Citrus Sinensis ID: 012804

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450------
Protein Sequence
MFGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKISH
Secondary Structure (PSIPRED)
ccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHccccHHHHHHHHHHHcccccEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
MFGKLSTRLLNICVCTFCKANRLEKAEAIIIDgirlgvlpdvvTYNMLIDAYCQFVSFDAGYTILNRMreagispdvvtynsliagatRNSLLSCSLDLLDEMLemgippdvwsynsLMHCLFqlgkpdeanrvfqdmicgdltpctaTFNIMLNglcknrytDNALRMFRGlqkhgfvpelVTYNILIKGLCKAGRLRTARWILKElgdsghapnaiTYTTIMKccfrnrkyKLGLEILSAMKRkgytfdgfGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKqgfecdkythTILIDGLCKAGNIKGARLHLEYMNkigfdsnlEAYNCIVDrlgkdgkidhAINVFEsmevkdsfTYSSMVHNlckakrlpsASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKISH
Flexible Loop (DISEMBL)
mfgklstrllnICVCTFCKANRLEKAEAiiidgirlgVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKelgdsghapnaiTYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKavvdglrhsgcrreakkiqskirmakish
Low Complexity Region (SEG)
MFGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSllscsldlldemlemGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRlpsasklllsclksGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKISH
Disordered region (IsUnstruct)
*****STRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLR**********************
Disordered Region (DISOPRED)
MFGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKI**
Disordered Region (DISEMBL)
MFGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRH*********************
Disordered Region (DISPRO)
*FGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMA****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MFGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKISH
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	456	2.2.26 [Sep-21-2011]
P0C043	463	Putative pentatricopeptid	yes	no	0.995	0.980	0.537	1e-139
Q56XR6	468	Pentatricopeptide repeat-	yes	no	0.986	0.961	0.496	1e-128
Q3EDF8	598	Pentatricopeptide repeat-	no	no	0.918	0.700	0.297	2e-56
Q9SR00	602	Pentatricopeptide repeat-	no	no	0.912	0.691	0.302	2e-55
Q9LVQ5	1096	Pentatricopeptide repeat-	no	no	0.855	0.355	0.319	2e-54
Q9LQ16	632	Pentatricopeptide repeat-	no	no	0.964	0.696	0.279	1e-53
Q9SXD1	630	Pentatricopeptide repeat-	no	no	0.964	0.698	0.281	4e-52
Q9FIX3	747	Pentatricopeptide repeat-	no	no	0.953	0.582	0.296	1e-51
Q9CAN0	630	Pentatricopeptide repeat-	no	no	0.964	0.698	0.274	3e-51
Q9CAN6	590	Pentatricopeptide repeat-	no	no	0.899	0.694	0.298	4e-51

>sp|P0C043|PP318_ARATH Putative pentatricopeptide repeat-containing protein At4g17915 OS=Arabidopsis thaliana GN=At4g17915 PE=3 SV=1

 Score =  497 bits (1279), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 245/456 (53%), Positives = 327/456 (71%), Gaps = 2/456 (0%)

Query: 2   FGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAG 61
           F  LSTRLLNICV + CK  +LEKAE++IIDGIRLGV PDVVTYN LI  YC+FV  +  
Sbjct: 8   FTGLSTRLLNICVDSLCKFRKLEKAESLIIDGIRLGVDPDVVTYNTLISGYCRFVGIEEA 67

Query: 62  YTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHC 121
           Y +  RMR+AGI PDV TYNSLIAGA R  +L   L L DEMLE GI PD+WSYN+LM C
Sbjct: 68  YAVTRRMRDAGIRPDVATYNSLIAGAARRLMLDHVLYLFDEMLEWGIYPDLWSYNTLMCC 127

Query: 122 LFQLGKPDEANRV-FQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVP 180
            F+LGK +EA RV ++D+    L P   T+N++L+ LCK  Y DNAL +F+ +Q   F P
Sbjct: 128 YFKLGKHEEAFRVLYKDLQLAGLNPGPDTYNVLLDALCKCGYIDNALELFKEMQSR-FKP 186

Query: 181 ELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEIL 240
           EL+TYNILI GLCK+ R+ TA+W+L EL  SG+ PNA+TYTTI+K  F+ R+ + GL++ 
Sbjct: 187 ELMTYNILINGLCKSRRVGTAKWMLTELKKSGYTPNAVTYTTILKLYFKTRRIRRGLQLF 246

Query: 241 SAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKE 300
             MKR+GYT+DG+ Y  V++A +K GR KEA +YM+++V  G + DIVSYNTL+NLY K+
Sbjct: 247 LEMKREGYTYDGYAYFAVVSALIKTGRTKEAYEYMQELVRKGRRHDIVSYNTLLNLYFKD 306

Query: 301 GKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAY 360
           G L+A   LL E+E++G + D+YTHTI+++GL + G  + A  H   M ++G   NL   
Sbjct: 307 GNLDAVDDLLGEIERRGMKADEYTHTIIVNGLLRTGQTRRAEEHFVSMGEMGIGLNLVTC 366

Query: 361 NCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVR 420
           NC+VD L K G +D A+  FESMEVKD +TY+S+VHNLCK  R   ASKLLLSC   G++
Sbjct: 367 NCLVDGLCKAGHVDRAMRYFESMEVKDEYTYTSVVHNLCKDMRFVCASKLLLSCYNKGIK 426

Query: 421 ILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKISH 456
           I  SA++AV+ GLR SGC  EA+K ++++++  + +
Sbjct: 427 IPTSARRAVLSGLRMSGCYGEARKAKAEMKLTLVGN 462

Arabidopsis thaliana (taxid: 3702)

>sp|Q56XR6|PP421_ARATH Pentatricopeptide repeat-containing protein At5g46680 OS=Arabidopsis thaliana GN=At5g46680 PE=2 SV=2

 Score =  458 bits (1178), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 225/453 (49%), Positives = 316/453 (69%), Gaps = 3/453 (0%)

Query: 2   FGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAG 61
           F  +ST+LLNI V + CK   LE+AE ++IDGIRLGVLPDV+TYN LI  Y +F+  D  
Sbjct: 8   FPGISTKLLNISVNSLCKFRNLERAETLLIDGIRLGVLPDVITYNTLIKGYTRFIGIDEA 67

Query: 62  YTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHC 121
           Y +  RMREAGI PDV TYNSLI+GA +N +L+  L L DEML  G+ PD+WSYN+LM C
Sbjct: 68  YAVTRRMREAGIEPDVTTYNSLISGAAKNLMLNRVLQLFDEMLHSGLSPDMWSYNTLMSC 127

Query: 122 LFQLGKPDEANRVF-QDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVP 180
            F+LG+  EA ++  +D+    L P   T+NI+L+ LCK+ +TDNA+ +F+ L K    P
Sbjct: 128 YFKLGRHGEAFKILHEDIHLAGLVPGIDTYNILLDALCKSGHTDNAIELFKHL-KSRVKP 186

Query: 181 ELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEIL 240
           EL+TYNILI GLCK+ R+ +  W+++EL  SG+ PNA+TYTT++K  F+ ++ + GL++ 
Sbjct: 187 ELMTYNILINGLCKSRRVGSVDWMMRELKKSGYTPNAVTYTTMLKMYFKTKRIEKGLQLF 246

Query: 241 SAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQ-LDIVSYNTLINLYCK 299
             MK++GYTFDGF  C V++A +K GR +EA + M ++V  G +  DIVSYNTL+NLY K
Sbjct: 247 LKMKKEGYTFDGFANCAVVSALIKTGRAEEAYECMHELVRSGTRSQDIVSYNTLLNLYFK 306

Query: 300 EGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEA 359
           +G L+A   LL+E+E +G + D YTHTI+++GL   GN  GA  HL  + ++G   ++  
Sbjct: 307 DGNLDAVDDLLEEIEMKGLKPDDYTHTIIVNGLLNIGNTGGAEKHLACIGEMGMQPSVVT 366

Query: 360 YNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGV 419
            NC++D L K G +D A+ +F SMEV+D FTY+S+VHNLCK  RL  ASKLLLSC   G+
Sbjct: 367 CNCLIDGLCKAGHVDRAMRLFASMEVRDEFTYTSVVHNLCKDGRLVCASKLLLSCYNKGM 426

Query: 420 RILKSAQKAVVDGLRHSGCRREAKKIQSKIRMA 452
           +I  SA++AV+ G+R +   + A+K   KI+ A
Sbjct: 427 KIPSSARRAVLSGIRETVSYQAARKTHIKIKAA 459

Arabidopsis thaliana (taxid: 3702)

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

 Score =  219 bits (559), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 129/434 (29%), Positives = 233/434 (53%), Gaps = 15/434 (3%)

Query: 17  FCKANRLEKAEAI--IIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGIS 74
           FC+  +  KA  I  I++G   G +PDV+TYN++I  YC+    +   ++L+RM    +S
Sbjct: 147 FCRLGKTRKAAKILEILEGS--GAVPDVITYNVMISGYCKAGEINNALSVLDRM---SVS 201

Query: 75  PDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRV 134
           PDVVTYN+++     +  L  ++++LD ML+    PDV +Y  L+    +      A ++
Sbjct: 202 PDVVTYNTILRSLCDSGKLKQAMEVLDRMLQRDCYPDVITYTILIEATCRDSGVGHAMKL 261

Query: 135 FQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCK 194
             +M     TP   T+N+++NG+CK    D A++    +   G  P ++T+NI+++ +C 
Sbjct: 262 LDEMRDRGCTPDVVTYNVLVNGICKEGRLDEAIKFLNDMPSSGCQPNVITHNIILRSMCS 321

Query: 195 AGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLG--LEILSAMKRKGYTFDG 252
            GR   A  +L ++   G +P+ +T+  ++   F  RK  LG  ++IL  M + G   + 
Sbjct: 322 TGRWMDAEKLLADMLRKGFSPSVVTFNILIN--FLCRKGLLGRAIDILEKMPQHGCQPNS 379

Query: 253 FGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDE 312
             Y  ++  F K  ++  A +Y+E+MV+ G   DIV+YNT++   CK+GK+E A  +L++
Sbjct: 380 LSYNPLLHGFCKEKKMDRAIEYLERMVSRGCYPDIVTYNTMLTALCKDGKVEDAVEILNQ 439

