh---CCCCccHHHHHHHHHhcCCC
Confidence                    3455555555555432   23 34445555555544444

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.95  E-value=0.0023  Score=50.91  Aligned_cols=78  Identities=15%  Similarity=0.069  Sum_probs=53.6

Q ss_pred             HHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Q 043490          333 GNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLK  409 (589)
Q Consensus       333 a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  409 (589)
                      +.+.|+...+   ..| +...+..+...|.+.|++++|+..|++. ...| +...|..+..++...|++++|...++++.
T Consensus         4 a~~~~~~al~---~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            4 ITERLEAMLA---QGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             HHHHHHHHHT---TTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH---hCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4455555543   233 4456666777777777777777777766 3334 36777788888888888888888888888


Q ss_pred             hcCC
Q 043490          410 QLEP  413 (589)
Q Consensus       410 ~~~p  413 (589)
                      +..|
T Consensus        81 ~~~~   84 (115)
T 2kat_A           81 AAAQ   84 (115)
T ss_dssp             HHHH
T ss_pred             Hhcc
Confidence            7765

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.94  E-value=0.0056  Score=61.53  Aligned_cols=93  Identities=11%  Similarity=-0.086  Sum_probs=63.9

Q ss_pred             cCcHHHHHHHHHHhHHhcC--CccC----cchHHHHHHHHhhcCCHHHHHHHHHhC---------CCCCC-HHHHHHHHH
Q 043490          327 AGLVQEGNKVFHSMLENHG--VVPQ----LDHYACMVDLLGRVGRILEAEKLIREM---------PMEPD-SVIWSVLLG  390 (589)
Q Consensus       327 ~g~~~~a~~~~~~~~~~~~--~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m---------~~~p~-~~~~~~ll~  390 (589)
                      .|++++|..++++.++...  +.|+    ..+++.|..+|...|++++|+.++++.         +..|+ ..+++.|..
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            4566777766665544221  1121    235677777777777777777777665         33455 667899999


Q ss_pred             HHHHcCCHHHHHHHHHHHhh-----cCCCChhHH
Q 043490          391 SCRKHGETRLAELAATKLKQ-----LEPGDSLGF  419 (589)
Q Consensus       391 ~~~~~g~~~~a~~~~~~~~~-----~~p~~~~~~  419 (589)
                      .|...|++++|+.+++++++     ++|+.+.+-
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~~  424 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIAIMEVAHGKDHPYIS  424 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHHHHHHHcCCCChHHH
Confidence            99999999999999999875     567666543

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.87  E-value=0.01  Score=59.71  Aligned_cols=100  Identities=12%  Similarity=-0.059  Sum_probs=66.0

Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhcC--CccC----cchHHHHHHHHhhcCCHHHHHHHHHhC---------CCCCC-HHH
Q 043490          321 LSACSHAGLVQEGNKVFHSMLENHG--VVPQ----LDHYACMVDLLGRVGRILEAEKLIREM---------PMEPD-SVI  384 (589)
Q Consensus       321 l~a~~~~g~~~~a~~~~~~~~~~~~--~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m---------~~~p~-~~~  384 (589)
                      +..+...|++++|..+++...+...  +.|+    ..+++.|..+|...|++++|+.++++.         +..|+ ..+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            3344455666777666666543211  1111    235666677777777777777777655         33455 667


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhh-----cCCCChhHHH
Q 043490          385 WSVLLGSCRKHGETRLAELAATKLKQ-----LEPGDSLGFV  420 (589)
Q Consensus       385 ~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~~~~  420 (589)
                      ++.|...|...|++++|+.+++++++     ++|+.+.+-.
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~  414 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIED  414 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHH
Confidence            88899999999999999999998875     5676665543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.82  E-value=0.044  Score=60.24  Aligned_cols=110  Identities=15%  Similarity=0.094  Sum_probs=79.5

Q ss_pred             HHHhcCChHHHHH-HHhcCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHH
Q 043490           51 MYAKFGYLDDARH-LFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALA  129 (589)
Q Consensus        51 ~~~~~g~~~~A~~-~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~  129 (589)
                      .....+++++|.+ ++..++  +......++..+.+.|.+++|+++.+.-.                             
T Consensus       608 ~~~~~~~~~~a~~~~l~~i~--~~~~~~~~~~~l~~~~~~~~a~~~~~~~~-----------------------------  656 (814)
T 3mkq_A          608 TLTLRGEIEEAIENVLPNVE--GKDSLTKIARFLEGQEYYEEALNISPDQD-----------------------------  656 (814)
T ss_dssp             HHHHTTCHHHHHHHTGGGCC--CHHHHHHHHHHHHHTTCHHHHHHHCCCHH-----------------------------
T ss_pred             HHHHhCCHHHHHHHHHhcCC--chHHHHHHHHHHHhCCChHHheecCCCcc-----------------------------
Confidence            3345788888888 665544  11223677777788888888876653211                             


Q ss_pred             HHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHH
Q 043490          130 LKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQ  206 (589)
Q Consensus       130 ~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~  206 (589)
                                   .-...+.. |++++|.++.+.+.  +...|..+...+.+.++++.|.++|.+.|+++.+..++..
T Consensus       657 -------------~~f~~~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d~~~l~~l~~~  719 (814)
T 3mkq_A          657 -------------QKFELALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHDLESLFLLHSS  719 (814)
T ss_dssp             -------------HHHHHHHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             -------------hheehhhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccChhhhHHHHHH
Confidence                         11234556 99999999988774  5678999999999999999999999999988887776653

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.67  E-value=0.036  Score=53.52  Aligned_cols=45  Identities=18%  Similarity=0.195  Sum_probs=25.1

Q ss_pred             CChhHHHHHHHHHH--HcCC---HHHHHHHHHhC-CCCCCH-HHHHHHHHHH
Q 043490          280 HDLVSWNSILKAYA--LHGQ---AKEALQLFSNM-NVQPDS-ATFVSLLSAC  324 (589)
Q Consensus       280 ~~~~~~~~li~~~~--~~g~---~~~A~~~~~~m-~~~p~~-~t~~~ll~a~  324 (589)
                      .+..+|...+.+..  ..+.   ..+|..+|++. ...|+. ..+..+.-++
T Consensus       192 ~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~~a~A~A~la~a~  243 (372)
T 3ly7_A          192 HRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPEFTYARAEKALVD  243 (372)
T ss_dssp             SSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            45556666655433  2232   46788888888 777763 3444433333

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.66  E-value=0.0077  Score=46.13  Aligned_cols=79  Identities=16%  Similarity=0.105  Sum_probs=59.1

Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCC-CHH-HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCCh
Q 043490          356 MVDLLGRVGRILEAEKLIREM-PMEP-DSV-IWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSF  432 (589)
Q Consensus       356 li~~~~~~g~~~~A~~~~~~m-~~~p-~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  432 (589)
                      ....+.+.|++++|.+.|++. ...| +.. .|..+..++...|++++|...++++++.+|.+..++..        +.+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--------~~~   77 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQAR--------KMV   77 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHH--------HHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHH--------HHH
Confidence            455677788888888888877 3345 466 88888899999999999999999999999988776632        445


Q ss_pred             HHHHHHHHHH
Q 043490          433 NKARLIRKEM  442 (589)
Q Consensus       433 ~~a~~~~~~m  442 (589)
                      .++...+++.
T Consensus        78 ~~a~~~~~~~   87 (99)
T 2kc7_A           78 MDILNFYNKD   87 (99)
T ss_dssp             HHHHHHHCCT
T ss_pred             HHHHHHHHHH
Confidence            5555555443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.51  E-value=0.0079  Score=46.44  Aligned_cols=62  Identities=21%  Similarity=0.259  Sum_probs=42.5

Q ss_pred             ChhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcC
Q 043490            4 STQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEM   68 (589)
Q Consensus         4 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m   68 (589)
                      ++.++..+...+...|++++|...++.+++..|   .+..++..+...|.+.|++++|.+.|++.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p---~~~~a~~~lg~~~~~~g~~~~A~~~~~~a   67 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDP---DYVGTYYHLGKLYERLDRTDDAIDTYAQG   67 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST---TCTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            445566666777777777777777777776655   55666777777777777777777776654

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.48  E-value=0.0069  Score=46.42  Aligned_cols=59  Identities=20%  Similarity=0.149  Sum_probs=54.0

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhcCCCChh-HHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          388 LLGSCRKHGETRLAELAATKLKQLEPGDSL-GFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       388 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~-~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      ....+...|++++|...++++++.+|.++. .+..++.+|...|++++|.+.+++..+.+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            455678899999999999999999999999 99999999999999999999999987654

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.41  E-value=0.16  Score=40.67  Aligned_cols=139  Identities=9%  Similarity=-0.006  Sum_probs=91.4

Q ss_pred             HcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHH
Q 043490          294 LHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLI  373 (589)
Q Consensus       294 ~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  373 (589)
                      -.|..++..++..+.--..+..-|+.++.-....-+-+-..++++.+-+-+    |          ...+|++.....-+
T Consensus        19 ldG~v~qGveii~k~~~ssni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiF----D----------is~C~NlKrVi~C~   84 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITKSSTKSEYNWFICNLLESIDCRYMFQVLDKIGSYF----D----------LDKCQNLKSVVECG   84 (172)
T ss_dssp             HTTCHHHHHHHHHHHHHHSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGS----C----------GGGCSCTHHHHHHH
T ss_pred             HhhhHHHHHHHHHHHcCCCCccccceeeeecchhhchhHHHHHHHHHhhhc----C----------cHhhhcHHHHHHHH
Confidence            345555666655555111122334434333333334444444444442222    2          23466666666666


Q ss_pred             HhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCCc
Q 043490          374 REMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVR  448 (589)
Q Consensus       374 ~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  448 (589)
                      -.++  .+.......+......|+-+.-.++...+...++.++....-++++|.+.|+..+|.+++.+.-++|++
T Consensus        85 ~~~n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           85 VINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHhc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            6664  355566777888999999999999999987777778999999999999999999999999999999985

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.41  E-value=0.048  Score=59.89  Aligned_cols=48  Identities=25%  Similarity=0.269  Sum_probs=32.2

Q ss_pred             HHHhcCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHH
Q 043490           51 MYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLL  100 (589)
Q Consensus        51 ~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  100 (589)
                      ....+|++++|.++-+.+.  +...|..|...+.+.|+++.|.+.|.++.
T Consensus       661 ~~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~  708 (814)
T 3mkq_A          661 LALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAH  708 (814)
T ss_dssp             HHHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             hhhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHcc
Confidence            3455667777776666553  45677777777777777777777777654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.25  E-value=0.027  Score=46.75  Aligned_cols=66  Identities=6%  Similarity=-0.138  Sum_probs=50.7

Q ss_pred             CCHHHHHHHHHHHHHcC---CHHHHHHHHHHHhhcC-C-CChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          380 PDSVIWSVLLGSCRKHG---ETRLAELAATKLKQLE-P-GDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       380 p~~~~~~~ll~~~~~~g---~~~~a~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      ++..+.-.+..++.+.+   +.++++.+++.+.+.+ | .+...+..|.-+|.+.|++++|++.++.+.+.
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~i  100 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQT  100 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            56777777777777777   5568888888888877 5 34667778888888888888888888887763

>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=95.87  E-value=0.074  Score=51.40  Aligned_cols=149  Identities=9%  Similarity=-0.009  Sum_probs=70.0

Q ss_pred             CCCHHHHHHHHHHHh-----CcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHH
Q 043490          213 APDWCTFSIVLKACA-----GLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNS  287 (589)
Q Consensus       213 ~p~~~t~~~ll~a~~-----~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  287 (589)
                      +.+...|...+.+..     ...+..+|..+|+++++.. |.....+..+.-+|.-       ...+.   ..+..... 
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lD-P~~a~A~A~la~a~~~-------~~~~~---~~~~~~~~-  258 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSS-PEFTYARAEKALVDIV-------RHSQH---PLDEKQLA-  258 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH-------HHHHS---CCCHHHHH-
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH-------HhccC---CCchhhHH-
Confidence            455566666666543     2334677888888888774 4444555544444430       00000   00000000 


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCH
Q 043490          288 ILKAYALHGQAKEALQLFSNM-NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRI  366 (589)
Q Consensus       288 li~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  366 (589)
                               ....+.+....+ ....+..+|..+...+...|++++|...++++...   .|+...|..+...+.-.|++
T Consensus       259 ---------~l~~a~~a~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~L---n~s~~a~~llG~~~~~~G~~  326 (372)
T 3ly7_A          259 ---------ALNTEIDNIVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDL---EMSWLNYVLLGKVYEMKGMN  326 (372)
T ss_dssp             ---------HHHHHHHHHHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCCHHHHHHHHHHHHHTTCH
T ss_pred             ---------HHHHHHHHHHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc---CCCHHHHHHHHHHHHHCCCH
Confidence                     001122211222 22334445554444444446666666666655433   24444444555555556666


Q ss_pred             HHHHHHHHhC-CCCCCHHHH
Q 043490          367 LEAEKLIREM-PMEPDSVIW  385 (589)
Q Consensus       367 ~~A~~~~~~m-~~~p~~~~~  385 (589)
                      ++|.+.|++. .+.|...+|
T Consensus       327 ~eA~e~~~~AlrL~P~~~t~  346 (372)
T 3ly7_A          327 REAADAYLTAFNLRPGANTL  346 (372)
T ss_dssp             HHHHHHHHHHHHHSCSHHHH
T ss_pred             HHHHHHHHHHHhcCCCcChH
Confidence            6666666554 344554443

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=95.71  E-value=0.044  Score=50.80  Aligned_cols=86  Identities=13%  Similarity=0.174  Sum_probs=68.4

Q ss_pred             HHHHHHHHHhC-CCCCC---HHHHHHHHHHHHH-----cCCHHHHHHHHHHHhhcCCCC-hhHHHHHHHHhhhc-CChHH
Q 043490          366 ILEAEKLIREM-PMEPD---SVIWSVLLGSCRK-----HGETRLAELAATKLKQLEPGD-SLGFVQMSNIYCLS-GSFNK  434 (589)
Q Consensus       366 ~~~A~~~~~~m-~~~p~---~~~~~~ll~~~~~-----~g~~~~a~~~~~~~~~~~p~~-~~~~~~l~~~~~~~-g~~~~  434 (589)
                      ..+|...+++. .+.|+   ...|..|...|..     -|+.++|.+.|++.++++|+. ..++......++.. |+.++
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            34455555544 44565   5678888888888     499999999999999999964 99999999999985 99999


Q ss_pred             HHHHHHHHhcCCCccCC
Q 043490          435 ARLIRKEMKGSRVRKYP  451 (589)
Q Consensus       435 a~~~~~~m~~~~~~~~~  451 (589)
                      +.+.+++.........|
T Consensus       259 a~~~L~kAL~a~p~~~P  275 (301)
T 3u64_A          259 FDEALDRALAIDPESVP  275 (301)
T ss_dssp             HHHHHHHHHHCCGGGCS
T ss_pred             HHHHHHHHHcCCCCCCC
Confidence            99999999887665434

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.51  E-value=0.067  Score=41.48  Aligned_cols=68  Identities=13%  Similarity=0.088  Sum_probs=46.4

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC-----C----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHH
Q 043490          355 CMVDLLGRVGRILEAEKLIREM-----P----MEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQM  422 (589)
Q Consensus       355 ~li~~~~~~g~~~~A~~~~~~m-----~----~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  422 (589)
                      .|...+.+.|+++.|...|+..     +    -.+...++..|..++.+.|+++.|...++++.++.|.+..+...+
T Consensus        10 ~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~n~   86 (104)
T 2v5f_A           10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNL   86 (104)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHhhH
Confidence            3444444444444444444433     0    023467888899999999999999999999999999887664444

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.46  E-value=0.051  Score=41.17  Aligned_cols=66  Identities=14%  Similarity=-0.007  Sum_probs=49.0

Q ss_pred             CcchHHHHHHHHhhcCC---HHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC
Q 043490          349 QLDHYACMVDLLGRVGR---ILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPG  414 (589)
Q Consensus       349 ~~~~~~~li~~~~~~g~---~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  414 (589)
                      +...+..+..++...++   .++|..++++. ...|+ +..+..+...+...|++++|+..++++++.+|+
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            45556666666654443   67788887777 44554 777777888888999999999999999998886

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.39  E-value=0.14  Score=43.65  Aligned_cols=51  Identities=20%  Similarity=0.367  Sum_probs=39.6

Q ss_pred             HHHHHhcCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHHh
Q 043490           49 INMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQ  101 (589)
Q Consensus        49 i~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  101 (589)
                      ......+|+++.|.++-+++  .+...|..|.....+.|+++-|.+.|.....
T Consensus        12 F~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D   62 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS   62 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC
T ss_pred             HHHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC
Confidence            34455788888888887766  3567888888888888888888888877653

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.04  E-value=0.88  Score=38.71  Aligned_cols=129  Identities=14%  Similarity=0.144  Sum_probs=84.7

Q ss_pred             HHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHH
Q 043490          259 HAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFH  338 (589)
Q Consensus       259 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  338 (589)
                      +....+|+++.|.++-+.+  .+...|..+......+|+.+-|.+.|++.+   |   |..+.-.|...|+.+.-.++-+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~---D---~~~L~~Ly~~tg~~e~L~kla~   84 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQH---S---FDKLSFLYLVTGDVNKLSKMQN   84 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT---C---HHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhC---C---HHHHHHHHHHhCCHHHHHHHHH
Confidence            3455788888888887766  466788888888888899888888888872   1   2333334444566666555443


Q ss_pred             HhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 043490          339 SMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKL  408 (589)
Q Consensus       339 ~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  408 (589)
                      ....+ |      -++.....+.-.|+++++.+++.+.+.-|....      ....+|-.+.|.++.+.+
T Consensus        85 iA~~~-g------~~n~af~~~l~lGdv~~~i~lL~~~~r~~eA~~------~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           85 IAQTR-E------DFGSMLLNTFYNNSTKERSSIFAEGGSLPLAYA------VAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHH------HHHHTTCHHHHHHHHHHT
T ss_pred             HHHHC-c------cHHHHHHHHHHcCCHHHHHHHHHHCCChHHHHH------HHHHcCcHHHHHHHHHHh
Confidence            33221 1      355666677788999999999988864333222      123466777777776655

>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=94.94  E-value=4.3  Score=42.46  Aligned_cols=111  Identities=13%  Similarity=0.040  Sum_probs=54.0

Q ss_pred             CHHHHHHHHHhC--CCCCCHHHH----HHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHH
Q 043490          297 QAKEALQLFSNM--NVQPDSATF----VSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAE  370 (589)
Q Consensus       297 ~~~~A~~~~~~m--~~~p~~~t~----~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  370 (589)
                      +.+.|...|...  ....+....    ..+.......+...++...+......   .++.....-.+..-.+.|+++.|.
T Consensus       229 d~~~A~~~~~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~e~~~r~Alr~~d~~~a~  305 (618)
T 1qsa_A          229 DAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRGLN  305 (618)
T ss_dssp             CHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CHHHHHHHHHhhhhccCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc---CCChHHHHHHHHHHHHCCCHHHHH
Confidence            667777777666  112222222    22222233334234444444443221   122222333333444667777777


Q ss_pred             HHHHhCCCCC-C-HHHHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 043490          371 KLIREMPMEP-D-SVIWSVLLGSCRKHGETRLAELAATKLKQ  410 (589)
Q Consensus       371 ~~~~~m~~~p-~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  410 (589)
                      ..|+.|+..+ + ....-=+..+....|+.++|..+|+.+.+
T Consensus       306 ~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          306 TWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            7777774332 2 22112233455667777777777777754

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=94.44  E-value=0.15  Score=42.37  Aligned_cols=89  Identities=19%  Similarity=0.011  Sum_probs=60.0

Q ss_pred             cHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcC---CHHHHHHHHHhC-CCC-C--CHHHHHHHHHHHHHcCCHHHH
Q 043490          329 LVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVG---RILEAEKLIREM-PME-P--DSVIWSVLLGSCRKHGETRLA  401 (589)
Q Consensus       329 ~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m-~~~-p--~~~~~~~ll~~~~~~g~~~~a  401 (589)
                      ....+++-|....+. + .++..+...+.-++++.+   +++++..++++. ... |  ....+-.|.-+|.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~-~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHT-T-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHH
Confidence            344455555544332 2 255566666666677766   555777777666 222 5  255666677888999999999