Query: 313 MEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGK 372
           +  +G      T+  +IDGL KAG    A   L+ M       +   Y+ +V  L ++GK
Sbjct: 440 LSSKGCSPVLITYNTVIDGLAKAGKTGKAIKLLDEMRAKDLKPDTITYSSLVGGLSREGK 499

Query: 373 IDHAINVFESMEV----KDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKA 428
           +D AI  F   E      ++ T++S++  LCK+++   A   L+  +  G +  +++   
Sbjct: 500 VDEAIKFFHEFERMGIRPNAVTFNSIMLGLCKSRQTDRAIDFLVFMINRGCKPNETSYTI 559

Query: 429 VVDGLRHSGCRREA 442
           +++GL + G  +EA
Sbjct: 560 LIEGLAYEGMAKEA 573

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SR00|PP213_ARATH Pentatricopeptide repeat-containing protein At3g04760, chloroplastic OS=Arabidopsis thaliana GN=At3g04760 PE=2 SV=1

 Score =  216 bits (551), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 128/423 (30%), Positives = 220/423 (52%), Gaps = 7/423 (1%)

Query: 40  PDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDL 99
           PDV  YN LI+ +C+    D    +L+RMR    SPD VTYN +I        L  +L +
Sbjct: 156 PDVFAYNALINGFCKMNRIDDATRVLDRMRSKDFSPDTVTYNIMIGSLCSRGKLDLALKV 215

Query: 100 LDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCK 159
           L+++L     P V +Y  L+      G  DEA ++  +M+   L P   T+N ++ G+CK
Sbjct: 216 LNQLLSDNCQPTVITYTILIEATMLEGGVDEALKLMDEMLSRGLKPDMFTYNTIIRGMCK 275

Query: 160 NRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAIT 219
               D A  M R L+  G  P++++YNIL++ L   G+      ++ ++      PN +T
Sbjct: 276 EGMVDRAFEMVRNLELKGCEPDVISYNILLRALLNQGKWEEGEKLMTKMFSEKCDPNVVT 335

Query: 220 YTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMV 279
           Y+ ++    R+ K +  + +L  MK KG T D + Y  +IAAF + GRL  A +++E M+
Sbjct: 336 YSILITTLCRDGKIEEAMNLLKLMKEKGLTPDAYSYDPLIAAFCREGRLDVAIEFLETMI 395

Query: 280 TDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGN-I 338
           +DG   DIV+YNT++   CK GK + A  +  ++ + G   +  ++  +   L  +G+ I
Sbjct: 396 SDGCLPDIVNYNTVLATLCKNGKADQALEIFGKLGEVGCSPNSSSYNTMFSALWSSGDKI 455

Query: 339 KGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESM---EVKDS-FTYSSM 394
           +   + LE M+  G D +   YN ++  L ++G +D A  +   M   E   S  TY+ +
Sbjct: 456 RALHMILEMMSN-GIDPDEITYNSMISCLCREGMVDEAFELLVDMRSCEFHPSVVTYNIV 514

Query: 395 VHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSK-IRMAK 453
           +   CKA R+  A  +L S + +G R  ++    +++G+  +G R EA ++ +  +R+  
Sbjct: 515 LLGFCKAHRIEDAINVLESMVGNGCRPNETTYTVLIEGIGFAGYRAEAMELANDLVRIDA 574

Query: 454 ISH 456
           IS 
Sbjct: 575 ISE 577

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LVQ5|PP432_ARATH Pentatricopeptide repeat-containing protein At5g55840 OS=Arabidopsis thaliana GN=At5g55840 PE=2 SV=2

 Score =  213 bits (543), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 137/429 (31%), Positives = 221/429 (51%), Gaps = 39/429 (9%)

Query: 11  NICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMRE 70
           N  +  +CK  R + A  ++      GV  DV TYNMLI   C+      GY +L  MR+
Sbjct: 232 NTVLHWYCKKGRFKAAIELLDHMKSKGVDADVCTYNMLIHDLCRSNRIAKGYLLLRDMRK 291

Query: 71  AGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDE 130
             I P+ VTYN+LI G +    +  +  LL+EML  G+ P+  ++N+L+      G   E
Sbjct: 292 RMIHPNEVTYNTLINGFSNEGKVLIASQLLNEMLSFGLSPNHVTFNALIDGHISEGNFKE 351

Query: 131 ANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNA----LRMFR--------------- 171
           A ++F  M    LTP   ++ ++L+GLCKN   D A    +RM R               
Sbjct: 352 ALKMFYMMEAKGLTPSEVSYGVLLDGLCKNAEFDLARGFYMRMKRNGVCVGRITYTGMID 411

Query: 172 GLQKHGFV----------------PELVTYNILIKGLCKAGRLRTARWILKELGDSGHAP 215
           GL K+GF+                P++VTY+ LI G CK GR +TA+ I+  +   G +P
Sbjct: 412 GLCKNGFLDEAVVLLNEMSKDGIDPDIVTYSALINGFCKVGRFKTAKEIVCRIYRVGLSP 471

Query: 216 NAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYM 275
           N I Y+T++  C R    K  + I  AM  +G+T D F +  ++ +  K G++ EA ++M
Sbjct: 472 NGIIYSTLIYNCCRMGCLKEAIRIYEAMILEGHTRDHFTFNVLVTSLCKAGKVAEAEEFM 531

Query: 276 EQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKA 335
             M +DG+  + VS++ LIN Y   G+   A+ + DEM K G     +T+  L+ GLCK 
Sbjct: 532 RCMTSDGILPNTVSFDCLINGYGNSGEGLKAFSVFDEMTKVGHHPTFFTYGSLLKGLCKG 591

Query: 336 GNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESME----VKDSFTY 391
           G+++ A   L+ ++ +    +   YN ++  + K G +  A+++F  M     + DS+TY
Sbjct: 592 GHLREAEKFLKSLHAVPAAVDTVMYNTLLTAMCKSGNLAKAVSLFGEMVQRSILPDSYTY 651

Query: 392 SSMVHNLCK 400
           +S++  LC+
Sbjct: 652 TSLISGLCR 660

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LQ16|PPR94_ARATH Pentatricopeptide repeat-containing protein At1g62910 OS=Arabidopsis thaliana GN=At1g62910 PE=2 SV=1

 Score =  211 bits (536), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 124/444 (27%), Positives = 230/444 (51%), Gaps = 4/444 (0%)

Query: 11  NICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMRE 70
           +I +  FC+ ++L  A A++   ++LG  PD+VT + L++ YC          ++++M E
Sbjct: 122 SIFINCFCRRSQLSLALAVLAKMMKLGYEPDIVTLSSLLNGYCHSKRISDAVALVDQMVE 181

Query: 71  AGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDE 130
            G  PD  T+ +LI G   ++  S ++ L+D+M++ G  PD+ +Y ++++ L + G  D 
Sbjct: 182 MGYKPDTFTFTTLIHGLFLHNKASEAVALVDQMVQRGCQPDLVTYGTVVNGLCKRGDIDL 241

Query: 131 ANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIK 190
           A  + + M  G +      +N +++GLCK ++ D+AL +F  +   G  P++ TY+ LI 
Sbjct: 242 ALSLLKKMEKGKIEADVVIYNTIIDGLCKYKHMDDALNLFTEMDNKGIRPDVFTYSSLIS 301

Query: 191 GLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTF 250
            LC  GR   A  +L ++ +    PN +T++ ++    +  K     ++   M ++    
Sbjct: 302 CLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSIDP 361

Query: 251 DGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLL 310
           D F Y ++I  F    RL EA    E M++     ++V+Y+TLI  +CK  ++E    L 
Sbjct: 362 DIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYSTLIKGFCKAKRVEEGMELF 421

Query: 311 DEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKD 370
            EM ++G   +  T+T LI G  +A +   A++  + M  +G   N+  YN ++D L K+
Sbjct: 422 REMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSVGVHPNILTYNILLDGLCKN 481

Query: 371 GKIDHAINVFESME----VKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQ 426
           GK+  A+ VFE ++      D +TY+ M+  +CKA ++    +L  +    GV     A 
Sbjct: 482 GKLAKAMVVFEYLQRSTMEPDIYTYNIMIEGMCKAGKVEDGWELFCNLSLKGVSPNVIAY 541

Query: 427 KAVVDGLRHSGCRREAKKIQSKIR 450
             ++ G    G + EA  +  K++
Sbjct: 542 NTMISGFCRKGSKEEADSLLKKMK 565

Arabidopsis thaliana (taxid: 3702)

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

 Score =  206 bits (523), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 125/444 (28%), Positives = 227/444 (51%), Gaps = 4/444 (0%)

Query: 11  NICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMRE 70
           +I +  FC+ ++L  A A++   ++LG  P++VT + L++ YC          ++++M  
Sbjct: 120 SILINCFCRRSQLPLALAVLGKMMKLGYEPNIVTLSSLLNGYCHSKRISEAVALVDQMFV 179

Query: 71  AGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDE 130
            G  P+ VT+N+LI G   ++  S ++ L+D M+  G  PD+ +Y  +++ L + G  D 
Sbjct: 180 TGYQPNTVTFNTLIHGLFLHNKASEAMALIDRMVAKGCQPDLVTYGVVVNGLCKRGDTDL 239

Query: 131 ANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIK 190
           A  +   M  G L P    +N +++GLCK ++ D+AL +F+ ++  G  P +VTY+ LI 
Sbjct: 240 AFNLLNKMEQGKLEPGVLIYNTIIDGLCKYKHMDDALNLFKEMETKGIRPNVVTYSSLIS 299

Query: 191 GLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTF 250
            LC  GR   A  +L ++ +    P+  T++ ++    +  K     ++   M ++    
Sbjct: 300 CLCNYGRWSDASRLLSDMIERKINPDVFTFSALIDAFVKEGKLVEAEKLYDEMVKRSIDP 359

Query: 251 DGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLL 310
               Y ++I  F    RL EA    E MV+     D+V+YNTLI  +CK  ++E    + 
Sbjct: 360 SIVTYSSLINGFCMHDRLDEAKQMFEFMVSKHCFPDVVTYNTLIKGFCKYKRVEEGMEVF 419

Query: 311 DEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKD 370
            EM ++G   +  T+ ILI GL +AG+   A+   + M   G   N+  YN ++D L K+
Sbjct: 420 REMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGVPPNIMTYNTLLDGLCKN 479

Query: 371 GKIDHAINVFESMEVKDS----FTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQ 426
           GK++ A+ VFE ++        +TY+ M+  +CKA ++     L  +    GV+    A 
Sbjct: 480 GKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDLFCNLSLKGVKPDVVAY 539

Query: 427 KAVVDGLRHSGCRREAKKIQSKIR 450
             ++ G    G + EA  +  +++
Sbjct: 540 NTMISGFCRKGSKEEADALFKEMK 563

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FIX3|PP407_ARATH Pentatricopeptide repeat-containing protein At5g39710 OS=Arabidopsis thaliana GN=EMB2745 PE=2 SV=1

 Score =  204 bits (519), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 145/489 (29%), Positives = 220/489 (44%), Gaps = 54/489 (11%)

Query: 11  NICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMRE 70
           NI +  FC A  ++ A  +       G LP+VVTYN LID YC+    D G+ +L  M  
Sbjct: 209 NILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTYNTLIDGYCKLRKIDDGFKLLRSMAL 268

Query: 71  AGISP-----------------------------------DVVTYNSLIAGATRNSLLSC 95
            G+ P                                   D VTYN+LI G  +      
Sbjct: 269 KGLEPNLISYNVVINGLCREGRMKEVSFVLTEMNRRGYSLDEVTYNTLIKGYCKEGNFHQ 328

Query: 96  SLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLN 155
           +L +  EML  G+ P V +Y SL+H + + G  + A      M    L P   T+  +++
Sbjct: 329 ALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRVRGLCPNERTYTTLVD 388

Query: 156 GLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAP 215
           G  +  Y + A R+ R +  +GF P +VTYN LI G C  G++  A  +L+++ + G +P
Sbjct: 389 GFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGKMEDAIAVLEDMKEKGLSP 448

Query: 216 NAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYM 275
           + ++Y+T++    R+      L +   M  KG   D   Y ++I  F +  R KEA D  
Sbjct: 449 DVVSYSTVLSGFCRSYDVDEALRVKREMVEKGIKPDTITYSSLIQGFCEQRRTKEACDLY 508

Query: 276 EQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKA 335
           E+M+  G+  D  +Y  LIN YC EG LE A  L +EM ++G   D  T+++LI+GL K 
Sbjct: 509 EEMLRVGLPPDEFTYTALINAYCMEGDLEKALQLHNEMVEKGVLPDVVTYSVLINGLNKQ 568

Query: 336 GNIKGAR---LHLEYMNKIGFD----------SNLEAYNCI--VDRLGKDGKIDHAINVF 380
              + A+   L L Y   +  D          SN+E  + +  +      G +  A  VF
Sbjct: 569 SRTREAKRLLLKLFYEESVPSDVTYHTLIENCSNIEFKSVVSLIKGFCMKGMMTEADQVF 628

Query: 381 ESMEVK----DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHS 436
           ESM  K    D   Y+ M+H  C+A  +  A  L    +KSG  +      A+V  L   
Sbjct: 629 ESMLGKNHKPDGTAYNIMIHGHCRAGDIRKAYTLYKEMVKSGFLLHTVTVIALVKALHKE 688

Query: 437 GCRREAKKI 445
           G   E   +
Sbjct: 689 GKVNELNSV 697

Arabidopsis thaliana (taxid: 3702)

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

 Score =  203 bits (516), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 122/444 (27%), Positives = 225/444 (50%), Gaps = 4/444 (0%)

Query: 11  NICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMRE 70
           +I +  FC+ ++L  A A++   ++LG  PD+VT N L++ +C         +++ +M E
Sbjct: 120 SILINCFCRRSQLSLALAVLAKMMKLGYEPDIVTLNSLLNGFCHGNRISDAVSLVGQMVE 179

Query: 71  AGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDE 130
            G  PD  T+N+LI G  R++  S ++ L+D M+  G  PD+ +Y  +++ L + G  D 
Sbjct: 180 MGYQPDSFTFNTLIHGLFRHNRASEAVALVDRMVVKGCQPDLVTYGIVVNGLCKRGDIDL 239

Query: 131 ANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIK 190
           A  + + M  G + P    +N +++ LC  +  ++AL +F  +   G  P +VTYN LI+
Sbjct: 240 ALSLLKKMEQGKIEPGVVIYNTIIDALCNYKNVNDALNLFTEMDNKGIRPNVVTYNSLIR 299

Query: 191 GLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTF 250
            LC  GR   A  +L ++ +    PN +T++ ++    +  K     ++   M ++    
Sbjct: 300 CLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSIDP 359

Query: 251 DGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLL 310
           D F Y ++I  F    RL EA    E M++     ++V+YNTLI  +CK  +++    L 
Sbjct: 360 DIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVDEGMELF 419

Query: 311 DEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKD 370
            EM ++G   +  T+T LI G  +A     A++  + M   G   ++  Y+ ++D L  +
Sbjct: 420 REMSQRGLVGNTVTYTTLIHGFFQARECDNAQIVFKQMVSDGVLPDIMTYSILLDGLCNN 479

Query: 371 GKIDHAINVFESME----VKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQ 426
           GK++ A+ VFE ++      D +TY+ M+  +CKA ++     L  S    GV+      
Sbjct: 480 GKVETALVVFEYLQRSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGVKPNVVTY 539

Query: 427 KAVVDGLRHSGCRREAKKIQSKIR 450
             ++ G    G + EA  +  +++
Sbjct: 540 TTMMSGFCRKGLKEEADALFREMK 563

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAN6|PPR97_ARATH Pentatricopeptide repeat-containing protein At1g63070, mitochondrial OS=Arabidopsis thaliana GN=At1g63070 PE=1 SV=1

 Score =  202 bits (514), Expect = 4e-51,   Method: Compositional matrix adjust.
 Identities = 124/415 (29%), Positives = 210/415 (50%), Gaps = 5/415 (1%)

Query: 36  LGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSC 95
           LG+  ++ TY++ I+ +C+         IL +M + G  P +VT NSL+ G    + +S 
Sbjct: 104 LGISHNLYTYSIFINYFCRRSQLSLALAILGKMMKLGYGPSIVTLNSLLNGFCHGNRISE 163

Query: 96  SLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLN 155
           ++ L+D+M+EMG  PD  ++ +L+H LFQ  K  EA  + + M+     P   T+  ++N
Sbjct: 164 AVALVDQMVEMGYQPDTVTFTTLVHGLFQHNKASEAVALVERMVVKGCQPDLVTYGAVIN 223

Query: 156 GLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAP 215
           GLCK    D AL +   ++K     ++V YN +I GLCK   +  A  +  ++   G  P
Sbjct: 224 GLCKRGEPDLALNLLNKMEKGKIEADVVIYNTIIDGLCKYKHMDDAFDLFNKMETKGIKP 283

Query: 216 NAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYM 275
           +  TY  ++ C     ++     +LS M  K    D   +  +I AFVK G+L EA    
Sbjct: 284 DVFTYNPLISCLCNYGRWSDASRLLSDMLEKNINPDLVFFNALIDAFVKEGKLVEAEKLY 343

Query: 276 EQMV-TDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCK 334
           ++MV +     D+V+YNTLI  +CK  ++E    +  EM ++G   +  T+T LI G  +
Sbjct: 344 DEMVKSKHCFPDVVAYNTLIKGFCKYKRVEEGMEVFREMSQRGLVGNTVTYTTLIHGFFQ 403

Query: 335 AGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDS----FT 390
           A +   A++  + M   G   ++  YN ++D L  +G ++ A+ VFE M+ +D      T
Sbjct: 404 ARDCDNAQMVFKQMVSDGVHPDIMTYNILLDGLCNNGNVETALVVFEYMQKRDMKLDIVT 463

Query: 391 YSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKI 445
           Y++M+  LCKA ++     L  S    GV+        ++ G    G + EA  +
Sbjct: 464 YTTMIEALCKAGKVEDGWDLFCSLSLKGVKPNVVTYTTMMSGFCRKGLKEEADAL 518

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	456
255584082	487	pentatricopeptide repeat-containing prot	1.0	0.936	0.664	0.0
225454807	457	PREDICTED: putative pentatricopeptide re	1.0	0.997	0.653	0.0
147832566	457	hypothetical protein VITISV_010038 [Viti	0.938	0.936	0.662	1e-174
449467965	456	PREDICTED: putative pentatricopeptide re	0.993	0.993	0.631	1e-171
224089585	454	predicted protein [Populus trichocarpa]	0.984	0.988	0.623	1e-169
356506793	461	PREDICTED: putative pentatricopeptide re	0.982	0.971	0.618	1e-168
297737331	441	unnamed protein product [Vitis vinifera]	0.964	0.997	0.620	1e-167
357503117	457	Pentatricopeptide repeat-containing prot	1.0	0.997	0.586	1e-162
449451938	460	PREDICTED: putative pentatricopeptide re	0.991	0.982	0.513	1e-140
297800292	463	hypothetical protein ARALYDRAFT_914908 [	0.995	0.980	0.539	1e-138

>gi|255584082|ref|XP_002532784.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223527472|gb|EEF29603.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  649 bits (1673), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 303/456 (66%), Positives = 376/456 (82%)

Query: 1   MFGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDA 60
           M  +LSTRLLNI + + CKA  L KAE++IIDGIRLGVLPDVVTYN LIDAY +FVSF+A
Sbjct: 31  MVRRLSTRLLNISIASLCKAKELNKAESVIIDGIRLGVLPDVVTYNTLIDAYSRFVSFNA 90

Query: 61  GYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMH 120
            Y++LNRMREA ISPDVVTYNSLIAGA RN LL  SL+L DEML MGI PDVWSYN+LMH
Sbjct: 91  AYSLLNRMREASISPDVVTYNSLIAGAARNCLLLESLNLFDEMLNMGIVPDVWSYNTLMH 150