Q ss_pred             HHHHHHHhhcCCCChhHH
Q 043490          402 ELAATKLKQLEPGDSLGF  419 (589)
Q Consensus       402 ~~~~~~~~~~~p~~~~~~  419 (589)
                      .+.++.+++.+|++..+.
T Consensus        91 ~~y~~~lL~ieP~n~QA~  108 (152)
T 1pc2_A           91 LKYVRGLLQTEPQNNQAK  108 (152)
T ss_dssp             HHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHHhcCCCCHHHH
Confidence            999999999999876543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=93.81  E-value=0.35  Score=38.57  Aligned_cols=65  Identities=5%  Similarity=-0.205  Sum_probs=32.1

Q ss_pred             CCHHHHHHHHHHHHHcCCHHH---HHHHHHHHhhcC-C-CChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          380 PDSVIWSVLLGSCRKHGETRL---AELAATKLKQLE-P-GDSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       380 p~~~~~~~ll~~~~~~g~~~~---a~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      |+..+--.+..++.+..+...   ++.+++.+.+.+ | ........|+-+|.+.|++++|.+.++.+.+
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~  102 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ  102 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            344444444444544444433   555555555544 2 2233344555555666666666666555544

>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=93.59  E-value=0.36  Score=44.69  Aligned_cols=111  Identities=14%  Similarity=0.156  Sum_probs=58.1

Q ss_pred             hcCCHHHHHHHHhhcCCCCh--hHHHHHHHH-HHHc--CC------HHHHHHHHHhC-CCCCC---HHHHHHHHHHHhcc
Q 043490          263 RCGSISLSKQVFDKMTYHDL--VSWNSILKA-YALH--GQ------AKEALQLFSNM-NVQPD---SATFVSLLSACSHA  327 (589)
Q Consensus       263 ~~g~~~~A~~~~~~~~~~~~--~~~~~li~~-~~~~--g~------~~~A~~~~~~m-~~~p~---~~t~~~ll~a~~~~  327 (589)
                      +.|+..+-.+.+.+..+.++  ..|..++.+ ++..  |.      ..+|...+++. .+.|+   ...|..+...|...
T Consensus       133 ~~~~~~~~~~~l~~~~~~dve~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~v  212 (301)
T 3u64_A          133 FSGDEQRLHKVLSRCTRVDVGTLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAA  212 (301)
T ss_dssp             TSSCHHHHHHHHTTCCGGGHHHHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHS
T ss_pred             HhcchhhHHHHHHHcCccccHHHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhC
Confidence            34444455555555554333  355555442 3332  22      34455555555 56665   34555565556553


Q ss_pred             -----CcHHHHHHHHHHhHHhcCCcc--CcchHHHHHHHHhhc-CCHHHHHHHHHhC
Q 043490          328 -----GLVQEGNKVFHSMLENHGVVP--QLDHYACMVDLLGRV-GRILEAEKLIREM  376 (589)
Q Consensus       328 -----g~~~~a~~~~~~~~~~~~~~p--~~~~~~~li~~~~~~-g~~~~A~~~~~~m  376 (589)
                           |+.++|.+.|++.++   +.|  +..++....+.|++. |+.++|.+.+++.
T Consensus       213 Pp~~gGd~ekA~~~ferAL~---LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kA  266 (301)
T 3u64_A          213 PESFGGGMEKAHTAFEHLTR---YCSAHDPDHHITYADALCIPLNNRAGFDEALDRA  266 (301)
T ss_dssp             CTTTTCCHHHHHHHHHHHHH---HCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHH
T ss_pred             CCccCCCHHHHHHHHHHHHH---hCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence                 666666666666553   244  245555555555553 6666666666554

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=93.19  E-value=0.4  Score=36.90  Aligned_cols=65  Identities=14%  Similarity=-0.021  Sum_probs=54.7

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC-------CCChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          381 DSVIWSVLLGSCRKHGETRLAELAATKLKQLE-------PGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       381 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-------p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      +..-+-.|...+...|+++.|...++.+.+..       +....++..|+.+|.+.|++++|...+++..+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            45556678889999999999999999988742       345677899999999999999999999988753

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=91.99  E-value=0.79  Score=48.94  Aligned_cols=54  Identities=13%  Similarity=0.090  Sum_probs=50.4

Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHh
Q 043490          390 GSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMK  443 (589)
Q Consensus       390 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  443 (589)
                      .-|...|+++.|..+.+++...-|.+..+|..|+.+|.+.|+|+.|+-.++.+-
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            446778999999999999999999999999999999999999999999999884

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=91.82  E-value=0.0004  Score=68.43  Aligned_cols=240  Identities=12%  Similarity=0.120  Sum_probs=158.8

Q ss_pred             ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhC
Q 043490          167 NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYG  246 (589)
Q Consensus       167 ~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g  246 (589)
                      .+..|..+..+..+.+.+.+|++.|.+.+                   |+..|..++.++.+.|.++.-...+....+. 
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIkA~-------------------Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~-  112 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIKAD-------------------DPSSYMEVVQAANTSGNWEELVKYLQMARKK-  112 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCCCS-------------------CCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT-
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHhCC-------------------ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-
Confidence            34568888888866666666665555554                   3345667777888888888777777665554 


Q ss_pred             CCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-C----------------
Q 043490          247 FEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM-N----------------  309 (589)
Q Consensus       247 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~----------------  309 (589)
                       ..++.+-+.|+-+|+|.+++.+-++++.   .||+.-...+..-+...|.++.|.-+|..+ +                
T Consensus       113 -~ke~~IDteLi~ayAk~~rL~elEefl~---~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~  188 (624)
T 3lvg_A          113 -ARESYVETELIFALAKTNRLAELEEFIN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQA  188 (624)
T ss_dssp             -CCSTTTTHHHHHHHHTSCSSSTTTSTTS---CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGS
T ss_pred             -hcccccHHHHHHHHHhhCcHHHHHHHHc---CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHH
Confidence             3455667788889999888765433322   356655666677777777777777777665 1                


Q ss_pred             ------CCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCC
Q 043490          310 ------VQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PM-EPD  381 (589)
Q Consensus       310 ------~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-~p~  381 (589)
                            ..-+..||-.+-.+|...+.+..|.-.--.++      ..+.....++..|-+.|.++|-+.+++.. +. +..
T Consensus       189 AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniI------vhadeL~elv~~YE~~G~f~ELIsLlEaglglErAH  262 (624)
T 3lvg_A          189 AVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIV------VHADELEELINYYQDRGYFEELITMLEAALGLERAH  262 (624)
T ss_dssp             STTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHH------CCSSCCSGGGSSSSTTCCCTTSTTTHHHHTTSTTCC
T ss_pred             HHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhc------ccHHHHHHHHHHHHhCCCHHHHHHHHHHHhCCCchh
Confidence                  12356789999999999988877654433332      23344556788899999999999999876 43 356


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHh-hcC-CC------ChhHHHHHHHHhhhcCChHHHHH
Q 043490          382 SVIWSVLLGSCRKHGETRLAELAATKLK-QLE-PG------DSLGFVQMSNIYCLSGSFNKARL  437 (589)
Q Consensus       382 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~-~~~-p~------~~~~~~~l~~~~~~~g~~~~a~~  437 (589)
                      ..+++-|.-.|++.. +++-.+.++... +++ |.      ....|.-+.-.|.+-..||.|..
T Consensus       263 mGmFTELaILYsKY~-PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          263 MGMFTELAILYSKFK-PQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             HHHHHHHHHHHHSSC-TTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHhcC-HHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence            899999999998874 443333332211 223 21      34456677777777777776654

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=91.42  E-value=2  Score=34.16  Aligned_cols=91  Identities=18%  Similarity=-0.026  Sum_probs=59.4

Q ss_pred             CcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHH---HHHHHHhC-CCC-C--CHHHHHHHHHHHHHcCCHHH
Q 043490          328 GLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILE---AEKLIREM-PME-P--DSVIWSVLLGSCRKHGETRL  400 (589)
Q Consensus       328 g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~---A~~~~~~m-~~~-p--~~~~~~~ll~~~~~~g~~~~  400 (589)
                      ..+..+.+-|...... | .|+..+--.+.-++.+.....+   ++.+++.. ... |  .....-.|.-++.+.|+++.
T Consensus        15 ~~l~~~~~~y~~e~~~-~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~   92 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEK   92 (126)
T ss_dssp             HHHHHHHHHHHHHHHH-S-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHH
Confidence            3444455555544332 2 2555555566667777666555   77777766 222 4  23444556778999999999


Q ss_pred             HHHHHHHHhhcCCCChhHHH
Q 043490          401 AELAATKLKQLEPGDSLGFV  420 (589)
Q Consensus       401 a~~~~~~~~~~~p~~~~~~~  420 (589)
                      |.+.++.+++.+|.|..+..
T Consensus        93 A~~~~~~lL~~eP~n~QA~~  112 (126)
T 1nzn_A           93 ALKYVRGLLQTEPQNNQAKE  112 (126)
T ss_dssp             HHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHH
Confidence            99999999999998865543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=91.23  E-value=4.9  Score=32.26  Aligned_cols=137  Identities=10%  Similarity=0.079  Sum_probs=82.3

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSK  271 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~  271 (589)
                      .-.|..++..++..+....   .+..-|+.++--....-+-+...++++.+=+   --|.          ..||++....
T Consensus        18 ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGk---iFDi----------s~C~NlKrVi   81 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGS---YFDL----------DKCQNLKSVV   81 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGG---GSCG----------GGCSCTHHHH
T ss_pred             HHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhh---hcCc----------HhhhcHHHHH
Confidence            4457777777777776653   2444555555444444444444444433321   1121          2455555555


Q ss_pred             HHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCC
Q 043490          272 QVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM--NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGV  346 (589)
Q Consensus       272 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  346 (589)
                      ..+-.+. .+....+.-+..+...|+-++-.+++..+  +.+|++.....+..||.+.|+..++.+++.+.-++ |+
T Consensus        82 ~C~~~~n-~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~k-G~  156 (172)
T 1wy6_A           82 ECGVINN-TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKK-GE  156 (172)
T ss_dssp             HHHHHTT-CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TC
T ss_pred             HHHHHhc-chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHh-hh
Confidence            5554443 23344455667777788888888888884  66777777888888888888888888888777554 54

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=91.04  E-value=5.4  Score=32.35  Aligned_cols=67  Identities=9%  Similarity=-0.067  Sum_probs=48.1

Q ss_pred             CCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHhhcCCCC-hhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          379 EPDSVIWSVLLGSCRKHGE---TRLAELAATKLKQLEPGD-SLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       379 ~p~~~~~~~ll~~~~~~g~---~~~a~~~~~~~~~~~p~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      .|+..+--.+..++.+..+   ..+++.+++.+.+..|.+ ......|+-+|.+.|++++|++..+.+.+.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~  106 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  106 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            4666665566667766654   456778888888777743 444557788888999999999888888764

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=89.12  E-value=15  Score=34.69  Aligned_cols=160  Identities=10%  Similarity=0.041  Sum_probs=98.5

Q ss_pred             HHHHHHHHHcCCcHHHHHHH-------HHHcCCHHHHHHHH----HHHHHcCCCCCHHHHHHHHHHHhCcCc--HHH---
Q 043490          171 WNSMIAAFRACKLEAQAIEL-------FAKMKNEEEALFLF----RQLQREGMAPDWCTFSIVLKACAGLVT--ERH---  234 (589)
Q Consensus       171 ~~~li~~~~~~g~~~~a~~~-------~~~~g~~~~A~~~~----~~m~~~g~~p~~~t~~~ll~a~~~~~~--~~~---  234 (589)
                      |.++..-|.+++++++|+++       +.+.|+...|-++-    +-..+.++++|..+..-++..+.....  .+.   
T Consensus        38 ~RTi~~Ry~~~k~y~eAidLL~~GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~~~~~p~r~~f  117 (336)
T 3lpz_A           38 TRLVAARYSKQGNWAAAVDILASVSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQPGEPVRKRF  117 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTSCTTCHHHHHH
T ss_pred             HHHHHHHHHhhcCHHHHHHHHHHHHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCCCcHHHHH
Confidence            44555667777777777776       46778876665554    555667899999888888877765443  221   


Q ss_pred             HHHHHHHHHHhC--CCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCC
Q 043490          235 ASAVHSLIAKYG--FEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNMNVQP  312 (589)
Q Consensus       235 a~~i~~~~~~~g--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p  312 (589)
                      ..+...+-.+.|  -.-|......+...|.+.+++.+|+..|-.-..+.+..+..|+.-+...+...           .+
T Consensus       118 i~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~~~~-----------e~  186 (336)
T 3lpz_A          118 VKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQDESH-----------TA  186 (336)
T ss_dssp             HHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHTSCGG-----------GH
T ss_pred             HHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHhcCCc-----------cH
Confidence            222233333333  23467778888999999999999999885433333466666655555444322           12


Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 043490          313 DSATFVSLLSACSHAGLVQEGNKVFHSMLE  342 (589)
Q Consensus       313 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  342 (589)
                      |.+.-.+++.- ...+++..|...++...+
T Consensus       187 dlfiaRaVL~y-L~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          187 PLYCARAVLPY-LLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             HHHHHHHHHHH-HHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH-HHhCCHHHHHHHHHHHHH
Confidence            33333344443 335788888877766544

>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=88.88  E-value=3.9  Score=33.55  Aligned_cols=55  Identities=5%  Similarity=-0.115  Sum_probs=38.6

Q ss_pred             CCHHHHHHHHHhC---CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHH
Q 043490          364 GRILEAEKLIREM---PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGF  419 (589)
Q Consensus       364 g~~~~A~~~~~~m---~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  419 (589)
                      ++.++|.++|+.+   .-+- ..+|.....--.++|+...|.+++.+.+.+.|.+....
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~l  131 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEML  131 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHH
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHH
Confidence            5666666666655   1111 67777777777888999999999999988888654443

>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=87.79  E-value=1.5  Score=43.05  Aligned_cols=69  Identities=14%  Similarity=0.043  Sum_probs=59.6

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHh-----cCCCccCCc
Q 043490          384 IWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMK-----GSRVRKYPG  452 (589)
Q Consensus       384 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-----~~~~~~~~~  452 (589)
                      ....++.++...|+++++...++.+...+|-+...|..|+.+|.+.|+..+|.+.|+...     +.|+.|.|.
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~  246 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  246 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHH
Confidence            345567788899999999999999999999999999999999999999999999998765     358877664

>2qx5_A Nucleoporin NIC96; mRNA transport, nuclear pore complex, nucleus, protein transport, translocation, transport, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2rfo_A

Probab=87.65  E-value=12  Score=39.19  Aligned_cols=78  Identities=9%  Similarity=-0.024  Sum_probs=39.4

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHh---cCCHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYAR---CGSIS  268 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~---~g~~~  268 (589)
                      .-.|+++.|++.+...    ...|.+.+...+.-+.-.+-   ...++..-  .+ .| ..-+..||..|.+   ..+..
T Consensus       305 lLtgqFE~AI~~L~~~----~~vdAVH~AIaL~~~gLL~~---~~~lls~~--~~-~~-~lN~arLI~~Yt~~F~~td~~  373 (661)
T 2qx5_A          305 LLSGLYGLAIDYTYTF----SEMDAVHLAIGLASLKLFKI---DSSTRLTK--KP-KR-DIRFANILANYTKSFRYSDPR  373 (661)
T ss_dssp             HHTTCHHHHHHHHHTT----CHHHHHHHHHHHHHTTC------------------------CHHHHHHHHHTTTTTTCHH
T ss_pred             HHHhhHHHHHHHHHhc----CchhHHHHHHHHHHcCCccC---CCcccccC--CC-cc-cccHHHHHHHHHHHhhcCCHH
Confidence            5667777777766543    34566677666665543332   11111110  00 11 2225567777765   47788


Q ss_pred             HHHHHHhhcCCC
Q 043490          269 LSKQVFDKMTYH  280 (589)
Q Consensus       269 ~A~~~~~~~~~~  280 (589)
                      +|.++|--+.-+
T Consensus       374 ~Al~Y~~li~l~  385 (661)
T 2qx5_A          374 VAVEYLVLITLN  385 (661)
T ss_dssp             HHHHHHHGGGGS
T ss_pred             HHHHHHHHHhcc
Confidence            888877766433

>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=87.52  E-value=22  Score=34.63  Aligned_cols=88  Identities=13%  Similarity=-0.049  Sum_probs=53.8

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC----C-CCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC---CCChhH----H
Q 043490          355 CMVDLLGRVGRILEAEKLIREM----P-MEPD---SVIWSVLLGSCRKHGETRLAELAATKLKQLE---PGDSLG----F  419 (589)
Q Consensus       355 ~li~~~~~~g~~~~A~~~~~~m----~-~~p~---~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---p~~~~~----~  419 (589)
                      .++..|...|++.+|.+++.++    . ....   ..++..-+..|...+|...+..++..+....   +.++..    .
T Consensus       104 kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a~i~  183 (394)
T 3txn_A          104 RLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGALD  183 (394)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHHHHH
Confidence            5677788888888887777766    1 1111   3345555667778888888888877765422   123322    2


Q ss_pred             HHHHHHhh-hcCChHHHHHHHHHH
Q 043490          420 VQMSNIYC-LSGSFNKARLIRKEM  442 (589)
Q Consensus       420 ~~l~~~~~-~~g~~~~a~~~~~~m  442 (589)
                      ..-+.++. ..++|..|...|-+.
T Consensus       184 ~~~Gi~~l~~~rdyk~A~~~F~ea  207 (394)
T 3txn_A          184 LQSGILHAADERDFKTAFSYFYEA  207 (394)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHhhHHHHHhccCHHHHHHHHHHH
Confidence            23334455 678888887766544

>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=87.10  E-value=7.6  Score=29.10  Aligned_cols=56  Identities=13%  Similarity=0.172  Sum_probs=42.3

Q ss_pred             Hhc-CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 043490          148 YSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTF  219 (589)
Q Consensus       148 y~~-g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  219 (589)
                      +.. |++++|..+.+...-||...|-++-.               -+.|..+++..-+.++...| .|....|
T Consensus        50 LmNrG~Yq~Al~l~~~~c~pdlepw~ALce---------------~rlGl~s~le~rL~~la~sg-~p~~q~F  106 (116)
T 2p58_C           50 LMNRGDYASALQQGNKLAYPDLEPWLALCE---------------YRLGLGSALESRLNRLARSQ-DPRIQTF  106 (116)
T ss_dssp             HHHTTCHHHHHHHHTTSCCGGGHHHHHHHH---------------HHHTCHHHHHHHHHHHTTCC-CHHHHHH
T ss_pred             HHcchhHHHHHHhcCCCCCchHHHHHHHHH---------------HhcccHHHHHHHHHHHHhCC-CHHHHHH
Confidence            444 99999999999999999999998866               56677777777776776655 3443333

>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=86.92  E-value=1.1  Score=36.80  Aligned_cols=55  Identities=7%  Similarity=-0.059  Sum_probs=44.8

Q ss_pred             HcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCCc
Q 043490          394 KHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVR  448 (589)
Q Consensus       394 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  448 (589)
                      ..+|.++|.++|+.++.....-+..|...+.--.+.|+.+.|++++.+....+.+
T Consensus        72 ei~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           72 AIQEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             HHHCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             HhcCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            3478999999999998775444667777778888999999999999998876643

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=86.33  E-value=7.2  Score=29.18  Aligned_cols=56  Identities=11%  Similarity=0.101  Sum_probs=43.2

Q ss_pred             Hhc-CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 043490          148 YSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTF  219 (589)
Q Consensus       148 y~~-g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  219 (589)
                      +.. |++++|..+.+...-||...|-++-.               -+.|..+++..-+.++...| .|....|
T Consensus        49 LmNrG~Yq~Al~l~~~~c~pdlepw~ALce---------------~rlGl~s~le~rL~~la~sg-~p~~q~F  105 (115)
T 2uwj_G           49 LANQGRYQEALAFAHGNPWPALEPWFALCE---------------WHLGLGAALDRRLAGLGGSS-DPALADF  105 (115)
T ss_dssp             HHHTTCHHHHHGGGTTCCCGGGHHHHHHHH---------------HHTTCHHHHHHHHHHHHTCS-SHHHHHH
T ss_pred             HHcchhHHHHHHhcCCCCCchHHHHHHHHH---------------HhcccHHHHHHHHHHHHhCC-CHHHHHH
Confidence            444 99999999999999999999998866               56787787777777777665 3444444