Query: 121 CLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVP 180
           C F+LGK +EAN V + +    L+PC  TFNIM+NGLCKN +T NAL +FR L++HGFVP
Sbjct: 151 CFFKLGKAEEANEVLRQIFGHGLSPCPTTFNIMINGLCKNGFTSNALMLFRSLKQHGFVP 210

Query: 181 ELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEIL 240
           +L+TYNILI GLCK  RLR AR +LKEL  SG+ PNAITYTT+MK CFR+R++K GLEIL
Sbjct: 211 QLITYNILINGLCKDRRLRAARSMLKELETSGYVPNAITYTTVMKFCFRSRRFKQGLEIL 270

Query: 241 SAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKE 300
             M  KGYTFDGF YCTV+   +K GRL+EAT+YM QM+ +G++ D+ SYNTLINLYCK+
Sbjct: 271 QEMIDKGYTFDGFAYCTVVGVLIKTGRLEEATEYMRQMIKNGIEHDLASYNTLINLYCKQ 330

Query: 301 GKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAY 360
           G LEAAY LLDE+EK+G +CD+YTHTILI+ +CKAGNI GAR H+++MN +GFDS L A 
Sbjct: 331 GNLEAAYQLLDEIEKEGLQCDEYTHTILINWMCKAGNILGARRHMQHMNMMGFDSCLVAL 390

Query: 361 NCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVR 420
           NC+VD L K+G+IDHA+ +FESM+++DSFTYSS+VHNLCK  R   ASKLLLSCL+SG++
Sbjct: 391 NCMVDGLCKNGQIDHAVKLFESMKMRDSFTYSSLVHNLCKNGRFHRASKLLLSCLRSGMK 450

Query: 421 ILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKISH 456
           IL SAQ+ V+ GLR+SG ++EA+K++SKI++A++ H
Sbjct: 451 ILPSAQRVVISGLRYSGFQKEARKLKSKIKLARMLH 486

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225454807|ref|XP_002274300.1| PREDICTED: putative pentatricopeptide repeat-containing protein At4g17915-like [Vitis vinifera]

 Score =  640 bits (1651), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 298/456 (65%), Positives = 371/456 (81%)

Query: 1   MFGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDA 60
           M  + ST+LLNIC+ + CK  +LEKAEA++IDGIRLG+LPDVVTYN L+ AY +FV  DA
Sbjct: 1   MVCRFSTKLLNICIASLCKVGQLEKAEAVVIDGIRLGLLPDVVTYNTLLSAYSRFVGIDA 60

Query: 61  GYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMH 120
            Y++++RM+EAGISPDV+TYNSLIA AT+  LLS SLDL +EML  GI PDVWSYNSLMH
Sbjct: 61  AYSVIHRMKEAGISPDVITYNSLIAAATKRCLLSRSLDLFEEMLRTGIRPDVWSYNSLMH 120

Query: 121 CLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVP 180
           C F+LGKPDEANRVFQD+I  +L P ++TFNIM+NGLC N YT  AL ++R LQ+ GFVP
Sbjct: 121 CFFKLGKPDEANRVFQDIILTNLLPSSSTFNIMINGLCNNGYTGYALSLYRYLQRQGFVP 180

Query: 181 ELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEIL 240
           ELVTYNILI GLCK+ +L  AR IL+ELG+SG+ P+AITYTT+MKCCFR+R+++ G EI 
Sbjct: 181 ELVTYNILINGLCKSRKLNAARRILRELGESGNVPDAITYTTVMKCCFRSRQFEQGFEIF 240

Query: 241 SAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKE 300
           S MK KGY FD F YC VIAA  K GRL+EA D MEQM    + LDIVSYNT++NLYC+ 
Sbjct: 241 SEMKSKGYAFDAFSYCAVIAALTKTGRLEEANDIMEQMARSDIDLDIVSYNTVMNLYCRN 300

Query: 301 GKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAY 360
           GKLEA Y LLDE+E+ G ECD+YTHTILIDGLCKAGN++GA  HL+ M K+GFDS L A 
Sbjct: 301 GKLEATYKLLDEIEEHGLECDEYTHTILIDGLCKAGNVEGALRHLKNMTKMGFDSTLVAQ 360

Query: 361 NCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVR 420
           NC++D L K G++DHAI +F SMEVKDSFTYSSMVHNLCKA+R   AS+LLL+CL+ G++
Sbjct: 361 NCVIDGLCKVGQLDHAIKMFASMEVKDSFTYSSMVHNLCKARRYRHASRLLLACLRGGMK 420

Query: 421 ILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKISH 456
           IL++ Q++V+DGL +SG   EA++++SKIR+A+I H
Sbjct: 421 ILRANQRSVIDGLCYSGYTSEARRLKSKIRLARILH 456

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147832566|emb|CAN63846.1| hypothetical protein VITISV_010038 [Vitis vinifera]

 Score =  617 bits (1591), Expect = e-174,   Method: Compositional matrix adjust.
 Identities = 286/432 (66%), Positives = 352/432 (81%)

Query: 1   MFGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDA 60
           M  + ST+LLNIC+ + CK  +LEKAEA++IDGIRLG+LPDVVTYN L+ AY +FV  DA
Sbjct: 1   MVCRFSTKLLNICIASLCKVGQLEKAEAVVIDGIRLGLLPDVVTYNTLLSAYSRFVGIDA 60

Query: 61  GYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMH 120
            Y++++RM+EAGISPDV+TYNSLIA AT+  LLS SLDL +EML  GI PDVWSYNSLMH
Sbjct: 61  AYSVIHRMKEAGISPDVITYNSLIAAATKRCLLSRSLDLFEEMLRTGIRPDVWSYNSLMH 120

Query: 121 CLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVP 180
           C F+LGKPDEANRVFQD+I  +L P ++TFNIM+NGLC N YT  AL ++R LQ+ GFVP
Sbjct: 121 CFFKLGKPDEANRVFQDIILTNLLPSSSTFNIMINGLCNNGYTGYALSLYRYLQRQGFVP 180

Query: 181 ELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEIL 240
           ELVTYNILI GLCK+ +L  AR IL+ELG+SG+ P+AITYTT+MKCCFR+R+++ G EI 
Sbjct: 181 ELVTYNILINGLCKSRKLNAARRILRELGESGNVPDAITYTTVMKCCFRSRQFEQGFEIF 240

Query: 241 SAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKE 300
           S MK KGY FD F YC VIAA  K GRL+EA D MEQM    + LDIVSYNT++NLYC+ 
Sbjct: 241 SEMKSKGYAFDAFSYCAVIAALTKTGRLEEANDIMEQMARSDIDLDIVSYNTVMNLYCRN 300

Query: 301 GKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAY 360
           GKLEA Y LLDE+E+ G ECD+YTHTILIDGLCKAGN++GA  HL+ M K+GFDS L A 
Sbjct: 301 GKLEATYKLLDEIEEHGLECDEYTHTILIDGLCKAGNVEGALRHLKNMTKMGFDSTLVAQ 360

Query: 361 NCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVR 420
           NC++D L K G++DHAI +F SMEVKDSFTYSSMVHNLCKA+R   AS+LLL+CL+ G++
Sbjct: 361 NCVIDGLCKVGQLDHAIKMFASMEVKDSFTYSSMVHNLCKARRYRHASRLLLACLRGGMK 420

Query: 421 ILKSAQKAVVDG 432
           IL++ Q++V+DG
Sbjct: 421 ILRANQRSVIDG 432

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449467965|ref|XP_004151692.1| PREDICTED: putative pentatricopeptide repeat-containing protein At4g17915-like [Cucumis sativus] gi|449468117|ref|XP_004151768.1| PREDICTED: putative pentatricopeptide repeat-containing protein At4g17915-like [Cucumis sativus] gi|449532400|ref|XP_004173169.1| PREDICTED: putative pentatricopeptide repeat-containing protein At4g17915-like [Cucumis sativus]

 Score =  607 bits (1566), Expect = e-171,   Method: Compositional matrix adjust.
 Identities = 286/453 (63%), Positives = 355/453 (78%)

Query: 1   MFGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDA 60
           M  K ST+ LNICV +FCK+ +++KAEA+IIDGIR+GVLPDVVTYN LID YC+F   DA
Sbjct: 1   MVCKYSTKFLNICVASFCKSQQMQKAEAVIIDGIRIGVLPDVVTYNTLIDGYCRFSGMDA 60

Query: 61  GYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMH 120
            Y++L RMREAGISPDV+TYNSLIAGATRN  L  SLDL +EML+ GI PD+WSYN+LMH
Sbjct: 61  AYSVLYRMREAGISPDVITYNSLIAGATRNFSLEQSLDLFEEMLQSGITPDIWSYNTLMH 120

Query: 121 CLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVP 180
           C F LGKPDEA RVF+D+I  DL+P   TFN M+NGLCK+ YT NA+ +FR LQ+HGF+P
Sbjct: 121 CFFILGKPDEAYRVFKDIILKDLSPHPVTFNTMINGLCKHGYTSNAIMLFRNLQRHGFIP 180

Query: 181 ELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEIL 240
           +LVTYNILI GLCK  RLR A  +L E  DSG  PNA+TYTT+MK CFR+R+Y+ G EI 
Sbjct: 181 QLVTYNILINGLCKVDRLRAAIRMLNEAMDSGLEPNAVTYTTLMKSCFRSRQYERGFEIF 240

Query: 241 SAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKE 300
           S MK KGY FDGF YCTV  AF+K+GR +EA   MEQM+ + V +DI  YNT INLYCKE
Sbjct: 241 SKMKNKGYAFDGFAYCTVSGAFLKLGRFEEAKFCMEQMIKNDVGIDITFYNTFINLYCKE 300

Query: 301 GKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAY 360
           GKLEAAY L DE+E +G ECD YTH+I+ +GLC+ GNI+GA  HL  +   GF SNL A 
Sbjct: 301 GKLEAAYKLFDEIEPRGLECDVYTHSIITNGLCRVGNIEGAMQHLNCVYTTGFASNLVAL 360