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=86.19  E-value=22  Score=33.30  Aligned_cols=161  Identities=12%  Similarity=0.080  Sum_probs=101.8

Q ss_pred             HHHHHHHHHcCCcHHHHHHH-------HHHcCCHHHHHHH----HHHHHHcCCCCCHHHHHHHHHHHhCcC-----cHHH
Q 043490          171 WNSMIAAFRACKLEAQAIEL-------FAKMKNEEEALFL----FRQLQREGMAPDWCTFSIVLKACAGLV-----TERH  234 (589)
Q Consensus       171 ~~~li~~~~~~g~~~~a~~~-------~~~~g~~~~A~~~----~~~m~~~g~~p~~~t~~~ll~a~~~~~-----~~~~  234 (589)
                      |.++..-|.+++++++|+++       +.+.|+...|-++    .+-..+.++++|......++..+....     ..+-
T Consensus        36 ~Rtl~~Ry~~~~~~~eAidlL~~ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~~~p~~~~~r~~f  115 (312)
T 2wpv_A           36 LRTIANRYVRSKSYEHAIELISQGALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAELDPSEPNLKDV  115 (312)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHTTCCTTCTTHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCCCchHHHH
Confidence            45566667777777777766       3677887766664    455566788999888888877765432     2233


Q ss_pred             HHHHHHHHHHhCC--CCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHc---CCHHHHHHHHHhCC
Q 043490          235 ASAVHSLIAKYGF--EDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALH---GQAKEALQLFSNMN  309 (589)
Q Consensus       235 a~~i~~~~~~~g~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~---g~~~~A~~~~~~m~  309 (589)
                      ..+....-.+.|-  .-|+.....+...|.+.|++.+|+..|-.-...|...+..|+.-+...   |...++-       
T Consensus       116 i~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~~~~~~~e~d-------  188 (312)
T 2wpv_A          116 ITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDIEDSTVA-------  188 (312)
T ss_dssp             HHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCCCHHHHH-------
T ss_pred             HHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHhcCCCCcchHH-------
Confidence            3334444444431  247788889999999999999999988744333566666666655554   5544432       


Q ss_pred             CCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHh
Q 043490          310 VQPDSATFVSLLSACSHAGLVQEGNKVFHSMLEN  343 (589)
Q Consensus       310 ~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  343 (589)
                          ...-.+++. |...|+...|..+|+...++
T Consensus       189 ----lf~~RaVL~-yL~l~n~~~A~~~~~~f~~~  217 (312)
T 2wpv_A          189 ----EFFSRLVFN-YLFISNISFAHESKDIFLER  217 (312)
T ss_dssp             ----HHHHHHHHH-HHHTTBHHHHHHHHHHHHHH
T ss_pred             ----HHHHHHHHH-HHHhcCHHHHHHHHHHHHHH
Confidence                222223333 33467888888888776543

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=86.17  E-value=8.8  Score=28.77  Aligned_cols=86  Identities=16%  Similarity=0.237  Sum_probs=61.3

Q ss_pred             CcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-
Q 043490          230 VTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM-  308 (589)
Q Consensus       230 ~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-  308 (589)
                      ...++|..|-+.+...+.  ...+--.-+..+.+.|++++|..+.+....||+.+|-++-.  .+.|..+++..-+.++ 
T Consensus        21 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la   96 (116)
T 2p58_C           21 HYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRLA   96 (116)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHH
Confidence            456777777777776653  33333334556778999999999999999999999987755  4678888888887677 


Q ss_pred             -CCCCCHHHHHH
Q 043490          309 -NVQPDSATFVS  319 (589)
Q Consensus       309 -~~~p~~~t~~~  319 (589)
                       .-.|....|..
T Consensus        97 ~sg~p~~q~Fa~  108 (116)
T 2p58_C           97 RSQDPRIQTFVN  108 (116)
T ss_dssp             TCCCHHHHHHHH
T ss_pred             hCCCHHHHHHHH
Confidence             44455555543

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=85.90  E-value=28  Score=34.61  Aligned_cols=180  Identities=12%  Similarity=0.114  Sum_probs=116.4

Q ss_pred             CCHHHHHHHHHHHHHc-----CCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh-CCCCcHHHHHHHH----HHHHhc
Q 043490          195 KNEEEALFLFRQLQRE-----GMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKY-GFEDDTVIANALI----HAYARC  264 (589)
Q Consensus       195 g~~~~A~~~~~~m~~~-----g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~-g~~~~~~~~~~li----~~~~~~  264 (589)
                      |++++|++.+..+.+.     ...........++..|...++++...+.+..+.+. |..+.  ....++    ......
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~--ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKL--SIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHH--HHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHH--HHHHHHHHHHHHHhcC
Confidence            5677777766655432     24455677888999999999999988777666543 33222  223333    333223


Q ss_pred             CC--HHHHHHHHhhcC---CC-------ChhHHHHHHHHHHHcCCHHHHHHHHHhC-----CCCCC---HHHHHHHHHHH
Q 043490          265 GS--ISLSKQVFDKMT---YH-------DLVSWNSILKAYALHGQAKEALQLFSNM-----NVQPD---SATFVSLLSAC  324 (589)
Q Consensus       265 g~--~~~A~~~~~~~~---~~-------~~~~~~~li~~~~~~g~~~~A~~~~~~m-----~~~p~---~~t~~~ll~a~  324 (589)
                      ..  .+.-..+.+...   +.       .......|...|...|++.+|.+++.++     +..+.   ...+...++.|
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            32  233334444433   11       1123456778899999999999999998     33332   23566778889


Q ss_pred             hccCcHHHHHHHHHHhHHhc-CCccC----cchHHHHHHHHhhcCCHHHHHHHHHhC
Q 043490          325 SHAGLVQEGNKVFHSMLENH-GVVPQ----LDHYACMVDLLGRVGRILEAEKLIREM  376 (589)
Q Consensus       325 ~~~g~~~~a~~~~~~~~~~~-~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m  376 (589)
                      ...+++..|..++..+..+. ...++    ...|.+++..+...+++.+|.+.|.+.
T Consensus       188 l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~  244 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEI  244 (445)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            99999999999998864321 11222    235778888888999999998887766

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=83.80  E-value=8.3  Score=28.86  Aligned_cols=86  Identities=14%  Similarity=0.176  Sum_probs=61.0

Q ss_pred             CcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-
Q 043490          230 VTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM-  308 (589)
Q Consensus       230 ~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-  308 (589)
                      ...++|..|-+.+...+.  ...+--.-+..+.+.|++++|..+.+....||+.+|-++-.  .+.|..+++..-+.++ 
T Consensus        20 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la   95 (115)
T 2uwj_G           20 HCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLG   95 (115)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHH
Confidence            356777777777776653  33333334556778999999999999999999999987755  4778888888877677 


Q ss_pred             -CCCCCHHHHHH
Q 043490          309 -NVQPDSATFVS  319 (589)
Q Consensus       309 -~~~p~~~t~~~  319 (589)
                       .-.|....|..
T Consensus        96 ~sg~p~~q~Fa~  107 (115)
T 2uwj_G           96 GSSDPALADFAA  107 (115)
T ss_dssp             TCSSHHHHHHHH
T ss_pred             hCCCHHHHHHHH
Confidence             44555555543

>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=83.56  E-value=7.4  Score=31.12  Aligned_cols=67  Identities=9%  Similarity=-0.067  Sum_probs=40.1

Q ss_pred             CCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHhhcCCC-ChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          379 EPDSVIWSVLLGSCRKHGE---TRLAELAATKLKQLEPG-DSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       379 ~p~~~~~~~ll~~~~~~g~---~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      .|+..+--.+..++.+..+   ..+++.+++.+.+.+|. .......|+-++.+.|++++|.+..+.+.+.
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            3454444445555555543   34566667766666653 2444556677777777777777777776653

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=83.25  E-value=0.0033  Score=62.10  Aligned_cols=189  Identities=15%  Similarity=0.152  Sum_probs=111.7

Q ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC--CChhHHHHHHHHHHHc
Q 043490          218 TFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY--HDLVSWNSILKAYALH  295 (589)
Q Consensus       218 t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~  295 (589)
                      .|+.+..+..+.+.+.+|.+-|   ++   ..|+..|..+|....+.|.+++-.+.+....+  ++...=+.|+-+|++.
T Consensus        56 VWs~LgkAqL~~~~v~eAIdsy---Ik---A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~IDteLi~ayAk~  129 (624)
T 3lvg_A           56 VWSQLAKAQLQKGMVKEAIDSY---IK---ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKT  129 (624)
T ss_dssp             CSSSHHHHTTTSSSCTTTTTSS---CC---CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTTTTHHHHHHHHTS
T ss_pred             HHHHHHHHHHccCchHHHHHHH---Hh---CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccHHHHHHHHHhh
Confidence            4555555655555554444332   11   23455566777777777777777777766652  3455556777788887


Q ss_pred             CCHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHh
Q 043490          296 GQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIRE  375 (589)
Q Consensus       296 g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  375 (589)
                      ++..+-.+++    -.||..-...+..-|...|.++.|.-+|..+ .         -|..|...+.+.|++..|.+--++
T Consensus       130 ~rL~elEefl----~~~N~A~iq~VGDrcf~e~lYeAAKilys~i-s---------N~akLAstLV~L~~yq~AVdaArK  195 (624)
T 3lvg_A          130 NRLAELEEFI----NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-S---------NFGRLASTLVHLGEYQAAVDGARK  195 (624)
T ss_dssp             CSSSTTTSTT----SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGS-C---------CCTTTSSSSSSCSGGGSSTTTTTT
T ss_pred             CcHHHHHHHH----cCCCcccHHHHHHHHHHccCHHHHHHHHHhC-c---------cHHHHHHHHHHHHHHHHHHHHHHh
Confidence            7755433333    2366666667777777777777776666544 1         233334445555555555554443


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCHHHH------------------------------HHHHHHHhhcCCCChhHHHHHHHH
Q 043490          376 MPMEPDSVIWSVLLGSCRKHGETRLA------------------------------ELAATKLKQLEPGDSLGFVQMSNI  425 (589)
Q Consensus       376 m~~~p~~~~~~~ll~~~~~~g~~~~a------------------------------~~~~~~~~~~~p~~~~~~~~l~~~  425 (589)
                      .   .+..||..+-.+|...+.+..|                              +.+++..+.++....+.++-|+-.
T Consensus       196 A---ns~ktWKeV~~ACvd~~EfrLAqicGLniIvhadeL~elv~~YE~~G~f~ELIsLlEaglglErAHmGmFTELaIL  272 (624)
T 3lvg_A          196 A---NSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAIL  272 (624)
T ss_dssp             C---CSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCCSSCCSGGGSSSSTTCCCTTSTTTHHHHTTSTTCCHHHHHHHHHH
T ss_pred             c---CChhHHHHHHHHHhCchHHHHHHHhcchhcccHHHHHHHHHHHHhCCCHHHHHHHHHHHhCCCchhHHHHHHHHHH
Confidence            3   2466777777777666655554                              444444445555566777777777


Q ss_pred             hhhc
Q 043490          426 YCLS  429 (589)
Q Consensus       426 ~~~~  429 (589)
                      |++-
T Consensus       273 YsKY  276 (624)
T 3lvg_A          273 YSKF  276 (624)
T ss_dssp             HHSS
T ss_pred             HHhc
Confidence            7765

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=83.12  E-value=7  Score=29.44  Aligned_cols=49  Identities=14%  Similarity=0.130  Sum_probs=38.1

Q ss_pred             hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHH
Q 043490          375 EMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMS  423 (589)
Q Consensus       375 ~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  423 (589)
                      .+.+-|++.+..+.+.||++.+++..|.++++-+...-.+...+|-.++
T Consensus        38 ~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~~~iY~~~l   86 (109)
T 1v54_E           38 GYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVI   86 (109)
T ss_dssp             TSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHH
T ss_pred             ccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCchhhHHHHH
Confidence            3467899999999999999999999999999988754332344555543

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=82.44  E-value=10  Score=31.65  Aligned_cols=25  Identities=8%  Similarity=-0.012  Sum_probs=13.9

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHh
Q 043490          316 TFVSLLSACSHAGLVQEGNKVFHSM  340 (589)
Q Consensus       316 t~~~ll~a~~~~g~~~~a~~~~~~~  340 (589)
                      ++..+.+++...+.+..|...|+..
T Consensus        65 ~l~~ladalf~~~eyrrA~~~y~qA   89 (167)
T 3ffl_A           65 LLVYHADSLFHDKEYRNAVSKYTMA   89 (167)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHH
Confidence            3444555555566666666665554

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=81.59  E-value=11  Score=31.39  Aligned_cols=113  Identities=14%  Similarity=0.066  Sum_probs=60.4

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCc-------chHHHHHHHHhhcCCHHHHHHHHHhC-------CCCCC
Q 043490          316 TFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQL-------DHYACMVDLLGRVGRILEAEKLIREM-------PMEPD  381 (589)
Q Consensus       316 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-------~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~  381 (589)
                      ++..-+..+...|.++.|+-+.+.+....+..|+.       .+...+.+++...|++..|...|++.       +-.|+
T Consensus        22 ~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s  101 (167)
T 3ffl_A           22 NVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSK  101 (167)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC-----
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            34444566667788888877766654433334443       24566778888888888888888774       11111


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHH
Q 043490          382 SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEM  442 (589)
Q Consensus       382 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  442 (589)
                      .  ...+ .   .......       -... +.+...-.-+..+|.+.|++++|+.+++.+
T Consensus       102 ~--~~~~-~---~~ss~p~-------s~~~-~~e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A          102 V--RPST-G---NSASTPQ-------SQCL-PSEIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             ----------------------------CC-CCHHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             c--cccc-c---ccCCCcc-------cccc-cchHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence            1  1000 0   0000000       0001 223344455777888888888888887765

>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=81.54  E-value=3.7  Score=40.28  Aligned_cols=66  Identities=12%  Similarity=0.177  Sum_probs=38.6

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhH----HhcCCccCcchH
Q 043490          288 ILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSML----ENHGVVPQLDHY  353 (589)
Q Consensus       288 li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~----~~~~~~p~~~~~  353 (589)
                      ++..+...|++.+|+..++.+ ...| +...+..++.++...|+..+|.+.|+...    +..|+.|...+-
T Consensus       177 ~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~  248 (388)
T 2ff4_A          177 KAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            444555556666666555555 3444 45566666666666666666666665542    234777776553

>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=80.52  E-value=9.1  Score=28.84  Aligned_cols=63  Identities=16%  Similarity=0.115  Sum_probs=44.9

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Q 043490          196 NEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIH  259 (589)
Q Consensus       196 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~  259 (589)
                      +.-+..+-++.+....+.|++....+.|.||-+.+++..|.++++-++..- .+...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHH
Confidence            444555666666667788888888888888888888888888887776543 333456666554

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=80.46  E-value=6.7  Score=35.70  Aligned_cols=111  Identities=11%  Similarity=0.174  Sum_probs=66.4

Q ss_pred             HHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHHcC
Q 043490          322 SACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD----SVIWSVLLGSCRKHG  396 (589)
Q Consensus       322 ~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~ll~~~~~~g  396 (589)
                      ....+.|.++++.+....-++.  -+-|...-..|+..||-.|+++.|.+-++.. ...|+    ...|..+|.+     
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~--~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~~a~~yr~lI~a-----   77 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKA-----   77 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHH-----
T ss_pred             HHHHhCCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHH-----
Confidence            3455678888888877766654  2336777778888888888888888877766 33454    2334443332     


Q ss_pred             CHHHHHHHHHHHhhcC-----CCChhHHH-HHHHHh--hhcCChHHHHHHHHHHhc
Q 043490          397 ETRLAELAATKLKQLE-----PGDSLGFV-QMSNIY--CLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       397 ~~~~a~~~~~~~~~~~-----p~~~~~~~-~l~~~~--~~~g~~~~a~~~~~~m~~  444 (589)
                           +..-+++..-+     +..+..+. .|+.+.  ...|+.++|..+.....+
T Consensus        78 -----E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e  128 (273)
T 1zbp_A           78 -----AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  128 (273)
T ss_dssp             -----HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             -----HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Confidence                 23333333321     12222333 444444  345888888888887754

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=80.35  E-value=12  Score=39.84  Aligned_cols=117  Identities=12%  Similarity=0.127  Sum_probs=72.3

Q ss_pred             HHcCC-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcC--cHHHHHHHHHHHHHh-----CCCC-cH----------H
Q 043490          192 AKMKN-EEEALFLFRQLQREGMAPDWCTFSIVLKACAGLV--TERHASAVHSLIAKY-----GFED-DT----------V  252 (589)
Q Consensus       192 ~~~g~-~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~--~~~~a~~i~~~~~~~-----g~~~-~~----------~  252 (589)
                      ...++ .+.|+++|+++......-+......++......+  .++...-+++.+...     ..++ +.          .
T Consensus       259 ~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~  338 (754)
T 4gns_B          259 AITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSARLMNCMSD  338 (754)
T ss_dssp             HTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHHHHHHH
T ss_pred             cccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccccccCcchH
Confidence            44555 5789999999988642222222233444443333  333333333333211     1121 11          1


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 043490          253 IANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM  308 (589)
Q Consensus       253 ~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  308 (589)
                      ....=.+.+.+.|+++.|+++-++..   ..+-.+|..|..+|...|+++.|+-.+..+
T Consensus       339 LL~~Qa~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          339 LLNIQTNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            12222445667899999999998876   345689999999999999999999998887

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	589
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.91
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.87
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.56
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.51
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.11
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.01
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.97
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.95
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.92
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.92
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.91
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.9
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.82
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.8
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.49
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.47
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.45
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.44
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.42
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.41
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.4
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.36
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.29
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.26
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.25
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.17
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.09
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.95
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.91
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.89
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.89
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.88
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.87
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.84
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.82
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.82
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.73
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.67
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.65
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.62
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.58
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.51
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.49
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.36
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.31
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.22
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.16
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.14
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.04
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.03
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.78
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.73
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.67
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.43
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.84
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.14
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	93.35
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	92.69
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	92.22
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	91.64
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	89.79
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	87.81

>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=99.91  E-value=4.3e-21  Score=191.10  Aligned_cols=370  Identities=14%  Similarity=0.101  Sum_probs=292.6

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-CcchHHHHHHHHHhCC
Q 043490           11 LFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--R-NVVSWTALISGYAQHG   87 (589)
Q Consensus        11 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~~~~~g   87 (589)
                      +...+-+.|++++|.+.++.+++..|   .++.++..+...|.+.|++++|...|++..+  | +..+|..+...|.+.|
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p---~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g   81 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEP---DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERG   81 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhc
Confidence            44567788999999999999998877   7889999999999999999999999998753  4 5678999999999999


Q ss_pred             ChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHHHHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhh---C
Q 043490           88 NAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKLVHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFEN---M  163 (589)
Q Consensus        88 ~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~---m  163 (589)
                      ++++|+..+...... .|.                              +..........+.. +....+......   .
T Consensus        82 ~~~~A~~~~~~~~~~-~~~------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  130 (388)
T d1w3ba_          82 QLQEAIEHYRHALRL-KPD------------------------------FIDGYINLAAALVAAGDMEGAVQAYVSALQY  130 (388)
T ss_dssp             CHHHHHHHHHHHHHH-CTT------------------------------CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH
T ss_pred             ccccccccccccccc-ccc------------------------------ccccccccccccccccccccccccccccccc
Confidence            999999999988765 111                              11111112222222 222222222221   1


Q ss_pred             CCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHH
Q 043490          164 EFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIA  243 (589)
Q Consensus       164 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~  243 (589)
                      .......+.......             ...+....+...+.+..... +-+...+..+...+...|+.+.|...+...+
T Consensus       131 ~~~~~~~~~~~~~~~-------------~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al  196 (388)
T d1w3ba_         131 NPDLYCVRSDLGNLL-------------KALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAV  196 (388)
T ss_dssp             CTTCTHHHHHHHHHH-------------HTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             ccccccccccccccc-------------cccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHH
Confidence            223333444444444             66777777777777776643 3355677777788889999999999999888


Q ss_pred             HhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHH
Q 043490          244 KYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFV  318 (589)
Q Consensus       244 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~  318 (589)
                      +.. +.+..++..+...|...|++++|...|++..   ..+...|..+...+.+.|++++|++.|++. .+.|+ ..++.
T Consensus       197 ~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~  275 (388)
T d1w3ba_         197 TLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYC  275 (388)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHH
T ss_pred             HhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHH
Confidence            875 5667888899999999999999999998876   456678888999999999999999999998 66675 56888


Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcC
Q 043490          319 SLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHG  396 (589)
Q Consensus       319 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g  396 (589)
                      .+..++...|++++|.+.++.....  .+.+...+..+...|.+.|++++|++.|++. ...|+ ..+|..+...+...|
T Consensus       276 ~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g  353 (388)
T d1w3ba_         276 NLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQG  353 (388)
T ss_dssp             HHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHhhhcc--CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            8999999999999999999988654  2446678888999999999999999999987 66776 788999999999999


Q ss_pred             CHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCC
Q 043490          397 ETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGS  431 (589)
Q Consensus       397 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  431 (589)
                      ++++|+..++++++++|+++.+|..|+.+|.+.|+
T Consensus       354 ~~~~A~~~~~~al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         354 KLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             CCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            99999999999999999999999999999998875

>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=99.87  E-value=6e-19  Score=175.28  Aligned_cols=349  Identities=15%  Similarity=0.089  Sum_probs=282.3

Q ss_pred             HHHHHHhcCChHHHHHHHhcCCC--C-CcchHHHHHHHHHhCCChhHHHHHHHHHHhccCCCceeHHHHHHHhchhhHHH
Q 043490           48 LINMYAKFGYLDDARHLFDEMPK--R-NVVSWTALISGYAQHGNAEECFRLFCSLLQYFFPNEFSLASVLISCDYLHGKL  124 (589)
Q Consensus        48 li~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~p~~~t~~~~l~a~~~~~~~~  124 (589)
                      +...+.+.|++++|++.|+++.+  | +..+|..+...|.+.|++++|+..|++..+. .                    
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~-~--------------------   63 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQ-N--------------------   63 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C--------------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-C--------------------
Confidence            45667789999999999998753  4 5778999999999999999999999988764 1                    


Q ss_pred             HHHHHHHhcCCCchhHHHHHHHHHhc-CCHHHHHHHHhhCCC---CChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHH
Q 043490          125 VHALALKFSLDAHVYVANALINMYSK-SCADEAWKVFENMEF---RNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEA  200 (589)
Q Consensus       125 ~~~~~~~~g~~~~~~~~~~li~~y~~-g~~~~A~~lf~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A  200 (589)
                                +.+..++..+...|.+ |++++|...+.....   .+...+.......             ...+....+
T Consensus        64 ----------p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~  120 (388)
T d1w3ba_          64 ----------PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAAL-------------VAAGDMEGA  120 (388)
T ss_dssp             ----------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH-------------HHHSCSSHH
T ss_pred             ----------CCCHHHHHHHHHHhhhhccccccccccccccccccccccccccccccc-------------ccccccccc
Confidence                      2345677888889999 999999999988763   2333444444444             555555555


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcC--
Q 043490          201 LFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMT--  278 (589)
Q Consensus       201 ~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--  278 (589)
                      ........... .................+....+........... +.+...+..+...+...|++++|...+++..  
T Consensus       121 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  198 (388)
T d1w3ba_         121 VQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTL  198 (388)
T ss_dssp             HHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             ccccccccccc-cccccccccccccccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHh
Confidence            55555555443 3334444455556677788888888888777765 5677888899999999999999999999765  


Q ss_pred             -CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHH
Q 043490          279 -YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYA  354 (589)
Q Consensus       279 -~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~  354 (589)
                       +.+..+|..+...+...|++++|+..|++. ...| +...+..+...+...|++++|.+.|+...+.   .| +...+.
T Consensus       199 ~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~  275 (388)
T d1w3ba_         199 DPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL---QPHFPDAYC  275 (388)
T ss_dssp             CTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---CSSCHHHHH
T ss_pred             CcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHH
Confidence             346678999999999999999999999999 4444 5567888889999999999999999988753   45 456888


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCCh
Q 043490          355 CMVDLLGRVGRILEAEKLIREM--PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSF  432 (589)
Q Consensus       355 ~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  432 (589)
                      .+...|...|++++|.+.++..  ....+...+..+...+...|++++|+..++++++..|+++.++..++.+|.+.|++
T Consensus       276 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~  355 (388)
T d1w3ba_         276 NLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKL  355 (388)
T ss_dssp             HHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCC
T ss_pred             HHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence            9999999999999999999887  22346888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcC
Q 043490          433 NKARLIRKEMKGS  445 (589)
Q Consensus       433 ~~a~~~~~~m~~~  445 (589)
                      ++|...+++..+.
T Consensus       356 ~~A~~~~~~al~l  368 (388)
T d1w3ba_         356 QEALMHYKEAIRI  368 (388)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998764

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.56  E-value=9.1e-14  Score=134.26  Aligned_cols=234  Identities=12%  Similarity=0.050  Sum_probs=154.8

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSK  271 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~  271 (589)
                      .+.|++++|+..|++..+.. +-+..+|..+..++...|+++.|...+..+++.. +.+...+..+...|...|++++|.
T Consensus        30 ~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~  107 (323)
T d1fcha_          30 LQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQAC  107 (323)
T ss_dssp             HHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccccccccc
Confidence            45666666666666666542 1234555555666666666666666666665554 344555555556666666666666


Q ss_pred             HHHhhcCC--CChh-HHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc
Q 043490          272 QVFDKMTY--HDLV-SWNSILKAYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP  348 (589)
Q Consensus       272 ~~~~~~~~--~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p  348 (589)
                      +.++....  |+.. .+......                 ....+.......+..+...+..+++.+.|....+...-.+
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~-----------------~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~  170 (323)
T d1fcha_         108 EILRDWLRYTPAYAHLVTPAEEG-----------------AGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSI  170 (323)
T ss_dssp             HHHHHHHHTSTTTGGGCC--------------------------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSC
T ss_pred             cchhhHHHhccchHHHHHhhhhh-----------------hhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhccc
Confidence            55555431  1100 00000000                 0000000111122233445677888888887765533344


Q ss_pred             CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHh
Q 043490          349 QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIY  426 (589)
Q Consensus       349 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  426 (589)
                      +..++..+...+.+.|++++|...|++. ...|+ ..+|..+...+...|++++|...++++++++|.++.++..++.+|
T Consensus       171 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~  250 (323)
T d1fcha_         171 DPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISC  250 (323)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             ccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHHHHHH
Confidence            5567888889999999999999999987 44554 888999999999999999999999999999999999999999999


Q ss_pred             hhcCChHHHHHHHHHHhc
Q 043490          427 CLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       427 ~~~g~~~~a~~~~~~m~~  444 (589)
                      .+.|++++|+..|++..+
T Consensus       251 ~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         251 INLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHTCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH
Confidence            999999999999998765

>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=99.51  E-value=9.7e-13  Score=126.85  Aligned_cols=243  Identities=14%  Similarity=0.050  Sum_probs=170.4

Q ss_pred             HHHHHHHcCCcHHHHHHHH---------------------HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCc
Q 043490          173 SMIAAFRACKLEAQAIELF---------------------AKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVT  231 (589)
Q Consensus       173 ~li~~~~~~g~~~~a~~~~---------------------~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~  231 (589)
                      -....+.+.|++++|+..|                     ...|++++|+..|.+..+.. +-+...+..+...+...|+
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccc
Confidence            3455677889999988774                     77899999999999988753 2356778888889999999


Q ss_pred             HHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CC
Q 043490          232 ERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM-NV  310 (589)
Q Consensus       232 ~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~  310 (589)
                      ++.|.+.+..+.+.. +..............                ..+.......+..+...+...+|.+.|++. ..
T Consensus       103 ~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~  165 (323)
T d1fcha_         103 QRQACEILRDWLRYT-PAYAHLVTPAEEGAG----------------GAGLGPSKRILGSLLSDSLFLEVKELFLAAVRL  165 (323)
T ss_dssp             HHHHHHHHHHHHHTS-TTTGGGCC-------------------------------CTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccchhhHHHhc-cchHHHHHhhhhhhh----------------hcccccchhhHHHHHHhhHHHHHHHHHHHHHHH
Confidence            999999999988754 111111110000000                001111111223344556677888888877 33


Q ss_pred             CC---CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHH
Q 043490          311 QP---DSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVI  384 (589)
Q Consensus       311 ~p---~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~  384 (589)
                      .|   +...+..+...+...|++++|...|+.....   .| +...|..+...|.+.|++++|.+.|++. ...|+ ..+
T Consensus       166 ~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a  242 (323)
T d1fcha_         166 DPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV---RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRS  242 (323)
T ss_dssp             STTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             hhcccccccchhhHHHHHHHHHHhhhhccccccccc---ccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHH
Confidence            33   5567778888888999999999999988654   34 4567888899999999999999999887 44565 888


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhH-----------HHHHHHHhhhcCChHHHH
Q 043490          385 WSVLLGSCRKHGETRLAELAATKLKQLEPGDSLG-----------FVQMSNIYCLSGSFNKAR  436 (589)
Q Consensus       385 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~-----------~~~l~~~~~~~g~~~~a~  436 (589)
                      |..+..+|.+.|++++|+..|++++++.|.+...           |..+..++...|+.+.+.
T Consensus       243 ~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~  305 (323)
T d1fcha_         243 RYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  305 (323)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999999999999999999988766443           344555555556655443

>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=99.11  E-value=8.8e-09  Score=99.26  Aligned_cols=253  Identities=11%  Similarity=-0.016  Sum_probs=187.4

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHhCcCcHHHHHHHHHHHHHhC--CC---CcHHHHHHHHHHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPD----WCTFSIVLKACAGLVTERHASAVHSLIAKYG--FE---DDTVIANALIHAYA  262 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~----~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g--~~---~~~~~~~~li~~~~  262 (589)
                      ...|++++|++++++........+    ...+..+..++...|+++.|...+....+..  ..   .....+..+...|.
T Consensus        23 ~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  102 (366)
T d1hz4a_          23 INDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILF  102 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHH
Confidence            789999999999999887532212    2356667788899999999999999887642  11   12345667778899


Q ss_pred             hcCCHHHHHHHHhhcC-------CCC----hhHHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCCHHHHHHHHHHH
Q 043490          263 RCGSISLSKQVFDKMT-------YHD----LVSWNSILKAYALHGQAKEALQLFSNM-------NVQPDSATFVSLLSAC  324 (589)
Q Consensus       263 ~~g~~~~A~~~~~~~~-------~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~~~t~~~ll~a~  324 (589)
                      ..|++..|...+....       .+.    ...+..+...+...|+.+.+...++..       +......++......+
T Consensus       103 ~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  182 (366)
T d1hz4a_         103 AQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCS  182 (366)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHH
Confidence            9999999998887653       111    135566778889999999999999888       1122334566666777


Q ss_pred             hccCcHHHHHHHHHHhHHhcCCccC-----cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-----CHHHHHHHHHHHH
Q 043490          325 SHAGLVQEGNKVFHSMLENHGVVPQ-----LDHYACMVDLLGRVGRILEAEKLIREM-PMEP-----DSVIWSVLLGSCR  393 (589)
Q Consensus       325 ~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-----~~~~~~~ll~~~~  393 (589)
                      ...+...++...+........-..+     ...+..+...+...|++++|...+++. ...|     ....+..+..++.
T Consensus       183 ~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~  262 (366)
T d1hz4a_         183 LARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQI  262 (366)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHH
T ss_pred             HhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHH
Confidence            7889999998888766443222211     224556677788999999999999987 2222     2556777888999


Q ss_pred             HcCCHHHHHHHHHHHhhc------CCCChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          394 KHGETRLAELAATKLKQL------EPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       394 ~~g~~~~a~~~~~~~~~~------~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      ..|+++.|...++++...      .|....++..+..+|.+.|++++|.+.+++..+
T Consensus       263 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         263 LLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999998742      244566788999999999999999999987654

>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=99.01  E-value=3.2e-09  Score=97.90  Aligned_cols=220  Identities=11%  Similarity=-0.076  Sum_probs=147.7

Q ss_pred             CHHHHHHHHHHHHHcCC-CC--CHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHH
Q 043490          196 NEEEALFLFRQLQREGM-AP--DWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQ  272 (589)
Q Consensus       196 ~~~~A~~~~~~m~~~g~-~p--~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  272 (589)
                      +.+.++.-+.+...... .+  ...+|..+..++.+.|+++.|...|...++.. |.+..+++.+..+|.+.|++++|..
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~   92 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYE   92 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhh
Confidence            34556666666655321 11  22466667788889999999999999999886 6788899999999999999999999


Q ss_pred             HHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCc
Q 043490          273 VFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVV  347 (589)
Q Consensus       273 ~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~  347 (589)
                      .|+++.   +.+..+|..+...|...|++++|++.|++. ...|+ ......+..+....+..+....+......   ..
T Consensus        93 ~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~  169 (259)
T d1xnfa_          93 AFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK---SD  169 (259)
T ss_dssp             HHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH---SC
T ss_pred             hhhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhc---cc
Confidence            999887   345678999999999999999999999998 55664 33333333444455555555555444422   12


Q ss_pred             cCcchHHHHHHHHhhcCC----HHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHH
Q 043490          348 PQLDHYACMVDLLGRVGR----ILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFV  420 (589)
Q Consensus       348 p~~~~~~~li~~~~~~g~----~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  420 (589)
                      +....++ ++..+.....    .+.+...+... ...|+ ..+|..+...+...|++++|...+++++..+|++...|.
T Consensus       170 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  247 (259)
T d1xnfa_         170 KEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEHR  247 (259)
T ss_dssp             CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHHH
T ss_pred             hhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHH
Confidence            2222222 3333322222    22222222211 12233 456777888999999999999999999999997755443

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.97  E-value=1.5e-09  Score=104.68  Aligned_cols=273  Identities=11%  Similarity=0.007  Sum_probs=196.3

Q ss_pred             HHHHHHHhc-CCHHHHHHHHhhCC--CCC-hhHHHHHHHH---HHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC
Q 043490          142 NALINMYSK-SCADEAWKVFENME--FRN-VISWNSMIAA---FRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAP  214 (589)
Q Consensus       142 ~~li~~y~~-g~~~~A~~lf~~m~--~~~-~~~~~~li~~---~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p  214 (589)
                      ..++....+ +..++|..+++...  .|+ ...|+..-..   +...+..      +...|.+++|+.++++..+.. +-
T Consensus        33 ~~~~~~~~~~~~~~~al~~~~~~l~~~P~~~~a~~~r~~~l~~l~~~~~~------~~~~~~~~~al~~~~~~l~~~-pk  105 (334)
T d1dcea1          33 QAVFQKRQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSP------EESAALVKAELGFLESCLRVN-PK  105 (334)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCH------HHHHHHHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhhcch------HHHHHHHHHHHHHHHHHHHhC-CC
Confidence            344444444 44589999999876  354 3456543332   2222221      145567889999999988753 33


Q ss_pred             CHHHHHHHHHHHhCc--CcHHHHHHHHHHHHHhCCCCcHHHHH-HHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHH
Q 043490          215 DWCTFSIVLKACAGL--VTERHASAVHSLIAKYGFEDDTVIAN-ALIHAYARCGSISLSKQVFDKMTY---HDLVSWNSI  288 (589)
Q Consensus       215 ~~~t~~~ll~a~~~~--~~~~~a~~i~~~~~~~g~~~~~~~~~-~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l  288 (589)
                      +...|.....++...  ++++.+...+..+++.. +++...+. .+...+...|..++|...++....   .+..+|+.+
T Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~~~~a~~~l  184 (334)
T d1dcea1         106 SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYR  184 (334)
T ss_dssp             CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHH
T ss_pred             cHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCCCHHHHHHH
Confidence            555566555555544  46899999999998875 44555544 455788889999999999998873   466799999


Q ss_pred             HHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHH
Q 043490          289 LKAYALHGQAKEALQLFSNM-NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRIL  367 (589)
Q Consensus       289 i~~~~~~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  367 (589)
                      ...+.+.|++++|...+++. .+.|+...   +...+...+..+++...+......  -.++...+..+...+...|+.+
T Consensus       185 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~---~~~~~~~l~~~~~a~~~~~~~l~~--~~~~~~~~~~l~~~~~~~~~~~  259 (334)
T d1dcea1         185 SCLLPQLHPQPDSGPQGRLPENVLLKELE---LVQNAFFTDPNDQSAWFYHRWLLG--RAEPLFRCELSVEKSTVLQSEL  259 (334)
T ss_dssp             HHHHHHHSCCCCSSSCCSSCHHHHHHHHH---HHHHHHHHCSSCSHHHHHHHHHHS--CCCCSSSCCCCHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHhHHhHHHHHH---HHHHHHHhcchhHHHHHHHHHHHh--CcchhhHHHHHHHHHHHHhhHH
Confidence            99999999999888777776 44444332   223344456666777777766542  2445667777888888999999


Q ss_pred             HHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhh
Q 043490          368 EAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYC  427 (589)
Q Consensus       368 ~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  427 (589)
                      +|...+.+. ...|+ ..+|..+...+...|+.++|...++++++++|.+...|..|...+.
T Consensus       260 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L~~~~~  321 (334)
T d1dcea1         260 ESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFL  321 (334)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHHHHHHh
Confidence            999999887 55665 7788889999999999999999999999999988877887766665

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=98.95  E-value=4.3e-08  Score=94.23  Aligned_cols=281  Identities=9%  Similarity=-0.020  Sum_probs=193.7

Q ss_pred             HHHHhc-CCHHHHHHHHhhCCC--CC------hhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CC
Q 043490          145 INMYSK-SCADEAWKVFENMEF--RN------VISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGM-AP  214 (589)
Q Consensus       145 i~~y~~-g~~~~A~~lf~~m~~--~~------~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~-~p  214 (589)
                      ...+.. |++++|..+|++..+  |+      ...++.+...|             ...|++++|+..|++...... .+
T Consensus        19 A~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~-------------~~~g~~~~A~~~~~~a~~~~~~~~   85 (366)
T d1hz4a_          19 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVL-------------HCKGELTRSLALMQQTEQMARQHD   85 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHH-------------HHHTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHH-------------HHCCCHHHHHHHHHHHHHHHHhhc
Confidence            345666 999999999987532  22      23566667777             888888888888887754211 11


Q ss_pred             C----HHHHHHHHHHHhCcCcHHHHHHHHHHHHHh----CCCC---cHHHHHHHHHHHHhcCCHHHHHHHHhhcCC----
Q 043490          215 D----WCTFSIVLKACAGLVTERHASAVHSLIAKY----GFED---DTVIANALIHAYARCGSISLSKQVFDKMTY----  279 (589)
Q Consensus       215 ~----~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~----g~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----  279 (589)
                      +    ..++..+...+...|++..+...+......    +.+.   ....+..+...|...|+++.+...+.....    
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~  165 (366)
T d1hz4a_          86 VWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSS  165 (366)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTT
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhh
Confidence            2    234556667778889999999988876543    2121   234566778889999999999999887651    


Q ss_pred             ----CChhHHHHHHHHHHHcCCHHHHHHHHHhC-----CCCCC----HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCC
Q 043490          280 ----HDLVSWNSILKAYALHGQAKEALQLFSNM-----NVQPD----SATFVSLLSACSHAGLVQEGNKVFHSMLENHGV  346 (589)
Q Consensus       280 ----~~~~~~~~li~~~~~~g~~~~A~~~~~~m-----~~~p~----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  346 (589)
                          ....++..+...+...|+..++...+.+.     .....    ...+..+...+...|+.++|...+....+...-
T Consensus       166 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  245 (366)
T d1hz4a_         166 YQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFA  245 (366)
T ss_dssp             SCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCT
T ss_pred             hhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccc
Confidence                12345666777788899999988888776     22211    234555666778899999999999876432111


Q ss_pred             cc--CcchHHHHHHHHhhcCCHHHHHHHHHhC-------CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC--
Q 043490          347 VP--QLDHYACMVDLLGRVGRILEAEKLIREM-------PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPG--  414 (589)
Q Consensus       347 ~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~--  414 (589)
                      .+  ....+..+...|...|++++|...+++.       +..|+ ..++..+...+...|++++|...+++.+++.+.  
T Consensus       246 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~  325 (366)
T d1hz4a_         246 NNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTG  325 (366)
T ss_dssp             TCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHC
T ss_pred             cchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcC
Confidence            11  1224556788899999999999999876       44444 567888889999999999999999998875431  