Query: 361 NCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVR 420
           NC++DRL K G+ID AI +FESME +DSFTY+S+VHNLCKA+R   ASKLL+SC + G++
Sbjct: 361 NCLIDRLCKAGQIDRAIRLFESMETRDSFTYTSLVHNLCKARRFRCASKLLISCSRDGMK 420

Query: 421 ILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAK 453
           +LK+ ++AV+DGL  SG   EA+K++ K+R+A+
Sbjct: 421 VLKATRRAVIDGLCSSGFTSEARKLKFKLRLAR 453

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224089585|ref|XP_002308767.1| predicted protein [Populus trichocarpa] gi|222854743|gb|EEE92290.1| predicted protein [Populus trichocarpa]

 Score =  601 bits (1549), Expect = e-169,   Method: Compositional matrix adjust.
 Identities = 282/452 (62%), Positives = 364/452 (80%), Gaps = 3/452 (0%)

Query: 1   MFGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDA 60
           M  + STR LNIC+ +FCKA  L++AE +IIDG+RLGVLPDVVTYN LI+AY +FVSFDA
Sbjct: 1   MVSRSSTRFLNICIASFCKAKHLQRAETVIIDGVRLGVLPDVVTYNTLINAYSRFVSFDA 60

Query: 61  GYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMH 120
            Y++L+RM+EA I PD+VTYNSLIAGA R+ LLS  +DL +EMLE+GI PD+WSYN+LMH
Sbjct: 61  AYSVLDRMKEASIKPDIVTYNSLIAGAMRHCLLSNCMDLFEEMLELGIKPDIWSYNTLMH 120

Query: 121 CLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVP 180
           C F+L +PD+A RVF D+I   L+P  AT+N MLNGLCK  + +NAL +FR L++HGFVP
Sbjct: 121 CFFKLERPDDAYRVFTDIILCYLSPSQATYNTMLNGLCKCGFVENALMLFRKLKRHGFVP 180

Query: 181 ELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEIL 240
            LVTYNILI GLCKA +L+TARW+LKELG SG  PN ITYTT+M+CCFR+R+++ GLEI 
Sbjct: 181 SLVTYNILINGLCKAWKLKTARWMLKELGASGLVPNVITYTTVMRCCFRSRRFEQGLEIF 240

Query: 241 SAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKE 300
             M  KGYTFDGF YCTV+ A VK  R++EA+ YME+MV   + LD+ SYNTLINLYCK 
Sbjct: 241 EEMIDKGYTFDGFAYCTVVGALVKTCRIEEASHYMERMVNTDIGLDMASYNTLINLYCKG 300

Query: 301 GKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAY 360
           GKLE A+ +LD+MEK+GFE D+YT+TIL++GLC+ G+++GA   +EYMN  GF+SNL A 
Sbjct: 301 GKLEMAHGVLDKMEKEGFERDEYTNTILMNGLCEEGDVEGA---MEYMNVAGFNSNLVAL 357

Query: 361 NCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVR 420
           N +VDR  K  +ID+A  +F+SM+++DSFTYSS++HNLCK  R   ASKLLLSC++S  R
Sbjct: 358 NTMVDRWCKADQIDYAFKIFDSMDMRDSFTYSSLIHNLCKVGRFRCASKLLLSCVRSRTR 417

Query: 421 ILKSAQKAVVDGLRHSGCRREAKKIQSKIRMA 452
           IL SA++AV D LRHSG +REAK+++S+I++A
Sbjct: 418 ILPSAKRAVFDCLRHSGHQREAKRLKSEIKLA 449

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356506793|ref|XP_003522160.1| PREDICTED: putative pentatricopeptide repeat-containing protein At4g17915-like [Glycine max]

 Score =  597 bits (1538), Expect = e-168,   Method: Compositional matrix adjust.
 Identities = 279/451 (61%), Positives = 359/451 (79%), Gaps = 3/451 (0%)

Query: 5   LSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTI 64
           LST+LLNI V + CKA ++  AE  I+DGIRLGVLPDVVTYN LIDAYC+F + D  Y++
Sbjct: 11  LSTKLLNITVSSLCKAKQIPNAETAIVDGIRLGVLPDVVTYNTLIDAYCRFATLDVAYSV 70

Query: 65  LNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQ 124
           L RM +AGI PDVV++N+LI+GA R SL S SLDL DEML+ GI PD WS+N LM+CLFQ
Sbjct: 71  LARMHDAGIPPDVVSFNTLISGAVRKSLFSKSLDLFDEMLKRGINPDAWSHNILMNCLFQ 130

Query: 125 LGKPDEANRVFQDMICGD-LTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELV 183
           LGKPDEANRVF++++  D + P  AT+NIM+NGLCKN Y  NAL +FR LQ+HGFVP+++
Sbjct: 131 LGKPDEANRVFKEIVLRDEVHP--ATYNIMINGLCKNGYVGNALSLFRNLQRHGFVPQVL 188

Query: 184 TYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAM 243
           TYN LI GLCKA RL+ AR +LKE G++G+ PNA+TYTT+M CCFR R ++ GLEILS M
Sbjct: 189 TYNALINGLCKARRLKDARRVLKEFGETGNEPNAVTYTTVMTCCFRCRLFEEGLEILSEM 248

Query: 244 KRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKL 303
           +  G+TFDGF YCTVIAA +K GR++EA + +E MV+ GV+ D+VSYNTLINLYC++G+L
Sbjct: 249 RSLGFTFDGFAYCTVIAAMIKTGRMQEAEEIVEMMVSSGVRPDLVSYNTLINLYCRQGRL 308

Query: 304 EAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCI 363
           + A  LLDE+E +G ECD+YTHTI++DGLCKAGN  GA+ HL YMN +GF SNL A+NC 
Sbjct: 309 DDALRLLDEIEGEGLECDQYTHTIIVDGLCKAGNFDGAQRHLNYMNSLGFGSNLVAFNCF 368

Query: 364 VDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILK 423
           +D LGK G IDHA+ +FE MEVKDSFTY+ +VHNLC+A+R   ASK+L+SCLK G ++L+
Sbjct: 369 LDGLGKAGHIDHALRLFEVMEVKDSFTYTIVVHNLCRARRFLCASKVLVSCLKCGYQVLR 428

Query: 424 SAQKAVVDGLRHSGCRREAKKIQSKIRMAKI 454
           + Q+AV+ GLR  G   EA+K++  IR+A+ 
Sbjct: 429 ATQRAVIVGLRSIGYANEARKVKLTIRLAQF 459

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297737331|emb|CBI26532.3| unnamed protein product [Vitis vinifera]

 Score =  594 bits (1531), Expect = e-167,   Method: Compositional matrix adjust.
 Identities = 283/456 (62%), Positives = 355/456 (77%), Gaps = 16/456 (3%)

Query: 1   MFGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDA 60
           M  + ST+LLNIC+ + CK  +LEKAEA++IDGIRLG+LPDVVTYN L+ AY +FV  DA
Sbjct: 1   MVCRFSTKLLNICIASLCKVGQLEKAEAVVIDGIRLGLLPDVVTYNTLLSAYSRFVGIDA 60

Query: 61  GYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMH 120
            Y++++RM+EAGISPDV+TYNSLIA AT+  LLS SLDL +EML  GI PDVWSYNSLMH
Sbjct: 61  AYSVIHRMKEAGISPDVITYNSLIAAATKRCLLSRSLDLFEEMLRTGIRPDVWSYNSLMH 120

Query: 121 CLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVP 180
            +                I  +L P ++TFNIM+NGLC N YT  AL ++R LQ+ GFVP
Sbjct: 121 YI----------------ILTNLLPSSSTFNIMINGLCNNGYTGYALSLYRYLQRQGFVP 164

Query: 181 ELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEIL 240
           ELVTYNILI GLCK+ +L  AR IL+ELG+SG+ P+AITYTT+MKCCFR+R+++ G EI 
Sbjct: 165 ELVTYNILINGLCKSRKLNAARRILRELGESGNVPDAITYTTVMKCCFRSRQFEQGFEIF 224

Query: 241 SAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKE 300
           S MK KGY FD F YC VIAA  K GRL+EA D MEQM    + LDIVSYNT++NLYC+ 
Sbjct: 225 SEMKSKGYAFDAFSYCAVIAALTKTGRLEEANDIMEQMARSDIDLDIVSYNTVMNLYCRN 284

Query: 301 GKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAY 360
           GKLEA Y LLDE+E+ G ECD+YTHTILIDGLCKAGN++GA  HL+ M K+GFDS L A 
Sbjct: 285 GKLEATYKLLDEIEEHGLECDEYTHTILIDGLCKAGNVEGALRHLKNMTKMGFDSTLVAQ 344

Query: 361 NCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVR 420
           NC++D L K G++DHAI +F SMEVKDSFTYSSMVHNLCKA+R   AS+LLL+CL+ G++
Sbjct: 345 NCVIDGLCKVGQLDHAIKMFASMEVKDSFTYSSMVHNLCKARRYRHASRLLLACLRGGMK 404

Query: 421 ILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKISH 456
           IL++ Q++V+DGL +SG   EA++++SKIR+A+I H
Sbjct: 405 ILRANQRSVIDGLCYSGYTSEARRLKSKIRLARILH 440

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357503117|ref|XP_003621847.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355496862|gb|AES78065.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  578 bits (1490), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 268/457 (58%), Positives = 358/457 (78%), Gaps = 1/457 (0%)

Query: 1   MFGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDA 60
           M  +LST+ +NI + T CK+N++ KAE ++IDGI+LG+ PD++TYN LID YC+FV  DA
Sbjct: 1   MITRLSTKFMNITISTMCKSNQIAKAETVLIDGIKLGLNPDIITYNTLIDGYCRFVGIDA 60

Query: 61  GYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMH 120
            Y ILNRM+EAGI+PDVV+YNSL +GA R  LL  SLDL DEML+ GI PDVWSYN LMH
Sbjct: 61  AYNILNRMKEAGINPDVVSYNSLSSGAVRKCLLQKSLDLFDEMLQSGIRPDVWSYNILMH 120