Q ss_pred             -------ChhHHHHHHHHhhhcCChHHHHHH
Q 043490          415 -------DSLGFVQMSNIYCLSGSFNKARLI  438 (589)
Q Consensus       415 -------~~~~~~~l~~~~~~~g~~~~a~~~  438 (589)
                             .......++..+...++.+++.+-
T Consensus       326 ~~~~~~~~~~~~~~~~~~l~~~~~l~e~e~~  356 (366)
T d1hz4a_         326 FISHFVIEGEAMAQQLRQLIQLNTLPELEQH  356 (366)
T ss_dssp             CCHHHHTTHHHHHHHHHHHHHTTCSCHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHhcCCChHHHHH
Confidence                   122334455566666777766543

>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=98.92  E-value=1.3e-08  Score=96.67  Aligned_cols=206  Identities=8%  Similarity=0.055  Sum_probs=146.7

Q ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcC-CHHHHHHHHhhcC---CCChhHHHHHHHHHH
Q 043490          218 TFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCG-SISLSKQVFDKMT---YHDLVSWNSILKAYA  293 (589)
Q Consensus       218 t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~~~---~~~~~~~~~li~~~~  293 (589)
                      .|+.+-..+.+.+..++|.++++.+++.. |.+..+|+.....+...| ++++|...++...   ..+..+|+.+...+.
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~  123 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVE  123 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHH
Confidence            44444445566677788888888888776 666777787777777765 4788888887765   446678888888888


Q ss_pred             HcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCC-----
Q 043490          294 LHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGR-----  365 (589)
Q Consensus       294 ~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~-----  365 (589)
                      ..|++++|++.|+++ ...|+ ...|..+...+.+.|++++|.+.++.+++.   .| +...|+.+...+.+.+.     
T Consensus       124 ~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~---~p~n~~a~~~r~~~l~~~~~~~~~~  200 (315)
T d2h6fa1         124 WLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE---DVRNNSVWNQRYFVISNTTGYNDRA  200 (315)
T ss_dssp             HHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCSCSHH
T ss_pred             hhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH---CCccHHHHHHHHHHHHHccccchhh
Confidence            888888888888888 66664 567888888888888888888888887653   44 44566666666555554     


Q ss_pred             -HHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC--hhHHHHHHHHhhh
Q 043490          366 -ILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGD--SLGFVQMSNIYCL  428 (589)
Q Consensus       366 -~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~~~  428 (589)
                       +++|++.+.+. ...| +...|..+...+.. ...+++...++...++.|..  +..+..++..|..
T Consensus       201 ~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~  267 (315)
T d2h6fa1         201 VLEREVQYTLEMIKLVPHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYED  267 (315)
T ss_dssp             HHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHH
T ss_pred             hhHHhHHHHHHHHHhCCCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHH
Confidence             57788877766 4455 47778777665544 44678888888888877743  4445567777654

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.92  E-value=1.2e-07  Score=89.77  Aligned_cols=183  Identities=10%  Similarity=0.067  Sum_probs=126.6

Q ss_pred             cHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-C-hhHHHHHHHHHHHcCCHHHHHHHHH
Q 043490          231 TERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY--H-D-LVSWNSILKAYALHGQAKEALQLFS  306 (589)
Q Consensus       231 ~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~-~~~~~~li~~~~~~g~~~~A~~~~~  306 (589)
                      ..+.+..+++..++...+.+...+...+..+.+.|+++.|..+|+++..  | + ...|...+....+.|+.++|.++|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            4567778888887765566667777788888888888888888887652  2 2 2367788888888888888888888


Q ss_pred             hC-CCCCC-HHHHHHHHHH-HhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC----CCC
Q 043490          307 NM-NVQPD-SATFVSLLSA-CSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM----PME  379 (589)
Q Consensus       307 ~m-~~~p~-~~t~~~ll~a-~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~  379 (589)
                      ++ ...|+ ...|...... +...|+.+.|.++|+.+.+.+  +.+...|...++.+.+.|+++.|..+|++.    +..
T Consensus       159 ~al~~~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~--p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~  236 (308)
T d2onda1         159 KAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHHTSTTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHHHhCCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh--hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCC
Confidence            87 55553 3334333322 234577888888888776642  224556777777777888888888888775    334


Q ss_pred             CC--HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC
Q 043490          380 PD--SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGD  415 (589)
Q Consensus       380 p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  415 (589)
                      |+  ...|...+.--..+|+.+.+..+.+++.+.-|.+
T Consensus       237 ~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~  274 (308)
T d2onda1         237 PEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREE  274 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTT
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCccc
Confidence            43  4577777777777788888888777777766643

>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=98.91  E-value=1e-08  Score=97.44  Aligned_cols=191  Identities=6%  Similarity=0.028  Sum_probs=160.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcC-CHHHHHHHHHhC-CCCCC-HHHHHHHHHHH
Q 043490          251 TVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHG-QAKEALQLFSNM-NVQPD-SATFVSLLSAC  324 (589)
Q Consensus       251 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~  324 (589)
                      ..+++.+...+.+.+..++|+..++++.   ..+..+|+....++...| ++++|++.+++. .+.|+ ..+|..+...+
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHH
Confidence            4567777888899999999999999987   346679999999988876 589999999999 77775 56899999999


Q ss_pred             hccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCC----
Q 043490          325 SHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGE----  397 (589)
Q Consensus       325 ~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~----  397 (589)
                      ...|++++|.+.++.+.+.   .| +...|..+...+.+.|++++|++.++++ .+.| +...|+.+...+.+.+.    
T Consensus       123 ~~l~~~~eAl~~~~kal~~---dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQ---DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HhhccHHHHHHHHhhhhhh---hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccchh
Confidence            9999999999999999754   45 5778999999999999999999999998 5566 48888887777766655    


Q ss_pred             --HHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          398 --TRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       398 --~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                        .++|...+.++++.+|.+..+|..+..++...| .+++.+.++...+.
T Consensus       200 ~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l  248 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRG-LSKYPNLLNQLLDL  248 (315)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHHH
T ss_pred             hhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHhcC-hHHHHHHHHHHHHh
Confidence              678999999999999999999999988877665 57777877777653

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.90  E-value=6.1e-09  Score=95.96  Aligned_cols=213  Identities=12%  Similarity=0.042  Sum_probs=145.6

Q ss_pred             cHHHHHHHHHHHHHhCCCC---cHHHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHH
Q 043490          231 TERHASAVHSLIAKYGFED---DTVIANALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQL  304 (589)
Q Consensus       231 ~~~~a~~i~~~~~~~g~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~  304 (589)
                      ..+.+..-+.+++...-..   ...++..+...|.+.|++++|...|++..   +.++.+|+.+..+|.+.|++++|++.
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~   93 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEA   93 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhh
Confidence            3445555555665442111   24567778899999999999999999886   45778999999999999999999999


Q ss_pred             HHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccC-cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC
Q 043490          305 FSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQ-LDHYACMVDLLGRVGRILEAEKLIREM-PMEP  380 (589)
Q Consensus       305 ~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p  380 (589)
                      |++. .+.|+ ..++..+..++...|++++|.+.|+...+.   .|+ ......+...+.+.+..+.+..+.... ...+
T Consensus        94 ~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (259)
T d1xnfa_          94 FDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDK  170 (259)
T ss_dssp             HHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCC
T ss_pred             hhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhh---ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccch
Confidence            9999 77775 557888899999999999999999988764   343 333333444455556555554444433 1122


Q ss_pred             CHHHHHHHHHHHHH----cCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCC
Q 043490          381 DSVIWSVLLGSCRK----HGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRV  447 (589)
Q Consensus       381 ~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  447 (589)
                      +...++ ++..+..    .+..+.+...+.......|....+|..|+..|...|++++|.+.|++....+.
T Consensus       171 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  240 (259)
T d1xnfa_         171 EQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNV  240 (259)
T ss_dssp             CSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             hhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC
Confidence            222222 1222211    12233333333334444565667888999999999999999999999876543

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.82  E-value=2.6e-07  Score=87.28  Aligned_cols=177  Identities=6%  Similarity=0.002  Sum_probs=141.4

Q ss_pred             CCHHHHHHHHhhcC----CCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC--HHHHHHHHHHHhccCcHHHHHHHH
Q 043490          265 GSISLSKQVFDKMT----YHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD--SATFVSLLSACSHAGLVQEGNKVF  337 (589)
Q Consensus       265 g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~--~~t~~~ll~a~~~~g~~~~a~~~~  337 (589)
                      +..++|..+|++..    ..+...|...+..+...|+.++|..+|+++ +..|.  ...|...+..+.+.|+.+.|+++|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            44578888888754    345678898999999999999999999999 77774  346888999999999999999999


Q ss_pred             HHhHHhcCCcc-CcchHHHHHHH-HhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCC
Q 043490          338 HSMLENHGVVP-QLDHYACMVDL-LGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEP  413 (589)
Q Consensus       338 ~~~~~~~~~~p-~~~~~~~li~~-~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  413 (589)
                      +.+.+.   .| +...|...... +...|+.+.|..+|+.+ ...| +...|...+......|+.+.|..+|+++++..|
T Consensus       158 ~~al~~---~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~  234 (308)
T d2onda1         158 KKARED---ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  234 (308)
T ss_dssp             HHHHTS---TTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSS
T ss_pred             HHHHHh---CCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC
Confidence            998643   33 34445444443 33468999999999988 2234 588999999999999999999999999998766


Q ss_pred             CCh----hHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          414 GDS----LGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       414 ~~~----~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      .++    ..|...+..-...|+.+.+.++.+++.+
T Consensus       235 ~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         235 LPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             SCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            443    3677778877888999999999998865

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.80  E-value=1.1e-08  Score=98.34  Aligned_cols=246  Identities=7%  Similarity=-0.075  Sum_probs=181.0

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHH-HH---HHHHHHh-------CcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPDWCT-FS---IVLKACA-------GLVTERHASAVHSLIAKYGFEDDTVIANALIHA  260 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~~~t-~~---~ll~a~~-------~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~  260 (589)
                      ...+..++|++++.+..+.  .|+..+ |+   .++....       ..+.++.+...++.+++.. +.+...+..+...
T Consensus        40 ~~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~  116 (334)
T d1dcea1          40 QAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWL  116 (334)
T ss_dssp             HTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hcccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHH
Confidence            3344458999999999874  566543 32   2233333       3355788999999988876 6677788888777


Q ss_pred             HHhcC--CHHHHHHHHhhcC---CCChhHHHHHH-HHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHH
Q 043490          261 YARCG--SISLSKQVFDKMT---YHDLVSWNSIL-KAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQE  332 (589)
Q Consensus       261 ~~~~g--~~~~A~~~~~~~~---~~~~~~~~~li-~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~  332 (589)
                      +...+  ++++|...++++.   .++...|...+ ..+...|..++|+..+++. ...|+ ...|..+..++...|++++
T Consensus       117 ~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~  196 (334)
T d1dcea1         117 LSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPD  196 (334)
T ss_dssp             HHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCC
T ss_pred             HHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHH
Confidence            77765  4899999999875   44566665544 6677789999999999999 77774 5678888888888888887


Q ss_pred             HHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 043490          333 GNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREM--PMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQ  410 (589)
Q Consensus       333 a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  410 (589)
                      |...+....+.   .|+   ...+...+...+..+++...+...  ...++...+..+...+...++.+.|...+.+..+
T Consensus       197 A~~~~~~~~~~---~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  270 (334)
T d1dcea1         197 SGPQGRLPENV---LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCKELQELEP  270 (334)
T ss_dssp             SSSCCSSCHHH---HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHhHHh---HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            76655444321   121   122334455667777777777665  2223355566677778888999999999999999


Q ss_pred             cCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          411 LEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       411 ~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      .+|.+..++..++.+|...|++++|.+.+++..+.+
T Consensus       271 ~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ld  306 (334)
T d1dcea1         271 ENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD  306 (334)
T ss_dssp             TCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHC
T ss_pred             hCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            999999999999999999999999999999987643

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.49  E-value=1.4e-06  Score=75.59  Aligned_cols=139  Identities=11%  Similarity=-0.064  Sum_probs=102.0

Q ss_pred             HHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHH
Q 043490          258 IHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNK  335 (589)
Q Consensus       258 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~  335 (589)
                      ...+...|+++.|.+.|+++.+++...|..+...|...|++++|++.|++. .+.|+ ...|..+..++.+.|++++|.+
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~~   91 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIK   91 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHHHH
Confidence            455678899999999999988888888999999999999999999999998 77674 5678888888889999999998


Q ss_pred             HHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC
Q 043490          336 VFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPG  414 (589)
Q Consensus       336 ~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  414 (589)
                      .|+..+..  .+++...      .|...|.           ...++ ..++..+..++.+.|++++|.+.++++.++.|.
T Consensus        92 ~~~kAl~~--~~~n~~~------~~~~~~~-----------~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_          92 DLKEALIQ--LRGNQLI------DYKILGL-----------QFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             HHHHHHHT--TTTCSEE------ECGGGTB-----------CCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHHHHHHh--CccCchH------HHHHhhh-----------hcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            88877542  1222110      0000000           11111 345566777888899999999999999888875


Q ss_pred             C
Q 043490          415 D  415 (589)
Q Consensus       415 ~  415 (589)
                      .
T Consensus       153 ~  153 (192)
T d1hh8a_         153 P  153 (192)
T ss_dssp             G
T ss_pred             c
Confidence            4

>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=98.47  E-value=3.6e-07  Score=80.12  Aligned_cols=99  Identities=9%  Similarity=-0.062  Sum_probs=46.0

Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHH
Q 043490          312 PDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVL  388 (589)
Q Consensus       312 p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~l  388 (589)
                      |+...+......+.+.|++++|...|+..++.   .| +...|..+..+|.+.|++++|+..|++. .+.|+ ..+|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~---~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR---NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHH
Confidence            44444555555555555555555555554432   22 2333444444444444444444444444 33343 4444444


Q ss_pred             HHHHHHcCCHHHHHHHHHHHhhcCC
Q 043490          389 LGSCRKHGETRLAELAATKLKQLEP  413 (589)
Q Consensus       389 l~~~~~~g~~~~a~~~~~~~~~~~p  413 (589)
                      ..+|...|++++|...++++.+++|
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~l~p  103 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYSLAK  103 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCc
Confidence            4444444444444444444444443

>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=98.45  E-value=5.9e-07  Score=71.00  Aligned_cols=90  Identities=20%  Similarity=0.212  Sum_probs=69.1

Q ss_pred             HHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHH
Q 043490          357 VDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNK  434 (589)
Q Consensus       357 i~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  434 (589)
                      ...+.+.|++++|+..|++. ...| +...|..+..++...|++++|+..++++++++|.++..|..++.+|...|++++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~~   89 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEE   89 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHHH
Confidence            34566777777777777776 3345 377788888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHhcCC
Q 043490          435 ARLIRKEMKGSR  446 (589)
Q Consensus       435 a~~~~~~m~~~~  446 (589)
                      |...+++..+..
T Consensus        90 A~~~~~~a~~~~  101 (117)
T d1elwa_          90 AKRTYEEGLKHE  101 (117)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhC
Confidence            888888777543

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.44  E-value=1.5e-06  Score=81.08  Aligned_cols=187  Identities=10%  Similarity=-0.006  Sum_probs=126.3

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCC-----CC----hhHHHHHHHHHHHcCCHHHHHHHHHhC-C---CCCC----HHHHHH
Q 043490          257 LIHAYARCGSISLSKQVFDKMTY-----HD----LVSWNSILKAYALHGQAKEALQLFSNM-N---VQPD----SATFVS  319 (589)
Q Consensus       257 li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m-~---~~p~----~~t~~~  319 (589)
                      ....|...|++++|.+.|.+..+     .+    ..+|+.+..+|.+.|++++|++.+++. .   -..+    ..++..
T Consensus        43 aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  122 (290)
T d1qqea_          43 AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFE  122 (290)
T ss_dssp             HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHH
Confidence            35667888888888888877641     22    247888888888999999999888876 1   1111    345666


Q ss_pred             HHHHHh-ccCcHHHHHHHHHHhHHhc---CCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCC---C----C-HHHH
Q 043490          320 LLSACS-HAGLVQEGNKVFHSMLENH---GVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PME---P----D-SVIW  385 (589)
Q Consensus       320 ll~a~~-~~g~~~~a~~~~~~~~~~~---~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~---p----~-~~~~  385 (589)
                      +...|. ..|++++|.+.++...+-.   +..+ ...++..+...|...|++++|.+.|++. ...   +    . ...+
T Consensus       123 l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~  202 (290)
T d1qqea_         123 LGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYF  202 (290)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHH
T ss_pred             HHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHH
Confidence            666664 4699999999998765321   1111 1335778889999999999999999886 111   1    1 1233


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhcCCCChh-----HHHHHHHHhhh--cCChHHHHHHHHHHh
Q 043490          386 SVLLGSCRKHGETRLAELAATKLKQLEPGDSL-----GFVQMSNIYCL--SGSFNKARLIRKEMK  443 (589)
Q Consensus       386 ~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~-----~~~~l~~~~~~--~g~~~~a~~~~~~m~  443 (589)
                      ...+..+...|+++.|...+++..+.+|....     ....|+.+|..  .+.+++|...|+.+.
T Consensus       203 ~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         203 LKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            44555677889999999999999998874322     34556666655  356888888886544

>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=98.42  E-value=1.7e-06  Score=68.21  Aligned_cols=106  Identities=9%  Similarity=-0.015  Sum_probs=88.2

Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHc
Q 043490          319 SLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKH  395 (589)
Q Consensus       319 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~  395 (589)
                      .-...+...|++++|...|...++.   .| +...|..+..+|.+.|++++|+..+++. .+.| +...|..+..++...
T Consensus         8 ~~g~~~~~~g~~~eAi~~~~~al~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~   84 (117)
T d1elwa_           8 EKGNKALSVGNIDDALQCYSEAIKL---DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFL   84 (117)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhc---CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHc
Confidence            3456677889999999999888754   34 5667888889999999999999999888 4445 588999999999999


Q ss_pred             CCHHHHHHHHHHHhhcCCCChhHHHHHHHHhh
Q 043490          396 GETRLAELAATKLKQLEPGDSLGFVQMSNIYC  427 (589)
Q Consensus       396 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  427 (589)
                      |++++|+..++++++.+|.++..+..+.++-+
T Consensus        85 ~~~~~A~~~~~~a~~~~p~~~~~~~~l~~l~~  116 (117)
T d1elwa_          85 NRFEEAKRTYEEGLKHEANNPQLKEGLQNMEA  116 (117)
T ss_dssp             TCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhC
Confidence            99999999999999999999888777766543

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.41  E-value=3e-06  Score=78.91  Aligned_cols=161  Identities=7%  Similarity=0.008  Sum_probs=85.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcCC-----CC----hhHHHHHHHHHHH-cCCHHHHHHHHHhC-------CCCCC-H
Q 043490          253 IANALIHAYARCGSISLSKQVFDKMTY-----HD----LVSWNSILKAYAL-HGQAKEALQLFSNM-------NVQPD-S  314 (589)
Q Consensus       253 ~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~-~g~~~~A~~~~~~m-------~~~p~-~  314 (589)
                      +|..+..+|.+.|++++|...+++..+     .+    ..++..+...|.. .|++++|++.|++.       +..+. .
T Consensus        79 ~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~  158 (290)
T d1qqea_          79 TYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSN  158 (290)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhh
Confidence            344445555555555555555544321     11    2234444444533 46777777766665       11111 2


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCc-----chHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC------H
Q 043490          315 ATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQL-----DHYACMVDLLGRVGRILEAEKLIREM-PMEPD------S  382 (589)
Q Consensus       315 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-----~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~------~  382 (589)
                      .++..+...+...|++++|.+.|+.+.....-.+..     ..+..++..+...|+++.|...+++. .+.|+      .
T Consensus       159 ~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~  238 (290)
T d1qqea_         159 KCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRES  238 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------H
T ss_pred             hHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHH
Confidence            356667777777888888888887765432111111     12234445566678888888888777 33332      2