Query: 121 CLFQLGKPDEANRVFQDMI-CGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFV 179
           C F+LGKP+EAN VF+D+   G++ P  A++N+M+NGLCKN Y +NAL +FR L++ GFV
Sbjct: 121 CYFRLGKPEEANGVFRDIFERGEIYPSMASYNVMINGLCKNGYVNNALMLFRNLRRRGFV 180

Query: 180 PELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEI 239
           PE++TYN +I GLCKA RL  AR +L E  D G  PNAITYTT+MKCCFR  + + GLEI
Sbjct: 181 PEVLTYNAMINGLCKARRLADARRVLNEFCDFGFEPNAITYTTVMKCCFRCGRLEQGLEI 240

Query: 240 LSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCK 299
           LS M+RKG+TFDGF YCTV+AA VK GR++EA +  E+M+++G+  D+ SYNT+INL+C+
Sbjct: 241 LSEMRRKGFTFDGFAYCTVVAALVKTGRIEEADEIAEKMMSNGLVPDLASYNTMINLFCR 300

Query: 300 EGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEA 359
           +G+ + A  L+DE+EKQG +CD+YTHTI+I GLCK GN +GA  HL+YMN +GF  NL A
Sbjct: 301 QGRFDEALRLVDEIEKQGMKCDQYTHTIIIHGLCKDGNFEGAEKHLDYMNTLGFGFNLVA 360

Query: 360 YNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGV 419
           +N I+D LGK G ID A+ VF+SMEVKDSFTY+S++HNLC+AK+   ASKLL++ ++ G 
Sbjct: 361 FNSILDCLGKAGDIDKAVKVFDSMEVKDSFTYTSLLHNLCRAKKFRIASKLLVASIEDGF 420

Query: 420 RILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKISH 456
           +IL++ Q+AV+DGL  SG   EA+K++ KI+ A++ H
Sbjct: 421 QILRATQRAVIDGLTTSGLVYEARKVKLKIQRARLVH 457

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449451938|ref|XP_004143717.1| PREDICTED: putative pentatricopeptide repeat-containing protein At4g17915-like [Cucumis sativus]

 Score =  506 bits (1303), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 236/460 (51%), Positives = 325/460 (70%), Gaps = 8/460 (1%)

Query: 1   MFGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDA 60
           M  K ST+LL ICV +FCK+++ +KAE  I D IRLGV+PD++TYN+LI+ YCQF   DA
Sbjct: 1   MVSKYSTKLLTICVASFCKSHQFQKAEIAIKDAIRLGVVPDILTYNILINGYCQFSDMDA 60

Query: 61  GYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMH 120
            Y++ ++MR+AGI+P+V  Y SL+A A+RNS L   L+L  EML++GI PDVWSY +L H
Sbjct: 61  AYSVFHKMRDAGITPNVFIYTSLMAAASRNSSLEQCLNLFHEMLQLGITPDVWSYTTLTH 120

Query: 121 CLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVP 180
           C  ++GKPDEAN +F D I  D +P  ATF++M+ G C   YT NA+ +FR LQ HG VP
Sbjct: 121 CFLKVGKPDEANSIFLDFILKDHSPNPATFDVMIFGFCSCGYTSNAITLFRNLQSHGLVP 180

Query: 181 ELVTYNILIKGLCKAGRLRT-------ARWILKELGDSGHAPNAITYTTIMKCCFRNRKY 233
           + VTY+IL+ GLCKA RL         A  +  E  DSG  P++ TY  +MKCCF+ R+Y
Sbjct: 181 KFVTYDILLTGLCKAARLNVSVSMFNEAMSMFNEAIDSGFEPDSTTYIALMKCCFKFREY 240

Query: 234 KLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTL 293
           + G EI   MK KG  F+GFGY T I A +++GRL+EA  +M +M+ +GV  ++V YNT+
Sbjct: 241 QHGFEIFFEMKNKGLAFNGFGYYTAIGALLRLGRLEEAKFFMVEMIKNGVVFNLVFYNTV 300

Query: 294 INLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGF 353
           +NLYCK GKLEAA+ +LD++E +G +C+ YTH I+ DGLCK GN +GAR HL Y+   GF
Sbjct: 301 VNLYCKHGKLEAAHKMLDKIESRGLQCNDYTHAIITDGLCKVGNFEGARRHLNYIYPTGF 360

Query: 354 -DSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLL 412
            +SN+ A +C++DRL K G+ID A+ +FE ME KD + Y+S++HNLCKA+R   ASKLLL
Sbjct: 361 TNSNVVASSCLIDRLCKAGQIDQAMQLFELMETKDPYVYTSLMHNLCKARRFLCASKLLL 420

Query: 413 SCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMA 452
            CL+SG+ + +S Q AV+ GL   G   EA+K++  I ++
Sbjct: 421 DCLRSGISVFRSTQCAVIFGLCSFGFTSEARKLKPFIHLS 460

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297800292|ref|XP_002868030.1| hypothetical protein ARALYDRAFT_914908 [Arabidopsis lyrata subsp. lyrata] gi|297313866|gb|EFH44289.1| hypothetical protein ARALYDRAFT_914908 [Arabidopsis lyrata subsp. lyrata]

 Score =  498 bits (1281), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 246/456 (53%), Positives = 327/456 (71%), Gaps = 2/456 (0%)

Query: 2   FGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAG 61
           F  LSTRLLNICV + CK  +LEKAE +IIDGIRLGV PDVVTYN LI  YC+FV  + G
Sbjct: 8   FTGLSTRLLNICVDSLCKFRKLEKAETLIIDGIRLGVAPDVVTYNTLISGYCRFVGIEEG 67

Query: 62  YTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHC 121
           Y +  RMR+AGI PDV TYNSLIAGA R  +L   L L DEMLE GI PD+WSYN+LM C
Sbjct: 68  YAVTLRMRDAGIRPDVATYNSLIAGAARRLMLDRVLYLFDEMLEWGIYPDLWSYNTLMCC 127

Query: 122 LFQLGKPDEANRV-FQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVP 180
            F+LGK +EA RV ++D+    L+P   T+N++L+ LCK  Y DNAL +F+ +Q   F P
Sbjct: 128 YFKLGKHEEAFRVLYKDLQLAGLSPGPDTYNVLLDALCKCGYIDNALELFKEMQSK-FKP 186

Query: 181 ELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEIL 240
           EL+TYNILI GLCK+ R+ TA+W+L EL  SG+ PNA+TYTTI+K   + R+ + GL++ 
Sbjct: 187 ELMTYNILINGLCKSRRVGTAKWMLTELKRSGYTPNAVTYTTILKLYIKTRRIRRGLQLF 246

Query: 241 SAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKE 300
             MKR+GYT+DG+ Y  V++A +K GR KEA +YM+++V  G + DIVSYNTL+NLY K+
Sbjct: 247 LEMKREGYTYDGYAYFAVVSALIKTGRTKEAYEYMQELVRKGRRHDIVSYNTLLNLYFKD 306

Query: 301 GKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAY 360
           G L+A   LL E+E++G + D+YTHTI+++GL + G  + A  H   M ++G   NL   
Sbjct: 307 GNLDAVDDLLGEIERKGMKADEYTHTIIVNGLLRTGQTRRAEEHFVSMGEMGIGLNLVTC 366

Query: 361 NCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVR 420
           NC+VD L K G +D A+  FESMEVKD +TY+S+VHNLCK  R   ASKLLLSC   G++
Sbjct: 367 NCLVDGLCKAGHVDRAMRYFESMEVKDEYTYTSVVHNLCKDMRFVCASKLLLSCYNKGIK 426

Query: 421 ILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKISH 456
           I  SA++AV+ GLR SGC  EA+K ++K+++  + +
Sbjct: 427 IPTSARRAVLSGLRMSGCYGEARKAKAKMKLTLVGN 462

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	456
TAIR|locus:2178550	468	AT5G46680 "AT5G46680" [Arabido	0.986	0.961	0.461	2.6e-109
TAIR|locus:2024296	598	AT1G09900 "AT1G09900" [Arabido	0.934	0.712	0.278	1.5e-51
TAIR|locus:2084978	602	AT3G04760 [Arabidopsis thalian	0.910	0.689	0.286	7.4e-50
TAIR|locus:2015228	614	AT1G63080 [Arabidopsis thalian	0.820	0.609	0.305	1.1e-46
TAIR|locus:2026192	630	RPF2 "rna processing factor 2"	0.964	0.698	0.270	3e-46
TAIR|locus:2203916	634	AT1G62590 [Arabidopsis thalian	0.964	0.694	0.265	3.8e-46
TAIR|locus:2015208	630	AT1G63130 [Arabidopsis thalian	0.947	0.685	0.266	2.1e-45
TAIR|locus:2173403	730	AT5G64320 "AT5G64320" [Arabido	0.831	0.519	0.283	6.7e-45
TAIR|locus:2163041	527	AT5G41170 [Arabidopsis thalian	0.802	0.694	0.302	9.1e-45
TAIR|locus:2031301	577	AT1G63400 [Arabidopsis thalian	0.964	0.762	0.256	1.9e-44

TAIR|locus:2178550 AT5G46680 "AT5G46680" [Arabidopsis thaliana (taxid:3702)]

 Score = 1080 (385.2 bits), Expect = 2.6e-109, P = 2.6e-109
 Identities = 209/453 (46%), Positives = 298/453 (65%)

Query:     2 FGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAG 61
             F  +ST+LLNI V + CK   LE+AE ++IDGIRLGVLPDV+TYN LI  Y +F+  D  
Sbjct:     8 FPGISTKLLNISVNSLCKFRNLERAETLLIDGIRLGVLPDVITYNTLIKGYTRFIGIDEA 67

Query:    62 YTILNRMREAGISPDVVTYNSLIAGATRNSXXXXXXXXXXXXXXXGIPPDVWSYNSLMHC 121
             Y +  RMREAGI PDV TYNSLI+GA +N                G+ PD+WSYN+LM C
Sbjct:    68 YAVTRRMREAGIEPDVTTYNSLISGAAKNLMLNRVLQLFDEMLHSGLSPDMWSYNTLMSC 127