Q ss_pred             HHHHHHHHHHHHc--CCHHHHHHHHHHHhhcCC
Q 043490          383 VIWSVLLGSCRKH--GETRLAELAATKLKQLEP  413 (589)
Q Consensus       383 ~~~~~ll~~~~~~--g~~~~a~~~~~~~~~~~p  413 (589)
                      .....++.++...  +.+++|+..|+.+.+++|
T Consensus       239 ~~l~~l~~a~~~~d~e~~~eai~~y~~~~~lD~  271 (290)
T d1qqea_         239 NFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDK  271 (290)
T ss_dssp             HHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCH
Confidence            2345555665542  346666666665555543

>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=98.40  E-value=5.3e-07  Score=70.64  Aligned_cols=90  Identities=16%  Similarity=0.089  Sum_probs=81.2

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcC
Q 043490          353 YACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSG  430 (589)
Q Consensus       353 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  430 (589)
                      +-.+...+.+.|++++|...|++. ...|+ ...|..+..++.+.|++++|+..++++++++|.++.++..|+..|...|
T Consensus        19 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          19 PMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCC
Confidence            334567788899999999999988 44564 8999999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHH
Q 043490          431 SFNKARLIRKEM  442 (589)
Q Consensus       431 ~~~~a~~~~~~m  442 (589)
                      ++++|.+.+++.
T Consensus        99 ~~~~A~~~l~~~  110 (112)
T d1hxia_          99 NANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH
Confidence            999999999875

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.36  E-value=6.5e-07  Score=78.35  Aligned_cols=97  Identities=11%  Similarity=-0.017  Sum_probs=75.3

Q ss_pred             cCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHH
Q 043490          348 PQLDHYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNI  425 (589)
Q Consensus       348 p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  425 (589)
                      |+...+......|.+.|++++|+..|++. ...| +...|..+..+|.+.|+++.|+..++++++++|.++.+|..++.+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~   81 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   81 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHHH
Confidence            44455556667788888888888888776 4445 477788888888888888888888888888888888888888888


Q ss_pred             hhhcCChHHHHHHHHHHhc
Q 043490          426 YCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       426 ~~~~g~~~~a~~~~~~m~~  444 (589)
                      |.+.|++++|...|++..+
T Consensus        82 ~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          82 QLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            8888888888888877654

>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=98.29  E-value=4.7e-06  Score=69.69  Aligned_cols=119  Identities=13%  Similarity=-0.018  Sum_probs=93.3

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHH
Q 043490          317 FVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCR  393 (589)
Q Consensus       317 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~  393 (589)
                      +....+.+.+.|++++|...|+..++.   .| +...|..+...|...|++++|...|++. .+.|+ ...|..+..++.
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~   89 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNM   89 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhcccc---chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHH
Confidence            334456777888999999999888754   34 5667888888899999999999999887 44564 789999999999


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHh--hhcCChHHHHHH
Q 043490          394 KHGETRLAELAATKLKQLEPGDSLGFVQMSNIY--CLSGSFNKARLI  438 (589)
Q Consensus       394 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~--~~~g~~~~a~~~  438 (589)
                      ..|++++|...++++.+++|.++..+..+..+.  ...+.++++...
T Consensus        90 ~~g~~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          90 ALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            999999999999999999999988877765553  344456556544

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.26  E-value=2.6e-05  Score=67.25  Aligned_cols=133  Identities=12%  Similarity=-0.051  Sum_probs=68.8

Q ss_pred             CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcC
Q 043490          151 SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLV  230 (589)
Q Consensus       151 g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~  230 (589)
                      |+++.|.+.|+++.+++...|..+...|             ...|++++|++.|++.++.. +-+...|..+..++.+.|
T Consensus        19 ~d~~~Al~~~~~i~~~~~~~~~nlG~~~-------------~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g   84 (192)
T d1hh8a_          19 KDWKGALDAFSAVQDPHSRICFNIGCMY-------------TILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTE   84 (192)
T ss_dssp             TCHHHHHHHHHTSSSCCHHHHHHHHHHH-------------HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHhcCCCCHHHHHHHHHHH-------------HHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhc
Confidence            6666666666666666666666666666             66666666666666655532 223445555555555555


Q ss_pred             cHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-
Q 043490          231 TERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYH-DLVSWNSILKAYALHGQAKEALQLFSNM-  308 (589)
Q Consensus       231 ~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m-  308 (589)
                      +.++|...++..+... +.+...      .|...|.          ..+. ...++..+..+|.+.|++++|.+.|+.. 
T Consensus        85 ~~~~A~~~~~kAl~~~-~~n~~~------~~~~~~~----------~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~  147 (192)
T d1hh8a_          85 KYDLAIKDLKEALIQL-RGNQLI------DYKILGL----------QFKLFACEVLYNIAFMYAKKEEWKKAEEQLALAT  147 (192)
T ss_dssp             CHHHHHHHHHHHHHTT-TTCSEE------ECGGGTB----------CCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhC-ccCchH------HHHHhhh----------hcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            5555555555544321 100000      0000000          0000 0134455666777777777777777777 


Q ss_pred             CCCCCH
Q 043490          309 NVQPDS  314 (589)
Q Consensus       309 ~~~p~~  314 (589)
                      ...|+.
T Consensus       148 ~~~~~~  153 (192)
T d1hh8a_         148 SMKSEP  153 (192)
T ss_dssp             TTCCSG
T ss_pred             hcCCCc
Confidence            655553

>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=98.25  E-value=2.8e-06  Score=71.19  Aligned_cols=90  Identities=12%  Similarity=0.039  Sum_probs=82.5

Q ss_pred             HHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHH
Q 043490          357 VDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNK  434 (589)
Q Consensus       357 i~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  434 (589)
                      ...|.+.|++++|+..|++. .+.|+ ...|..+...|...|++++|...++++++++|.+..+|..++.+|...|++++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~e   96 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRA   96 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCHHH
Confidence            45688999999999999988 44564 88999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCC
Q 043490          435 ARLIRKEMKGSR  446 (589)
Q Consensus       435 a~~~~~~m~~~~  446 (589)
                      |...+++.....
T Consensus        97 A~~~~~~a~~~~  108 (159)
T d1a17a_          97 ALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHS
T ss_pred             HHHHHHHHHHcC
Confidence            999999987643

>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=98.17  E-value=1.2e-05  Score=67.87  Aligned_cols=84  Identities=11%  Similarity=-0.073  Sum_probs=72.0

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhc
Q 043490          352 HYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLS  429 (589)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  429 (589)
                      +|+.+..+|.+.|++++|+..+++. .+.| ++..|..+..++...|++++|...|+++++++|.++.+...+..+..+.
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~  143 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRI  143 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            4667788899999999999999887 5556 5889999999999999999999999999999999999988888887766


Q ss_pred             CChHHH
Q 043490          430 GSFNKA  435 (589)
Q Consensus       430 g~~~~a  435 (589)
                      +...+.
T Consensus       144 ~~~~~~  149 (170)
T d1p5qa1         144 RRQLAR  149 (170)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            655544

>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=98.09  E-value=1.1e-05  Score=63.75  Aligned_cols=103  Identities=17%  Similarity=-0.021  Sum_probs=80.4

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCC---HHHHHHHHHhC-CCCCC---HHHHHHHH
Q 043490          318 VSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGR---ILEAEKLIREM-PMEPD---SVIWSVLL  389 (589)
Q Consensus       318 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~---~~~A~~~~~~m-~~~p~---~~~~~~ll  389 (589)
                      ..+++.+...+++++|.+.|+...+.   .| +..++..+..++.+.++   +++|+.+++++ ...|+   ..+|..|.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~---~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg   79 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAA---GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLA   79 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH---SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhh---CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHH
Confidence            45777888889999999999988754   34 55677788888877554   45689999887 44443   34778899


Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHH
Q 043490          390 GSCRKHGETRLAELAATKLKQLEPGDSLGFVQMS  423 (589)
Q Consensus       390 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  423 (589)
                      .+|.+.|++++|++.++++++++|++..+...+.
T Consensus        80 ~~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~  113 (122)
T d1nzna_          80 VGNYRLKEYEKALKYVRGLLQTEPQNNQAKELER  113 (122)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHH
Confidence            9999999999999999999999998876655443

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.95  E-value=8.6e-05  Score=62.31  Aligned_cols=92  Identities=10%  Similarity=-0.038  Sum_probs=74.0

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhc
Q 043490          352 HYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLS  429 (589)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  429 (589)
                      .|+.+..+|.+.|++++|+..+++. .+.| +..+|..+..++...|++++|+..++++++++|+++.+...+..+..+.
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~  145 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKA  145 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            4666778889999999999999887 4445 4888999999999999999999999999999999998888888877666


Q ss_pred             CChHH-HHHHHHHHh
Q 043490          430 GSFNK-ARLIRKEMK  443 (589)
Q Consensus       430 g~~~~-a~~~~~~m~  443 (589)
                      +...+ ..+++..|-
T Consensus       146 ~~~~e~~kk~~~~~f  160 (168)
T d1kt1a1         146 KEHNERDRRTYANMF  160 (168)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHH
Confidence            65543 445555443

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.91  E-value=0.0048  Score=57.16  Aligned_cols=248  Identities=10%  Similarity=0.020  Sum_probs=117.1

Q ss_pred             HHHHHHhc-CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 043490          143 ALINMYSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSI  221 (589)
Q Consensus       143 ~li~~y~~-g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~  221 (589)
                      .++..|.+ ++++.|.+++.+..  +..+|..+...+             .+.....-|     ++...+...+......
T Consensus        45 rl~~~~v~l~~~~~avd~~~k~~--~~~~~k~~~~~l-------------~~~~e~~la-----~i~~~~~~~~~d~l~~  104 (336)
T d1b89a_          45 RLASTLVHLGEYQAAVDGARKAN--STRTWKEVCFAC-------------VDGKEFRLA-----QMCGLHIVVHADELEE  104 (336)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHT--CHHHHHHHHHHH-------------HHTTCHHHH-----HHTTTTTTTCHHHHHH
T ss_pred             HHHHHHHhhccHHHHHHHHHHcC--CHHHHHHHHHHH-------------HhCcHHHHH-----HHHHHHhhcCHHHHHH
Confidence            34444444 55555554444332  344555555555             444433221     1222223344555556


Q ss_pred             HHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC-CCh----------hHHHHHHH
Q 043490          222 VLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY-HDL----------VSWNSILK  290 (589)
Q Consensus       222 ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~----------~~~~~li~  290 (589)
                      ++..+-..|.+++...++....... ..+...++-++..|++.+. ++-.+.+..... -|+          ..|.-++-
T Consensus       105 ~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~~-~kl~e~l~~~s~~y~~~k~~~~c~~~~l~~elv~  182 (336)
T d1b89a_         105 LINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKP-QKMREHLELFWSRVNIPKVLRAAEQAHLWAELVF  182 (336)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCH-HHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhCh-HHHHHHHHhccccCCHHHHHHHHHHcCChHHHHH
Confidence            6666666666666666666554332 4455566666667766542 333333332211 111          11333344


Q ss_pred             HHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHH
Q 043490          291 AYALHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAE  370 (589)
Q Consensus       291 ~~~~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  370 (589)
                      .|.+.|++++|..+.-+-  .|+.......+..+.+..+.+...++.......   .|  ...+.|+......-+..+..
T Consensus       183 Ly~~~~~~~~A~~~~i~~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~---~p--~~i~~lL~~v~~~~d~~r~V  255 (336)
T d1b89a_         183 LYDKYEEYDNAIITMMNH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF---KP--LLLNDLLMVLSPRLDHTRAV  255 (336)
T ss_dssp             HHHHTTCHHHHHHHHHHS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH---CG--GGHHHHHHHHGGGCCHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHc--chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc---CH--HHHHHHHHHhccCCCHHHHH
Confidence            444444444444333221  122222222333444445555444444433321   12  23344444444444444444


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHH
Q 043490          371 KLIREMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRK  440 (589)
Q Consensus       371 ~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  440 (589)
                      +.+                   .+.++.......++...+.+  +..+..+|..+|...++++.-++..+
T Consensus       256 ~~~-------------------~k~~~l~li~p~Le~v~~~n--~~~vn~al~~lyie~~d~~~l~~~i~  304 (336)
T d1b89a_         256 NYF-------------------SKVKQLPLVKPYLRSVQNHN--NKSVNESLNNLFITEEDYQALRTSID  304 (336)
T ss_dssp             HHH-------------------HHTTCTTTTHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHH-------------------HhcCCcHHHHHHHHHHHHcC--hHHHHHHHHHHHhCcchhHHHHHHHH
Confidence            444                   34445555555665554433  45678889999999988766554443

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.89  E-value=4.4e-05  Score=64.24  Aligned_cols=84  Identities=11%  Similarity=-0.027  Sum_probs=69.4

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhh
Q 043490          350 LDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYC  427 (589)
Q Consensus       350 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  427 (589)
                      ...|..+..+|.+.|++++|+..+++. .+.|+ ...|..+..++...|+++.|+..|+++++++|++..++..|..++.
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~  156 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQ  156 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            446677788899999999999999888 66675 8889999999999999999999999999999999888888777665


Q ss_pred             hcCChH
Q 043490          428 LSGSFN  433 (589)
Q Consensus       428 ~~g~~~  433 (589)
                      +.....
T Consensus       157 ~l~~~~  162 (169)
T d1ihga1         157 KIKAQK  162 (169)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            544333

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.89  E-value=0.0026  Score=57.16  Aligned_cols=220  Identities=11%  Similarity=-0.046  Sum_probs=127.3

Q ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHhhcCC-CChhHHHHHHHHH
Q 043490          218 TFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYAR----CGSISLSKQVFDKMTY-HDLVSWNSILKAY  292 (589)
Q Consensus       218 t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~  292 (589)
                      .+..+...+.+.++.++|.+.|+...+.|   +...+..|..+|..    ..+...|...+..... .+...+..+...+
T Consensus         4 ~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~~~a~~~l~~~~   80 (265)
T d1ouva_           4 ELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLY   80 (265)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccccchhhcccccc
Confidence            33334444445556666666666665554   33444445555554    3456666666655542 2344444444444


Q ss_pred             HH----cCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHh----ccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhh-
Q 043490          293 AL----HGQAKEALQLFSNM-NVQPDSATFVSLLSACS----HAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGR-  362 (589)
Q Consensus       293 ~~----~g~~~~A~~~~~~m-~~~p~~~t~~~ll~a~~----~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~-  362 (589)
                      ..    ..+.+.|...++.. ...+.. ....+...+.    .......+...+.....    ..+...+..|...|.. 
T Consensus        81 ~~~~~~~~~~~~a~~~~~~a~~~g~~~-a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~  155 (265)
T d1ouva_          81 YSGQGVSQNTNKALQYYSKACDLKYAE-GCASLGGIYHDGKVVTRDFKKAVEYFTKACD----LNDGDGCTILGSLYDAG  155 (265)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHTTCHH-HHHHHHHHHHHCSSSCCCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHT
T ss_pred             ccccccchhhHHHHHHHhhhhhhhhhh-HHHhhcccccCCCcccchhHHHHHHhhhhhc----ccccchhhhhhhhhccC
Confidence            33    34566676666666 222211 1111211111    23455666666655432    2344556666666654 


Q ss_pred             ---cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhh----cCC
Q 043490          363 ---VGRILEAEKLIREMPMEPDSVIWSVLLGSCRK----HGETRLAELAATKLKQLEPGDSLGFVQMSNIYCL----SGS  431 (589)
Q Consensus       363 ---~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~  431 (589)
                         ..+...+...++...-..+......|...+..    ..+++.|...|++..+.+  ++..+..|..+|.+    ..+
T Consensus       156 ~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n  233 (265)
T d1ouva_         156 RGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE--NGGGCFNLGAMQYNGEGVTRN  233 (265)
T ss_dssp             SSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCC
T ss_pred             CCcccccccchhhhhccccccccccccchhhhcccCcccccchhhhhhhHhhhhccc--CHHHHHHHHHHHHcCCCCccC
Confidence               44666777777665223356666666655654    568999999999998875  46778888888876    448


Q ss_pred             hHHHHHHHHHHhcCCC
Q 043490          432 FNKARLIRKEMKGSRV  447 (589)
Q Consensus       432 ~~~a~~~~~~m~~~~~  447 (589)
                      .++|.+.|++..+.|.
T Consensus       234 ~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         234 EKQAIENFKKGCKLGA  249 (265)
T ss_dssp             STTHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHCcC
Confidence            8999999998877765

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.88  E-value=0.00011  Score=60.55  Aligned_cols=75  Identities=9%  Similarity=-0.104  Sum_probs=58.3

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHh
Q 043490          352 HYACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIY  426 (589)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  426 (589)
                      +|+.+...|.+.|++++|++.+++. .+.| +..+|..+..++...|+++.|...|+++++++|.+..+...+..+.
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~  145 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCV  145 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            5666777888888888888888876 4455 4788888888888888888888888888888888877766554443

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.87  E-value=6.5e-05  Score=63.20  Aligned_cols=111  Identities=9%  Similarity=-0.024  Sum_probs=80.2

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC
Q 043490          317 FVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHG  396 (589)
Q Consensus       317 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g  396 (589)
                      +......+.+.|++++|...|...+......+.....            .......+       -..+|+.+..+|.+.|
T Consensus        16 l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~------------~~~~~~~~-------~~~~~~nla~~y~k~~   76 (170)
T d1p5qa1          16 VKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNE------------EAQKAQAL-------RLASHLNLAMCHLKLQ   76 (170)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSH------------HHHHHHHH-------HHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchH------------HHhhhchh-------HHHHHHHHHHHHHhhh
Confidence            4444556777777777777777765432222211100            00000000       1346777888899999


Q ss_pred             CHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          397 ETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       397 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      ++++|+..++++++++|.++.+|..++.+|...|++++|...|++..+.+
T Consensus        77 ~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  126 (170)
T d1p5qa1          77 AFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY  126 (170)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999987643

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.84  E-value=2.5e-05  Score=62.34  Aligned_cols=90  Identities=9%  Similarity=0.053  Sum_probs=73.8

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChh-------HHHHHHHH
Q 043490          355 CMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSL-------GFVQMSNI  425 (589)
Q Consensus       355 ~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~-------~~~~l~~~  425 (589)
                      .+...|.+.|++++|++.|++. .+.| +...|..+..+|.+.|+++.|+..++++++++|.+..       +|..+...
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~   88 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNS   88 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHH
Confidence            4566788888888888888777 4445 4888999999999999999999999999998876654       56667778


Q ss_pred             hhhcCChHHHHHHHHHHhc
Q 043490          426 YCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       426 ~~~~g~~~~a~~~~~~m~~  444 (589)
                      +...+++++|.+.+++...
T Consensus        89 ~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHh
Confidence            8888999999999987643

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.82  E-value=0.00017  Score=59.26  Aligned_cols=65  Identities=11%  Similarity=-0.006  Sum_probs=59.8

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          382 SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       382 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      ..+|..+..+|.+.|++++|+..++++++++|.+..+|..++.+|...|++++|...|++..+.+
T Consensus        67 ~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          67 ISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            35677888999999999999999999999999999999999999999999999999999887643

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.82  E-value=7.3e-05  Score=58.76  Aligned_cols=98  Identities=7%  Similarity=-0.047  Sum_probs=71.0

Q ss_pred             HHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCH---HHHHHHHhhcCCCC--h---hHHHHHHHH
Q 043490          220 SIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSI---SLSKQVFDKMTYHD--L---VSWNSILKA  291 (589)
Q Consensus       220 ~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~~--~---~~~~~li~~  291 (589)
                      ..+++.+...+++++|++.|+..++.+ +.+..++..+..++.+.++.   ++|..+|+++...+  .   .+|..+..+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            356667777788888888888888877 66778888888888775544   45888888776432  2   256677788


Q ss_pred             HHHcCCHHHHHHHHHhC-CCCCCHHHHH
Q 043490          292 YALHGQAKEALQLFSNM-NVQPDSATFV  318 (589)
Q Consensus       292 ~~~~g~~~~A~~~~~~m-~~~p~~~t~~  318 (589)
                      |.+.|++++|++.|+++ .+.|+..-..
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~P~~~~A~  109 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTEPQNNQAK  109 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHhCcCCHHHH
Confidence            88888888888888888 7777654333

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.73  E-value=9.6e-05  Score=62.56  Aligned_cols=120  Identities=12%  Similarity=0.003  Sum_probs=84.7

Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCH
Q 043490          319 SLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRKHGET  398 (589)
Q Consensus       319 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~  398 (589)
                      .........|++++|.+.|...+.-+   +....-     .+....-......-++.    -....+..+..++...|++
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l~---rG~~l~-----~~~~~~w~~~~r~~l~~----~~~~a~~~la~~~~~~g~~   83 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALREW---RGPVLD-----DLRDFQFVEPFATALVE----DKVLAHTAKAEAEIACGRA   83 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTC---CSSTTG-----GGTTSTTHHHHHHHHHH----HHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhC---cccccc-----cCcchHHHHHHHHHHHH----HHHHHHHHHHHHHHHCCCc
Confidence            34456778899999999998886432   221100     00000001111111111    1256778899999999999


Q ss_pred             HHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHh-----cCCCccC
Q 043490          399 RLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMK-----GSRVRKY  450 (589)
Q Consensus       399 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-----~~~~~~~  450 (589)
                      ++|...++++++.+|.+...|..++.+|.+.|++++|.+.|+++.     +.|+.|.
T Consensus        84 ~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~  140 (179)
T d2ff4a2          84 SAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPG  140 (179)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCC
T ss_pred             hHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcC
Confidence            999999999999999999999999999999999999999999874     3566543

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.67  E-value=0.011  Score=52.69  Aligned_cols=224  Identities=11%  Similarity=-0.088  Sum_probs=148.7

Q ss_pred             ChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhC----cCcHHHHHHHHHHH
Q 043490          167 NVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAG----LVTERHASAVHSLI  242 (589)
Q Consensus       167 ~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~----~~~~~~a~~i~~~~  242 (589)
                      |+..+..+...+             .+.+++++|++.|++..+.|   |...+..|-..+..    ..+...+...+...
T Consensus         1 ~p~~~~~lG~~~-------------~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a   64 (265)
T d1ouva_           1 DPKELVGLGAKS-------------YKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKA   64 (265)
T ss_dssp             CHHHHHHHHHHH-------------HHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH-------------HHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccc
Confidence            344566666666             77889999999999988876   44444445555543    56889999999988


Q ss_pred             HHhCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHhhcCCC-ChhHHHHHHHHHHH----cCCHHHHHHHHHhCCCCCC
Q 043490          243 AKYGFEDDTVIANALIHAYAR----CGSISLSKQVFDKMTYH-DLVSWNSILKAYAL----HGQAKEALQLFSNMNVQPD  313 (589)
Q Consensus       243 ~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~p~  313 (589)
                      .+.+   +......|...+..    ..+.+.|...++...+. ...+...+...+..    ......+...+....-..+
T Consensus        65 ~~~~---~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  141 (265)
T d1ouva_          65 CDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLND  141 (265)
T ss_dssp             HHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             cccc---ccchhhccccccccccccchhhHHHHHHHhhhhhhhhhhHHHhhcccccCCCcccchhHHHHHHhhhhhcccc
Confidence            8876   33445555555543    46788898888876533 34444444444443    3456677777776622345


Q ss_pred             HHHHHHHHHHHhc----cCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhh----cCCHHHHHHHHHhCCCCCCHHHH
Q 043490          314 SATFVSLLSACSH----AGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGR----VGRILEAEKLIREMPMEPDSVIW  385 (589)
Q Consensus       314 ~~t~~~ll~a~~~----~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~p~~~~~  385 (589)
                      ...+..+...+..    ..+...+...++...+. |   +......|..+|..    ..++++|...|++....-++..+
T Consensus       142 ~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~-g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~~~a~  217 (265)
T d1ouva_         142 GDGCTILGSLYDAGRGTPKDLKKALASYDKACDL-K---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELENGGGC  217 (265)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cchhhhhhhhhccCCCcccccccchhhhhccccc-c---ccccccchhhhcccCcccccchhhhhhhHhhhhcccCHHHH
Confidence            5666666666654    45777888888776432 2   44555556656654    56899999999988222356666


Q ss_pred             HHHHHHHHH----cCCHHHHHHHHHHHhhcCC
Q 043490          386 SVLLGSCRK----HGETRLAELAATKLKQLEP  413 (589)
Q Consensus       386 ~~ll~~~~~----~g~~~~a~~~~~~~~~~~p  413 (589)
                      ..|...|..    .++.+.|.+.|++..+.+.
T Consensus       218 ~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         218 FNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             HHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            667776664    3478899999999988775

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.65  E-value=6.2e-05  Score=58.29  Aligned_cols=88  Identities=14%  Similarity=-0.029  Sum_probs=78.3

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-CcchHHHHHHHHHhC
Q 043490           10 TLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPK--R-NVVSWTALISGYAQH   86 (589)
Q Consensus        10 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~~~~~   86 (589)
                      .+...+.+.|++++|...++.+++..|   .++.++..+...|.+.|++++|+..|++..+  | +..+|..+...|...
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~p---~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKEP---EREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHST---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhccccc---ccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHC
Confidence            355667889999999999999998877   7899999999999999999999999998653  3 678999999999999


Q ss_pred             CChhHHHHHHHHHH
Q 043490           87 GNAEECFRLFCSLL  100 (589)
Q Consensus        87 g~~~~A~~~~~~m~  100 (589)
                      |++++|++.|++.+
T Consensus        98 g~~~~A~~~l~~~l  111 (112)
T d1hxia_          98 HNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHh
Confidence            99999999998753

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.62  E-value=0.00012  Score=61.53  Aligned_cols=64  Identities=8%  Similarity=-0.048  Sum_probs=60.2

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcC
Q 043490          382 SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGS  445 (589)
Q Consensus       382 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  445 (589)
                      ...|..+..++.+.|++++|+..++++++++|.++.+|..++.+|...|++++|...|++..+.
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            6677888899999999999999999999999999999999999999999999999999998864

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.58  E-value=1.2e-05  Score=81.04  Aligned_cols=220  Identities=9%  Similarity=-0.043  Sum_probs=117.5

Q ss_pred             HHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcH-HHHHHHHHHHHhcCCHHHHHHHHh
Q 043490          198 EEALFLFRQLQREGMAPDW-CTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDT-VIANALIHAYARCGSISLSKQVFD  275 (589)
Q Consensus       198 ~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~-~~~~~li~~~~~~g~~~~A~~~~~  275 (589)
                      -+|.+.|++..+  ++||. ..+..+..++...++++++   ++.++...  |+- ...+...... + ..+..+.+.++
T Consensus         3 ~eA~q~~~qA~~--l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~d--p~~a~~~~~e~~Lw-~-~~y~~~ie~~r   73 (497)
T d1ya0a1           3 LQSAQYLRQAEV--LKADMTDSKLGPAEVWTSRQALQDL---YQKMLVTD--LEYALDKKVEQDLW-N-HAFKNQITTLQ   73 (497)
T ss_dssp             HHHHHHHHHHHH--HHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHC--HHHHHHHTHHHHHH-H-HHTHHHHHHHH
T ss_pred             HHHHHHHHHHHH--cCCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcC--hhhHHHHhHHHHHH-H-HHHHHHHHHHH
Confidence            367888888776  34543 2334444445555566554   55555442  221 1122111111 1 11233444444


Q ss_pred             hcC----CCChhHHHHHHHH--HHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCc
Q 043490          276 KMT----YHDLVSWNSILKA--YALHGQAKEALQLFSNM-NVQPD-SATFVSLLSACSHAGLVQEGNKVFHSMLENHGVV  347 (589)
Q Consensus       276 ~~~----~~~~~~~~~li~~--~~~~g~~~~A~~~~~~m-~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~  347 (589)
                      ...    .++..-......+  +...+.++.|+..+++. ++.|+ ...+..+...+.+.|+.++|...+....+.   .
T Consensus        74 ~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~---~  150 (497)
T d1ya0a1          74 GQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY---I  150 (497)
T ss_dssp             HHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC-------------------------------CCHHHHH---H
T ss_pred             HhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC---C
Confidence            432    1222222222222  23356677888877777 66664 446677777788888888888877655432   1


Q ss_pred             cCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHH
Q 043490          348 PQLDHYACMVDLLGRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNI  425 (589)
Q Consensus       348 p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  425 (589)
                      | ...+..+.+.+...|++++|...|++. .+.|+ ...|+.|...+...|+..+|...|.+.+..+|+.+.++..|...
T Consensus       151 ~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~  229 (497)
T d1ya0a1         151 C-QHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKA  229 (497)
T ss_dssp             H-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHH
T ss_pred             H-HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence            2 246777888889999999999999888 55676 78899999999999999999999999999998888888888887


Q ss_pred             hhhcC
Q 043490          426 YCLSG  430 (589)
Q Consensus       426 ~~~~g  430 (589)
                      |.+..
T Consensus       230 ~~~~~  234 (497)
T d1ya0a1         230 LSKAL  234 (497)
T ss_dssp             HHHHT
T ss_pred             HHHhh
Confidence            76543

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.51  E-value=2.9e-05  Score=78.05  Aligned_cols=199  Identities=14%  Similarity=0.029  Sum_probs=106.3

Q ss_pred             HHHHHHHHHHHHhCCCCcHHHHH--HHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCCHHHHHHHHHh
Q 043490          233 RHASAVHSLIAKYGFEDDTVIAN--ALIHAYARCGSISLSKQVFDKMT---YHDLVSWNSILKAYALHGQAKEALQLFSN  307 (589)
Q Consensus       233 ~~a~~i~~~~~~~g~~~~~~~~~--~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~  307 (589)
                      ..+.+.++...+..-.++..-..  .+...+...+.++.|...+....   .++...|..+...+.+.|+.++|...+++
T Consensus        66 ~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~  145 (497)
T d1ya0a1          66 KNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSS  145 (497)
T ss_dssp             HHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC-------------------------------CCH
T ss_pred             HHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHH
Confidence            34555555555444333322221  12223334566777777776654   34556788888888999999999888776


Q ss_pred             C-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHH
Q 043490          308 M-NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM-PM-EPDSV  383 (589)
Q Consensus       308 m-~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-~p~~~  383 (589)
                      . ...| ..++..+...+...|++++|...|....+.   .| +...|+.|...|...|+..+|...|.+. .+ .|-..
T Consensus       146 al~~~~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l---~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~  221 (497)
T d1ya0a1         146 SCSYIC-QHCLVHLGDIARYRNQTSQAESYYRHAAQL---VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPA  221 (497)
T ss_dssp             HHHHHH-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHH
T ss_pred             HhCCCH-HHHHHHHHHHHHHcccHHHHHHHHHHHHHH---CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHH
Confidence            6 3222 257778888999999999999999988743   56 4568999999999999999999999887 33 45588


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC---hhHHHHHHHHhhhcCChHHHHHHHHHH
Q 043490          384 IWSVLLGSCRKHGETRLAELAATKLKQLEPGD---SLGFVQMSNIYCLSGSFNKARLIRKEM  442 (589)
Q Consensus       384 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m  442 (589)
                      ++..|...+.+..+...+       .+..+..   ...+..+...+...+.+++..++.+++
T Consensus       222 a~~nL~~~~~~~~~~~~~-------~~~~~~~~~~~~~f~~~~~~l~~~~~~~~~~~~~~~~  276 (497)
T d1ya0a1         222 ASTNLQKALSKALESRDE-------VKTKWGVSDFIKAFIKFHGHVYLSKSLEKLSPLREKL  276 (497)
T ss_dssp             HHHHHHHHHHHHTTSCCC-------CCSSCCHHHHHHHHHHHHHHHHHTCCGGGHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhhhh-------hccccccchHHHHHHHHHHHHHhCCchhhHHHHHHHH
Confidence            888888777654322111       0011111   223445555556666666655554433

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.49  E-value=0.00043  Score=57.83  Aligned_cols=64  Identities=16%  Similarity=0.057  Sum_probs=58.7

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          383 VIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       383 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      .+|..+..+|.+.|++++|+..++++++++|.+..+|..++.+|...|++++|...|++..+..
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~  128 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  128 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            4566677889999999999999999999999999999999999999999999999999987643

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.36  E-value=0.00014  Score=59.12  Aligned_cols=75  Identities=15%  Similarity=0.084  Sum_probs=47.6

Q ss_pred             HHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHcC-----------CHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCCh
Q 043490          366 ILEAEKLIREM-PMEPD-SVIWSVLLGSCRKHG-----------ETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSF  432 (589)
Q Consensus       366 ~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g-----------~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  432 (589)
                      +++|+..|++. .+.|+ ..+|..+..+|...|           +++.|.+.|+++++++|.+...+..|....      
T Consensus        57 ~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~~------  130 (145)
T d1zu2a1          57 IQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTA------  130 (145)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH------
T ss_pred             HHHHHHHHHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHHHH------
Confidence            34555555554 33443 556666666555443           368899999999999998876666665543      


Q ss_pred             HHHHHHHHHHhcCCC
Q 043490          433 NKARLIRKEMKGSRV  447 (589)
Q Consensus       433 ~~a~~~~~~m~~~~~  447 (589)
                       .|.+++.+..++|+
T Consensus       131 -ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         131 -KAPQLHAEAYKQGL  144 (145)
T ss_dssp             -THHHHHHHHHHSSS
T ss_pred             -HHHHHHHHHHHHhc
Confidence             45566666655554

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.31  E-value=0.0018  Score=50.98  Aligned_cols=91  Identities=11%  Similarity=-0.020  Sum_probs=46.6

Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhcCCcc-CcchHHHHHHHHhhcCCHHHHHHHHHhC----CCCCC-----HHHHHHHH
Q 043490          320 LLSACSHAGLVQEGNKVFHSMLENHGVVP-QLDHYACMVDLLGRVGRILEAEKLIREM----PMEPD-----SVIWSVLL  389 (589)
Q Consensus       320 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~-----~~~~~~ll  389 (589)
                      +...+...|++++|.+.|...++.   .| +...+..+..+|.+.|++++|+..++++    +-.+.     ..+|..+.
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKEL---DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh---CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            344444455555555555444432   22 3334444555555555555555555443    10111     23455566


Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCC
Q 043490          390 GSCRKHGETRLAELAATKLKQLEP  413 (589)
Q Consensus       390 ~~~~~~g~~~~a~~~~~~~~~~~p  413 (589)
                      ..+...++++.|...+++.+...|
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~~~~  110 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLAEHR  110 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcCC
Confidence            666667777777777777766655

>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=97.22  E-value=0.0011  Score=49.03  Aligned_cols=70  Identities=14%  Similarity=0.088  Sum_probs=50.5

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC--------CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHH
Q 043490          355 CMVDLLGRVGRILEAEKLIREM--------PMEPD-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSN  424 (589)
Q Consensus       355 ~li~~~~~~g~~~~A~~~~~~m--------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  424 (589)
                      .+...+.+.|++++|...|++.        ...++ ..++..|..++.+.|++++|+..++++++++|+++.++..+..
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl~~   88 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNLKY   88 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHHHH
Confidence            3444455555555555555443        11233 6778889999999999999999999999999999888777643

>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=97.16  E-value=0.0007  Score=55.62  Aligned_cols=63  Identities=11%  Similarity=-0.202  Sum_probs=49.9

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCC-------C----ChhHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          382 SVIWSVLLGSCRKHGETRLAELAATKLKQLEP-------G----DSLGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       382 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p-------~----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      ...|+.+..+|...|++++|...+++.+++.|       .    ...++..+..+|...|++++|...|++..+
T Consensus        55 a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          55 AFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            45677888888888999888888888776432       1    123577899999999999999999998764

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.14  E-value=0.00017  Score=58.69  Aligned_cols=85  Identities=11%  Similarity=-0.002  Sum_probs=59.3

Q ss_pred             hhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHH----------cCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhh
Q 043490          361 GRVGRILEAEKLIREM-PMEPD-SVIWSVLLGSCRK----------HGETRLAELAATKLKQLEPGDSLGFVQMSNIYCL  428 (589)
Q Consensus       361 ~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~----------~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  428 (589)
                      -+.+.+++|.+.|+.. .+.|+ ..++..+..++..          .+.+++|+..++++++++|.++.+|..++.+|..
T Consensus         8 ~r~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~   87 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTS   87 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHHHHH
Confidence            3444555666655555 33343 4555555545442          3456889999999999999999999999999987


Q ss_pred             cCC-----------hHHHHHHHHHHhcC
Q 043490          429 SGS-----------FNKARLIRKEMKGS  445 (589)
Q Consensus       429 ~g~-----------~~~a~~~~~~m~~~  445 (589)
                      .|+           +++|.+.|++..+.
T Consensus        88 ~g~~~~~~~~~~~~~~~A~~~~~kal~l  115 (145)
T d1zu2a1          88 FAFLTPDETEAKHNFDLATQFFQQAVDE  115 (145)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccchhhHHHHHHhHHHhhhhhhccccc
Confidence            764           57788888877653

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.04  E-value=0.0032  Score=52.77  Aligned_cols=56  Identities=13%  Similarity=0.093  Sum_probs=30.6

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 043490          353 YACMVDLLGRVGRILEAEKLIREM-PMEP-DSVIWSVLLGSCRKHGETRLAELAATKL  408 (589)
Q Consensus       353 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~  408 (589)
                      +..+...+.+.|++++|+..++++ ...| +...|..++.++...|+.++|.+.|+++
T Consensus        70 ~~~la~~~~~~g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~  127 (179)
T d2ff4a2          70 HTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRV  127 (179)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            444555555555555555555555 3333 3555555555555555555555555554

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.03  E-value=0.12  Score=47.41  Aligned_cols=243  Identities=12%  Similarity=0.086  Sum_probs=129.9

Q ss_pred             CChhHHHHHHHHHHccCCHHHHHHHHHHHHHhCCCCCCChhHHHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHHHHHH
Q 043490            3 HSTQIYATLFHACALHGNIKQAMQLHEHMINNFPNEPQDLFVTNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISG   82 (589)
Q Consensus         3 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~   82 (589)
                      ||..-...+.+.|-+.|.++.|..+|..+.        |   +..++..|.+.+++..|.+++.+..  +..+|..+...
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~--------d---~~rl~~~~v~l~~~~~avd~~~k~~--~~~~~k~~~~~   78 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS--------N---FGRLASTLVHLGEYQAAVDGARKAN--STRTWKEVCFA   78 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT--------C---HHHHHHHHHTTTCHHHHHHHHHHHT--CHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC--------C---HHHHHHHHHhhccHHHHHHHHHHcC--CHHHHHHHHHH
Confidence            344445567778888888888888887552        2   4667778888888888888877553  56688888888


Q ss_pred             HHhCCChhHHHHHHHHHHhc-cCCCceeHHHHHHHhc----hhhHHHHHHHHHHhcC-CCchhHHHHHHHHHhcCCHHHH
Q 043490           83 YAQHGNAEECFRLFCSLLQY-FFPNEFSLASVLISCD----YLHGKLVHALALKFSL-DAHVYVANALINMYSKSCADEA  156 (589)
Q Consensus        83 ~~~~g~~~~A~~~~~~m~~~-~~p~~~t~~~~l~a~~----~~~~~~~~~~~~~~g~-~~~~~~~~~li~~y~~g~~~~A  156 (589)
                      +.+.....-|.     +... ...+......++..+-    .+.--.++...+  +. ..+..+++-++..|++-+.+.-
T Consensus        79 l~~~~e~~la~-----i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~--~~~~~~~~~~~~L~~lyak~~~~kl  151 (336)
T d1b89a_          79 CVDGKEFRLAQ-----MCGLHIVVHADELEELINYYQDRGYFEELITMLEAAL--GLERAHMGMFTELAILYSKFKPQKM  151 (336)
T ss_dssp             HHHTTCHHHHH-----HTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHT--TSTTCCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhCcHHHHHH-----HHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHH--cCCccchHHHHHHHHHHHHhChHHH
Confidence            88776554331     1111 1122222333333332    121122222222  22 4566678889999999333444


Q ss_pred             HHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHH
Q 043490          157 WKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHAS  236 (589)
Q Consensus       157 ~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~  236 (589)
                      .+.+....  +.....-++..|-+.+.+.++.-+|.+.|++++|+.+.-   ..  .++..-....+..+.+..+.+...
T Consensus       152 ~e~l~~~s--~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i---~~--~~~~~~~~~f~e~~~k~~N~e~~~  224 (336)
T d1b89a_         152 REHLELFW--SRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMM---NH--PTDAWKEGQFKDIITKVANVELYY  224 (336)
T ss_dssp             HHHHHHHS--TTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHH---HS--TTTTCCHHHHHHHHHHCSSTHHHH
T ss_pred             HHHHHhcc--ccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHH---Hc--chhhhhHHHHHHHHHccCChHHHH
Confidence            44343322  233445567888888888899999999999998876642   21  233333334445555666666655