Query:   122 LFQLGKPDEANRVF-QDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVP 180
              F+LG+  EA ++  +D+    L P   T+NI+L+ LCK+ +TDNA+ +F+ L K    P
Sbjct:   128 YFKLGRHGEAFKILHEDIHLAGLVPGIDTYNILLDALCKSGHTDNAIELFKHL-KSRVKP 186

Query:   181 ELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEIL 240
             EL+TYNILI GLCK+ R+ +  W+++EL  SG+ PNA+TYTT++K  F+ ++ + GL++ 
Sbjct:   187 ELMTYNILINGLCKSRRVGSVDWMMRELKKSGYTPNAVTYTTMLKMYFKTKRIEKGLQLF 246

Query:   241 SAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQL-DIVSYNTLINLYCK 299
               MK++GYTFDGF  C V++A +K GR +EA + M ++V  G +  DIVSYNTL+NLY K
Sbjct:   247 LKMKKEGYTFDGFANCAVVSALIKTGRAEEAYECMHELVRSGTRSQDIVSYNTLLNLYFK 306

Query:   300 EGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEA 359
             +G L+A   LL+E+E +G + D YTHTI+++GL   GN  GA  HL  + ++G   ++  
Sbjct:   307 DGNLDAVDDLLEEIEMKGLKPDDYTHTIIVNGLLNIGNTGGAEKHLACIGEMGMQPSVVT 366

Query:   360 YNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRXXXXXXXXXXXXXXGV 419
              NC++D L K G +D A+ +F SMEV+D FTY+S+VHNLCK  R              G+
Sbjct:   367 CNCLIDGLCKAGHVDRAMRLFASMEVRDEFTYTSVVHNLCKDGRLVCASKLLLSCYNKGM 426

Query:   420 RILKSAQKAVVDGLRHSGCRREAKKIQSKIRMA 452
             +I  SA++AV+ G+R +   + A+K   KI+ A
Sbjct:   427 KIPSSARRAVLSGIRETVSYQAARKTHIKIKAA 459

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 535 (193.4 bits), Expect = 1.5e-51, P = 1.5e-51
 Identities = 123/441 (27%), Positives = 227/441 (51%)

Query:    17 FCKANRLEKAEAI--IIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGIS 74
             FC+  +  KA  I  I++G   G +PDV+TYN++I  YC+    +   ++L+RM    +S
Sbjct:   147 FCRLGKTRKAAKILEILEGS--GAVPDVITYNVMISGYCKAGEINNALSVLDRM---SVS 201

Query:    75 PDVVTYNSLIAGATRNSXXXXXXXXXXXXXXXGIPPDVWSYNSLMHCLFQLGKPDEANRV 134
             PDVVTYN+++     +                   PDV +Y  L+    +      A ++
Sbjct:   202 PDVVTYNTILRSLCDSGKLKQAMEVLDRMLQRDCYPDVITYTILIEATCRDSGVGHAMKL 261

Query:   135 FQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCK 194
               +M     TP   T+N+++NG+CK    D A++    +   G  P ++T+NI+++ +C 
Sbjct:   262 LDEMRDRGCTPDVVTYNVLVNGICKEGRLDEAIKFLNDMPSSGCQPNVITHNIILRSMCS 321

Query:   195 AGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLG--LEILSAMKRKGYTFDG 252
              GR   A  +L ++   G +P+ +T+  ++   F  RK  LG  ++IL  M + G   + 
Sbjct:   322 TGRWMDAEKLLADMLRKGFSPSVVTFNILIN--FLCRKGLLGRAIDILEKMPQHGCQPNS 379

Query:   253 FGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDE 312
               Y  ++  F K  ++  A +Y+E+MV+ G   DIV+YNT++   CK+GK+E A  +L++
Sbjct:   380 LSYNPLLHGFCKEKKMDRAIEYLERMVSRGCYPDIVTYNTMLTALCKDGKVEDAVEILNQ 439

Query:   313 MEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGK 372
             +  +G      T+  +IDGL KAG    A   L+ M       +   Y+ +V  L ++GK
Sbjct:   440 LSSKGCSPVLITYNTVIDGLAKAGKTGKAIKLLDEMRAKDLKPDTITYSSLVGGLSREGK 499

Query:   373 IDHAINVF---ESMEVK-DSFTYSSMVHNLCKAKRXXXXXXXXXXXXXXGVRILKSAQKA 428
             +D AI  F   E M ++ ++ T++S++  LCK+++              G +  +++   
Sbjct:   500 VDEAIKFFHEFERMGIRPNAVTFNSIMLGLCKSRQTDRAIDFLVFMINRGCKPNETSYTI 559

Query:   429 VVDGLRHSGCRREAKKIQSKI 449
             +++GL + G  +EA ++ +++
Sbjct:   560 LIEGLAYEGMAKEALELLNEL 580

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

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

 Score = 519 (187.8 bits), Expect = 7.4e-50, P = 7.4e-50
 Identities = 121/422 (28%), Positives = 204/422 (48%)

Query:    40 PDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSXXXXXXXX 99
             PDV  YN LI+ +C+    D    +L+RMR    SPD VTYN +I               
Sbjct:   156 PDVFAYNALINGFCKMNRIDDATRVLDRMRSKDFSPDTVTYNIMIGSLCSRGKLDLALKV 215

Query:   100 XXXXXXXGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCK 159
                       P V +Y  L+      G  DEA ++  +M+   L P   T+N ++ G+CK
Sbjct:   216 LNQLLSDNCQPTVITYTILIEATMLEGGVDEALKLMDEMLSRGLKPDMFTYNTIIRGMCK 275

Query:   160 NRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAIT 219
                 D A  M R L+  G  P++++YNIL++ L   G+      ++ ++      PN +T
Sbjct:   276 EGMVDRAFEMVRNLELKGCEPDVISYNILLRALLNQGKWEEGEKLMTKMFSEKCDPNVVT 335

Query:   220 YTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMV 279
             Y+ ++    R+ K +  + +L  MK KG T D + Y  +IAAF + GRL  A +++E M+
Sbjct:   336 YSILITTLCRDGKIEEAMNLLKLMKEKGLTPDAYSYDPLIAAFCREGRLDVAIEFLETMI 395

Query:   280 TDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGN-I 338
             +DG   DIV+YNT++   CK GK + A  +  ++ + G   +  ++  +   L  +G+ I
Sbjct:   396 SDGCLPDIVNYNTVLATLCKNGKADQALEIFGKLGEVGCSPNSSSYNTMFSALWSSGDKI 455

Query:   339 KGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESM---EVKDSF-TYSSM 394
             +   + LE M+  G D +   YN ++  L ++G +D A  +   M   E   S  TY+ +
Sbjct:   456 RALHMILEMMSN-GIDPDEITYNSMISCLCREGMVDEAFELLVDMRSCEFHPSVVTYNIV 514

Query:   395 VHNLCKAKRXXXXXXXXXXXXXXGVRILKSAQKAVVDGLRHSGCRREAKKIQSK-IRMAK 453
             +   CKA R              G R  ++    +++G+  +G R EA ++ +  +R+  
Sbjct:   515 LLGFCKAHRIEDAINVLESMVGNGCRPNETTYTVLIEGIGFAGYRAEAMELANDLVRIDA 574

Query:   454 IS 455
             IS
Sbjct:   575 IS 576

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=IDA

GO:0010103 "stomatal complex morphogenesis" evidence=RCA

TAIR|locus:2015228 AT1G63080 [Arabidopsis thaliana (taxid:3702)]

 Score = 489 (177.2 bits), Expect = 1.1e-46, P = 1.1e-46
 Identities = 116/380 (30%), Positives = 194/380 (51%)

Query:    21 NRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTY 80
             N+  +A A++   +  G  PD+VTY  +I+  C+    D    +LN+M +  I  DVV Y
Sbjct:   184 NKASEAVALVERMVVKGCQPDLVTYGAVINGLCKRGEPDLALNLLNKMEKGKIEADVVIY 243

Query:    81 NSLIAGATRNSXXXXXXXXXXXXXXXGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMIC 140
             +++I    +                 GI PDV++Y+SL+ CL   G+  +A+R+  DM+ 
Sbjct:   244 STVIDSLCKYRHVDDALNLFTEMDNKGIRPDVFTYSSLISCLCNYGRWSDASRLLSDMLE 303

Query:   141 GDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRT 200
               + P   TFN +++   K      A ++F  + +    P +VTYN LI G C   RL  
Sbjct:   304 RKINPNVVTFNSLIDAFAKEGKLIEAEKLFDEMIQRSIDPNIVTYNSLINGFCMHDRLDE 363

Query:   201 ARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIA 260
             A+ I   +      P+ +TY T++    + +K   G+E+   M R+G   +   Y T+I 
Sbjct:   364 AQQIFTLMVSKDCLPDVVTYNTLINGFCKAKKVVDGMELFRDMSRRGLVGNTVTYTTLIH 423

Query:   261 AFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFEC 320
              F +      A    +QMV+DGV  +I++YNTL++  CK GKLE A ++ + ++K   E 
Sbjct:   424 GFFQASDCDNAQMVFKQMVSDGVHPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQKSKMEP 483

Query:   321 DKYTHTILIDGLCKAGNIK-GARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINV 379
             D YT+ I+ +G+CKAG ++ G  L      K G   ++ AYN ++    K G  + A  +
Sbjct:   484 DIYTYNIMSEGMCKAGKVEDGWDLFCSLSLK-GVKPDVIAYNTMISGFCKKGLKEEAYTL 542

Query:   380 FESME----VKDSFTYSSMV 395
             F  M+    + DS TY++++
Sbjct:   543 FIKMKEDGPLPDSGTYNTLI 562

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 485 (175.8 bits), Expect = 3.0e-46, P = 3.0e-46
 Identities = 120/444 (27%), Positives = 216/444 (48%)

Query:    11 NICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMRE 70
             +I +  FC+ ++L  A A++   ++LG  P++VT + L++ YC          ++++M  
Sbjct:   120 SILINCFCRRSQLPLALAVLGKMMKLGYEPNIVTLSSLLNGYCHSKRISEAVALVDQMFV 179