Q ss_pred             HHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhh
Q 043490          237 AVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDK  276 (589)
Q Consensus       237 ~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  276 (589)
                      ++....++.  .|  ...+.|+......-+.....+.|++
T Consensus       225 ~~i~~yL~~--~p--~~i~~lL~~v~~~~d~~r~V~~~~k  260 (336)
T d1b89a_         225 RAIQFYLEF--KP--LLLNDLLMVLSPRLDHTRAVNYFSK  260 (336)
T ss_dssp             HHHHHHHHH--CG--GGHHHHHHHHGGGCCHHHHHHHHHH
T ss_pred             HHHHHHHHc--CH--HHHHHHHHHhccCCCHHHHHHHHHh
Confidence            555555543  22  2334455555555555555555443

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.78  E-value=0.005  Score=50.21  Aligned_cols=62  Identities=13%  Similarity=-0.032  Sum_probs=41.9

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC--------CCCCC-----HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCC
Q 043490          352 HYACMVDLLGRVGRILEAEKLIREM--------PMEPD-----SVIWSVLLGSCRKHGETRLAELAATKLKQLEP  413 (589)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~~~m--------~~~p~-----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  413 (589)
                      .|+.+..+|...|++++|.+.+++.        ...++     ...+..+..+|...|++++|...|++++++.|
T Consensus        57 ~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~  131 (156)
T d2hr2a1          57 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIE  131 (156)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence            3555556666666666666555543        12222     23567778899999999999999999988754

>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=96.73  E-value=0.0013  Score=59.02  Aligned_cols=25  Identities=8%  Similarity=0.021  Sum_probs=12.1

Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCCC
Q 043490          390 GSCRKHGETRLAELAATKLKQLEPG  414 (589)
Q Consensus       390 ~~~~~~g~~~~a~~~~~~~~~~~p~  414 (589)
                      ..+...|+.++|...++++.+..|.
T Consensus       107 ~~~~~~gd~~~A~~~~~~a~e~~p~  131 (264)
T d1zbpa1         107 NLSMVSQDYEQVSELALQIEELRQE  131 (264)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCCC
T ss_pred             HHHHhCCCHHHHHHHHHHHHhcCCC
Confidence            3344445555555555555544443

>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=96.67  E-value=0.0023  Score=57.41  Aligned_cols=114  Identities=8%  Similarity=-0.050  Sum_probs=58.0

Q ss_pred             CcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-ChhHHHHHHHHHHHcCCHHHHHHH
Q 043490          228 GLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTY--H-DLVSWNSILKAYALHGQAKEALQL  304 (589)
Q Consensus       228 ~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~  304 (589)
                      +.|++++|...++..++.. |.|...+..|...|+..|++++|.+.|+...+  | +...+..+...+...+..+++..-
T Consensus         8 ~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a~~~   86 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDFAQG   86 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHHHHH
Confidence            4466666666666666654 55666666666666666666666666666542  2 223333333333333333333222


Q ss_pred             HHhC-C-CCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 043490          305 FSNM-N-VQP-DSATFVSLLSACSHAGLVQEGNKVFHSMLE  342 (589)
Q Consensus       305 ~~~m-~-~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  342 (589)
                      .... - ..| +...+......+...|+.++|.+.++.+.+
T Consensus        87 ~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e  127 (264)
T d1zbpa1          87 AATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  127 (264)
T ss_dssp             CCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Confidence            2221 1 112 223333444455566777777776666644

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.43  E-value=0.0087  Score=43.91  Aligned_cols=65  Identities=14%  Similarity=-0.031  Sum_probs=53.9

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCC-------hhHHHHHHHHhhhcCChHHHHHHHHHHhcCC
Q 043490          382 SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGD-------SLGFVQMSNIYCLSGSFNKARLIRKEMKGSR  446 (589)
Q Consensus       382 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  446 (589)
                      ...+-.+...+.+.|+++.|+..+++++++.|.+       ..++..|+.+|.+.|++++|+..+++..+..
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            3344567888999999999999999998765432       4578899999999999999999999987643

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=95.84  E-value=0.12  Score=38.71  Aligned_cols=139  Identities=9%  Similarity=-0.013  Sum_probs=88.7

Q ss_pred             HcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHH
Q 043490          294 LHGQAKEALQLFSNMNVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLI  373 (589)
Q Consensus       294 ~~g~~~~A~~~~~~m~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  373 (589)
                      -.|..++..++..+.--..+..-|+.++.-....-+-+-..+.++.+-+-+.+              ..++++.....-+
T Consensus        14 ldG~ve~Gveii~k~~~ss~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDl--------------s~C~Nlk~vv~C~   79 (161)
T d1wy6a1          14 LDGYIDEGVKIVLEITKSSTKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL--------------DKCQNLKSVVECG   79 (161)
T ss_dssp             HTTCHHHHHHHHHHHHHHSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG--------------GGCSCTHHHHHHH
T ss_pred             HhhhHHhHHHHHHHHcccCCccccceeeeecccccchHHHHHHHHHHhhhcCc--------------hhhhcHHHHHHHH
Confidence            34555555555555411112334444444444444444444444444222222              2345555555555


Q ss_pred             HhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHHhcCCCc
Q 043490          374 REMPMEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEMKGSRVR  448 (589)
Q Consensus       374 ~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  448 (589)
                      -.++  .+...+...+.....+|+-+.-.++++.+.+.+..++.....++++|-+.|...++..++.+.-++|++
T Consensus        80 ~~~n--~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          80 VINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            5443  244556677888899999999999999988877668899999999999999999999999999999985

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=95.14  E-value=1.4  Score=41.82  Aligned_cols=351  Identities=10%  Similarity=-0.004  Sum_probs=190.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHHhc--cCCCceeHHHHHHHhchhhH
Q 043490           45 TNHLINMYAKFGYLDDARHLFDEMPKRNVVSWTALISGYAQHGNAEECFRLFCSLLQY--FFPNEFSLASVLISCDYLHG  122 (589)
Q Consensus        45 ~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~p~~~t~~~~l~a~~~~~~  122 (589)
                      ...-+..+.+.+++......+..-+ ++...--....+..+.|+..+|...+..+-..  ..|+.              .
T Consensus        75 r~~~l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~p~~--------------c  139 (450)
T d1qsaa1          75 QSRFVNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPNA--------------C  139 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCTH--------------H
T ss_pred             HHHHHHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCchH--------------H
Confidence            3444567777888877776654322 23444446677888899999998888777655  33432              2


Q ss_pred             HHHHHHHHHhcCCCchhHHHHHHHHHhcCCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHH
Q 043490          123 KLVHALALKFSLDAHVYVANALINMYSKSCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALF  202 (589)
Q Consensus       123 ~~~~~~~~~~g~~~~~~~~~~li~~y~~g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~  202 (589)
                      ..++....+.|...+...+..+..++..|+...|..+...++..........+...             ......   ..
T Consensus       140 ~~l~~~~~~~~~lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~-------------~~p~~~---~~  203 (450)
T d1qsaa1         140 DKLFSVWRASGKQDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLA-------------NNPNTV---LT  203 (450)
T ss_dssp             HHHHHHHHHTTCSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHH-------------HCGGGH---HH
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHH-------------hChHhH---HH
Confidence            33455555555544445555544444449999999999888765555556665554             211111   11


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHhC--cCcHHHHHHHHHHHHHhCCCCcHHHH---HHHHHHHHhcCCHHHHHHHHhhc
Q 043490          203 LFRQLQREGMAPDWCTFSIVLKACAG--LVTERHASAVHSLIAKYGFEDDTVIA---NALIHAYARCGSISLSKQVFDKM  277 (589)
Q Consensus       203 ~~~~m~~~g~~p~~~t~~~ll~a~~~--~~~~~~a~~i~~~~~~~g~~~~~~~~---~~li~~~~~~g~~~~A~~~~~~~  277 (589)
                      ..   ..  ..++......+..+..+  ..+.+.+..++...............   ..+.......+..+.+...+...
T Consensus       204 ~~---~~--~~~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~  278 (450)
T d1qsaa1         204 FA---RT--TGATDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDA  278 (450)
T ss_dssp             HH---HH--SCCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHH
T ss_pred             HH---hc--CCCChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhh
Confidence            11   11  12233333333333322  23556666666665544322111111   11222223345556666655544


Q ss_pred             C--CCChhHHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCccCcchH
Q 043490          278 T--YHDLVSWNSILKAYALHGQAKEALQLFSNM--NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGVVPQLDHY  353 (589)
Q Consensus       278 ~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~  353 (589)
                      .  ..+.....-.+......+++..+...|+.|  ...-...-.--+..+....|+.++|..+|.....    .++  -|
T Consensus       279 ~~~~~~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~----~~~--fY  352 (450)
T d1qsaa1         279 IMRSQSTSLIERRVRMALGTGDRRGLNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ----QRG--FY  352 (450)
T ss_dssp             HHTCCCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT----SCS--HH
T ss_pred             cccccchHHHHHHHHHHHHcCChHHHHHHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc----CCC--hH
Confidence            3  223322222444455677888888888888  2222334445566778888888888888887642    222  34


Q ss_pred             HHHHHHHhhcCCHHHHHHHH-HhCCCCCC-HHH---HHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhh
Q 043490          354 ACMVDLLGRVGRILEAEKLI-REMPMEPD-SVI---WSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCL  428 (589)
Q Consensus       354 ~~li~~~~~~g~~~~A~~~~-~~m~~~p~-~~~---~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  428 (589)
                      ..|...  +.|..-   .+- ...+..++ ...   -..-+..+...|....|...+..+.+..  ++.....++....+
T Consensus       353 G~LAa~--~Lg~~~---~~~~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~  425 (450)
T d1qsaa1         353 PMVAAQ--RIGEEY---ELKIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFN  425 (450)
T ss_dssp             HHHHHH--HTTCCC---CCCCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHH
T ss_pred             HHHHHH--HcCCCC---CCCcCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCC--CHHHHHHHHHHHHH
Confidence            333221  111100   000 00011111 111   1123455678899999999888876533  45567788888889


Q ss_pred             cCChHHHHHHHHHHhc
Q 043490          429 SGSFNKARLIRKEMKG  444 (589)
Q Consensus       429 ~g~~~~a~~~~~~m~~  444 (589)
                      .|.++.|+....+...
T Consensus       426 ~g~~~~aI~a~~~~~~  441 (450)
T d1qsaa1         426 NQWWDLSVQATIAGKL  441 (450)
T ss_dssp             TTCHHHHHHHHHHTTC
T ss_pred             CCChhHHHHHHHHHHc
Confidence            9999999888776643

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=93.35  E-value=0.81  Score=35.02  Aligned_cols=75  Identities=8%  Similarity=-0.016  Sum_probs=42.3

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHh----cCCHHHHH
Q 043490          196 NEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYAR----CGSISLSK  271 (589)
Q Consensus       196 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~A~  271 (589)
                      ++++|+++|++..+.|.. .  ....+  +.....+.++|...+....+.|   ++.....|..+|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~~-~--a~~~l--~~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM-F--GCLSL--VSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT-T--HHHHH--HTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCh-h--hhhhh--ccccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            567777777777766532 1  11122  1234456777777777777766   34445555555554    23455565


Q ss_pred             HHHhhcC
Q 043490          272 QVFDKMT  278 (589)
Q Consensus       272 ~~~~~~~  278 (589)
                      ++|++..
T Consensus        80 ~~~~~aa   86 (133)
T d1klxa_          80 QYYSKAC   86 (133)
T ss_dssp             HHHHHHH
T ss_pred             HHHhhhh
Confidence            5555543

>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=92.69  E-value=4.2  Score=38.34  Aligned_cols=260  Identities=11%  Similarity=-0.015  Sum_probs=107.1

Q ss_pred             HHHHhc-CCHHHHHHHHhhCCCCChhHHHHHHHHHHcCCcHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCCHHHHHHH
Q 043490          145 INMYSK-SCADEAWKVFENMEFRNVISWNSMIAAFRACKLEAQAIELFAKMKNEEEALFLFRQLQREGM-APDWCTFSIV  222 (589)
Q Consensus       145 i~~y~~-g~~~~A~~lf~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~l  222 (589)
                      +..+.+ ++.+.....+..-+ .+...--....+.             .+.|+..+|...+..+-..|. .|+.      
T Consensus        79 l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~-------------~~~g~~~~a~~~~~~lW~~~~~~p~~------  138 (450)
T d1qsaa1          79 VNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAK-------------WNTGQSEEAWQGAKELWLTGKSQPNA------  138 (450)
T ss_dssp             HHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHH-------------HHTTCHHHHHHHHHHHHSCSSCCCTH------
T ss_pred             HHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHH-------------HHcCChHHHHHHHHHHHhcCCCCchH------
Confidence            344555 66666555443322 2333333445555             666777777666666655442 2222      


Q ss_pred             HHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCHHHHH
Q 043490          223 LKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSKQVFDKMTYHDLVSWNSILKAYALHGQAKEAL  302 (589)
Q Consensus       223 l~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  302 (589)
                                  ...++..+.+.| ..+...+-.-+......|+...|..+...+...........+.....-   ..+.
T Consensus       139 ------------c~~l~~~~~~~~-~lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~p---~~~~  202 (450)
T d1qsaa1         139 ------------CDKLFSVWRASG-KQDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNP---NTVL  202 (450)
T ss_dssp             ------------HHHHHHHHHHTT-CSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCG---GGHH
T ss_pred             ------------HHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhCh---HhHH
Confidence                        122333334433 223333333444455556666666666655543333333333332221   1112


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHhc--cCcHHHHHHHHHHhHHhcCCccCcc--hHHHHHHHHhhcCCHHHHHHHHHhC-C
Q 043490          303 QLFSNMNVQPDSATFVSLLSACSH--AGLVQEGNKVFHSMLENHGVVPQLD--HYACMVDLLGRVGRILEAEKLIREM-P  377 (589)
Q Consensus       303 ~~~~~m~~~p~~~t~~~ll~a~~~--~g~~~~a~~~~~~~~~~~~~~p~~~--~~~~li~~~~~~g~~~~A~~~~~~m-~  377 (589)
                      ......  .++......+..+..+  ..+.+.+..++..........++..  ....+...+...+..+.|...+... .
T Consensus       203 ~~~~~~--~~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~  280 (450)
T d1qsaa1         203 TFARTT--GATDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIM  280 (450)
T ss_dssp             HHHHHS--CCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHH
T ss_pred             HHHhcC--CCChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcc
Confidence            111111  1122221122222211  2344555555555433322222111  0111111222334445555444443 1


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhHHHHHHHHhhhcCChHHHHHHHHHH
Q 043490          378 MEPDSVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLGFVQMSNIYCLSGSFNKARLIRKEM  442 (589)
Q Consensus       378 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  442 (589)
                      ...+.....-.+......++...+...++.+.......+....=++.++...|+.++|...|...
T Consensus       281 ~~~~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~  345 (450)
T d1qsaa1         281 RSQSTSLIERRVRMALGTGDRRGLNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQL  345 (450)
T ss_dssp             TCCCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHHHcCChHHHHHHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHHHHHH
Confidence            11222222223333344455555555555443222222333344555555666666666555554

>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=92.22  E-value=1.2  Score=34.05  Aligned_cols=111  Identities=9%  Similarity=-0.093  Sum_probs=74.0

Q ss_pred             cHHHHHHHHHHhHHhcCCccCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHH
Q 043490          329 LVQEGNKVFHSMLENHGVVPQLDHYACMVDLLGRVGRILEAEKLIREMPMEPDSVIWSVLLGSCRK----HGETRLAELA  404 (589)
Q Consensus       329 ~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~----~g~~~~a~~~  404 (589)
                      ++++|.++|++..+. |   +...+..|.  .....+.++|++++++.--.-+......|...|..    ..+.++|.+.
T Consensus         8 d~~~A~~~~~kaa~~-g---~~~a~~~l~--~~~~~~~~~a~~~~~~aa~~g~~~a~~~Lg~~y~~g~~~~~d~~~A~~~   81 (133)
T d1klxa_           8 DLKKAIQYYVKACEL-N---EMFGCLSLV--SNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQY   81 (133)
T ss_dssp             HHHHHHHHHHHHHHT-T---CTTHHHHHH--TCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHC-C---Chhhhhhhc--cccccCHHHHHHHHhhhhcccchhhhhhHHHhhhhccccchhhHHHHHH
Confidence            667778888776443 3   222232332  23456778888888876212245555555555554    4578999999


Q ss_pred             HHHHhhcCCCChhHHHHHHHHhhh----cCChHHHHHHHHHHhcCCC
Q 043490          405 ATKLKQLEPGDSLGFVQMSNIYCL----SGSFNKARLIRKEMKGSRV  447 (589)
Q Consensus       405 ~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~  447 (589)
                      |++..+.+  ++.....|..+|..    ..+.++|.+++++..+.|.
T Consensus        82 ~~~aa~~g--~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          82 YSKACGLN--DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HhhhhccC--cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            99988765  45677778888876    4688899999998887775

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.64  E-value=0.75  Score=34.58  Aligned_cols=64  Identities=9%  Similarity=-0.070  Sum_probs=34.4

Q ss_pred             CHHHHHHHHHHHHHcC---CHHHHHHHHHHHhhcCCCCh-hHHHHHHHHhhhcCChHHHHHHHHHHhc
Q 043490          381 DSVIWSVLLGSCRKHG---ETRLAELAATKLKQLEPGDS-LGFVQMSNIYCLSGSFNKARLIRKEMKG  444 (589)
Q Consensus       381 ~~~~~~~ll~~~~~~g---~~~~a~~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~a~~~~~~m~~  444 (589)
                      ...+.-....++.++.   +.++|+.+++.+.+.+|.+. ..+..|+-+|.+.|++++|.+.++.+.+
T Consensus        34 s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          34 TIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             CHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            3333333444444332   33456666666665555443 3455666666666666666666666554

>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=89.79  E-value=2.9  Score=31.11  Aligned_cols=137  Identities=11%  Similarity=0.107  Sum_probs=84.9

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCHHHHH
Q 043490          192 AKMKNEEEALFLFRQLQREGMAPDWCTFSIVLKACAGLVTERHASAVHSLIAKYGFEDDTVIANALIHAYARCGSISLSK  271 (589)
Q Consensus       192 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~  271 (589)
                      .-.|..++..++..+....   .+..-|+.++--....-+-+...+.++.+-+.   -|          ..+|+++....
T Consensus        13 ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FD----------ls~C~Nlk~vv   76 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FD----------LDKCQNLKSVV   76 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SC----------GGGCSCTHHHH
T ss_pred             HHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cC----------chhhhcHHHHH
Confidence            4567777777777777653   34455555555444444555544444433221   11          12344554444


Q ss_pred             HHHhhcCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCC
Q 043490          272 QVFDKMTYHDLVSWNSILKAYALHGQAKEALQLFSNM--NVQPDSATFVSLLSACSHAGLVQEGNKVFHSMLENHGV  346 (589)
Q Consensus       272 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  346 (589)
                      ..+-.+- .+....+.-+..+.+.|+-++-.++++.+  +-+|++.....+..||.+.|...++.+++.+.-++ |+
T Consensus        77 ~C~~~~n-~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~-G~  151 (161)
T d1wy6a1          77 ECGVINN-TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKK-GE  151 (161)
T ss_dssp             HHHHHTT-CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TC
T ss_pred             HHHHHhc-chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH-hH
Confidence            4444432 23344555677778888888888888885  66778888888888888888888888888877654 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=87.81  E-value=2  Score=32.07  Aligned_cols=63  Identities=16%  Similarity=0.039  Sum_probs=45.6

Q ss_pred             HHHHHhhc---CCHHHHHHHHHhC-CCCC-C-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCChhH
Q 043490          356 MVDLLGRV---GRILEAEKLIREM-PMEP-D-SVIWSVLLGSCRKHGETRLAELAATKLKQLEPGDSLG  418 (589)
Q Consensus       356 li~~~~~~---g~~~~A~~~~~~m-~~~p-~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  418 (589)
                      ..-++.+.   .++++++.++++. ...| + ...|-.|.-+|.+.|+++.|.+.++++++.+|.+..+
T Consensus        41 YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA  109 (124)
T d2pqrb1          41 YAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  109 (124)
T ss_dssp             HHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHH
Confidence            33444443   3456777777776 2234 3 3567778888999999999999999999999988654