Query:    71 AGISPDVVTYNSLIAGATRNSXXXXXXXXXXXXXXXGIPPDVWSYNSLMHCLFQLGKPDE 130
              G  P+ VT+N+LI G   ++               G  PD+ +Y  +++ L + G  D 
Sbjct:   180 TGYQPNTVTFNTLIHGLFLHNKASEAMALIDRMVAKGCQPDLVTYGVVVNGLCKRGDTDL 239

Query:   131 ANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIK 190
             A  +   M  G L P    +N +++GLCK ++ D+AL +F+ ++  G  P +VTY+ LI 
Sbjct:   240 AFNLLNKMEQGKLEPGVLIYNTIIDGLCKYKHMDDALNLFKEMETKGIRPNVVTYSSLIS 299

Query:   191 GLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTF 250
              LC  GR   A  +L ++ +    P+  T++ ++    +  K     ++   M ++    
Sbjct:   300 CLCNYGRWSDASRLLSDMIERKINPDVFTFSALIDAFVKEGKLVEAEKLYDEMVKRSIDP 359

Query:   251 DGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLL 310
                 Y ++I  F    RL EA    E MV+     D+V+YNTLI  +CK  ++E    + 
Sbjct:   360 SIVTYSSLINGFCMHDRLDEAKQMFEFMVSKHCFPDVVTYNTLIKGFCKYKRVEEGMEVF 419

Query:   311 DEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKD 370
              EM ++G   +  T+ ILI GL +AG+   A+   + M   G   N+  YN ++D L K+
Sbjct:   420 REMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGVPPNIMTYNTLLDGLCKN 479

Query:   371 GKIDHAINVFESMEVKDS----FTYSSMVHNLCKAKRXXXXXXXXXXXXXXGVRILKSAQ 426
             GK++ A+ VFE ++        +TY+ M+  +CKA +              GV+    A 
Sbjct:   480 GKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDLFCNLSLKGVKPDVVAY 539

Query:   427 KAVVDGLRHSGCRREAKKIQSKIR 450
               ++ G    G + EA  +  +++
Sbjct:   540 NTMISGFCRKGSKEEADALFKEMK 563

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

GO:0003723 "RNA binding" evidence=IDA

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

 Score = 484 (175.4 bits), Expect = 3.8e-46, P = 3.8e-46
 Identities = 118/444 (26%), Positives = 213/444 (47%)

Query:    11 NICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMRE 70
             NI +  FC+ +++  A A++   ++LG  P +VT + L++ YC          ++++M E
Sbjct:   124 NILINCFCRRSQISLALALLGKMMKLGYEPSIVTLSSLLNGYCHGKRISDAVALVDQMVE 183

Query:    71 AGISPDVVTYNSLIAGATRNSXXXXXXXXXXXXXXXGIPPDVWSYNSLMHCLFQLGKPDE 130
              G  PD +T+ +LI G   ++               G  P++ +Y  +++ L + G  D 
Sbjct:   184 MGYRPDTITFTTLIHGLFLHNKASEAVALVDRMVQRGCQPNLVTYGVVVNGLCKRGDTDL 243

Query:   131 ANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIK 190
             A  +   M    +      FN +++ LCK R+ D+AL +F+ ++  G  P +VTY+ LI 
Sbjct:   244 ALNLLNKMEAAKIEADVVIFNTIIDSLCKYRHVDDALNLFKEMETKGIRPNVVTYSSLIS 303

Query:   191 GLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTF 250
              LC  GR   A  +L ++ +    PN +T+  ++    +  K+    ++   M ++    
Sbjct:   304 CLCSYGRWSDASQLLSDMIEKKINPNLVTFNALIDAFVKEGKFVEAEKLYDDMIKRSIDP 363

Query:   251 DGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLL 310
             D F Y +++  F    RL +A    E MV+     D+V+YNTLI  +CK  ++E    L 
Sbjct:   364 DIFTYNSLVNGFCMHDRLDKAKQMFEFMVSKDCFPDVVTYNTLIKGFCKSKRVEDGTELF 423

Query:   311 DEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKD 370
              EM  +G   D  T+T LI GL   G+   A+   + M   G   ++  Y+ ++D L  +
Sbjct:   424 REMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFKQMVSDGVPPDIMTYSILLDGLCNN 483

Query:   371 GKIDHAINVFESM---EVK-DSFTYSSMVHNLCKAKRXXXXXXXXXXXXXXGVRILKSAQ 426
             GK++ A+ VF+ M   E+K D + Y++M+  +CKA +              GV+      
Sbjct:   484 GKLEKALEVFDYMQKSEIKLDIYIYTTMIEGMCKAGKVDDGWDLFCSLSLKGVKPNVVTY 543

Query:   427 KAVVDGLRHSGCRREAKKIQSKIR 450
               ++ GL      +EA  +  K++
Sbjct:   544 NTMISGLCSKRLLQEAYALLKKMK 567

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2015208 AT1G63130 [Arabidopsis thaliana (taxid:3702)]

 Score = 477 (173.0 bits), Expect = 2.1e-45, P = 2.1e-45
 Identities = 116/436 (26%), Positives = 210/436 (48%)

Query:    11 NICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMRE 70
             +I +  FC+ ++L  A A++   ++LG  PD+VT N L++ +C         +++ +M E
Sbjct:   120 SILINCFCRRSQLSLALAVLAKMMKLGYEPDIVTLNSLLNGFCHGNRISDAVSLVGQMVE 179

Query:    71 AGISPDVVTYNSLIAGATRNSXXXXXXXXXXXXXXXGIPPDVWSYNSLMHCLFQLGKPDE 130
              G  PD  T+N+LI G  R++               G  PD+ +Y  +++ L + G  D 
Sbjct:   180 MGYQPDSFTFNTLIHGLFRHNRASEAVALVDRMVVKGCQPDLVTYGIVVNGLCKRGDIDL 239

Query:   131 ANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIK 190
             A  + + M  G + P    +N +++ LC  +  ++AL +F  +   G  P +VTYN LI+
Sbjct:   240 ALSLLKKMEQGKIEPGVVIYNTIIDALCNYKNVNDALNLFTEMDNKGIRPNVVTYNSLIR 299

Query:   191 GLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTF 250
              LC  GR   A  +L ++ +    PN +T++ ++    +  K     ++   M ++    
Sbjct:   300 CLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSIDP 359

Query:   251 DGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLL 310
             D F Y ++I  F    RL EA    E M++     ++V+YNTLI  +CK  +++    L 
Sbjct:   360 DIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVDEGMELF 419

Query:   311 DEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKD 370
              EM ++G   +  T+T LI G  +A     A++  + M   G   ++  Y+ ++D L  +
Sbjct:   420 REMSQRGLVGNTVTYTTLIHGFFQARECDNAQIVFKQMVSDGVLPDIMTYSILLDGLCNN 479

Query:   371 GKIDHAINVFESMEVK----DSFTYSSMVHNLCKAKRXXXXXXXXXXXXXXGVRILKSAQ 426
             GK++ A+ VFE ++      D +TY+ M+  +CKA +              GV+      
Sbjct:   480 GKVETALVVFEYLQRSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGVKPNVVTY 539

Query:   427 KAVVDGLRHSGCRREA 442
               ++ G    G + EA
Sbjct:   540 TTMMSGFCRKGLKEEA 555

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 476 (172.6 bits), Expect = 6.7e-45, P = 6.7e-45
 Identities = 111/392 (28%), Positives = 200/392 (51%)

Query:    19 KANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVV 78
             K NR+ +A  ++ +   +G +PD  T+N +I   C+F   +    ++NRM   G +PD +
Sbjct:   264 KCNRVNEALQLLEEMFLMGCVPDAETFNDVILGLCKFDRINEAAKMVNRMLIRGFAPDDI 323

Query:    79 TYNSLIAGATRNSXXXXXXXXXXXXXXXGIP-PDVWSYNSLMHCLFQLGKPDEANRVFQD 137
             TY  L+ G  +                  IP P++  +N+L+H     G+ D+A  V  D
Sbjct:   324 TYGYLMNGLCKIGRVDAAKDLFYR-----IPKPEIVIFNTLIHGFVTHGRLDDAKAVLSD 378

Query:   138 MICG-DLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAG 196
             M+    + P   T+N ++ G  K      AL +   ++  G  P + +Y IL+ G CK G
Sbjct:   379 MVTSYGIVPDVCTYNSLIYGYWKEGLVGLALEVLHDMRNKGCKPNVYSYTILVDGFCKLG 438

Query:   197 RLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYC 256
             ++  A  +L E+   G  PN + +  ++    +  +    +EI   M RKG   D + + 
Sbjct:   439 KIDEAYNVLNEMSADGLKPNTVGFNCLISAFCKEHRIPEAVEIFREMPRKGCKPDVYTFN 498

Query:   257 TVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQ 316
             ++I+   ++  +K A   +  M+++GV  + V+YNTLIN + + G+++ A  L++EM  Q
Sbjct:   499 SLISGLCEVDEIKHALWLLRDMISEGVVANTVTYNTLINAFLRRGEIKEARKLVNEMVFQ 558

Query:   317 GFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGF-DSNLEAYNCIVDRLGKDGKIDH 375
             G   D+ T+  LI GLC+AG +  AR   E M + G   SN+   N +++ L + G ++ 
Sbjct:   559 GSPLDEITYNSLIKGLCRAGEVDKARSLFEKMLRDGHAPSNISC-NILINGLCRSGMVEE 617

Query:   376 AINVFESMEVK----DSFTYSSMVHNLCKAKR 403
             A+   + M ++    D  T++S+++ LC+A R
Sbjct:   618 AVEFQKEMVLRGSTPDIVTFNSLINGLCRAGR 649

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2163041 AT5G41170 [Arabidopsis thaliana (taxid:3702)]

 Score = 471 (170.9 bits), Expect = 9.1e-45, P = 9.1e-45
 Identities = 113/373 (30%), Positives = 188/373 (50%)

Query:    17 FCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPD 76
             FC  NR+E+A +++   + +G+ PDVV Y  +ID+ C+    +   ++ ++M   GI PD
Sbjct:   152 FCLGNRMEEAMSMVNQMVEMGIKPDVVMYTTIIDSLCKNGHVNYALSLFDQMENYGIRPD 211

Query:    77 VVTYNSLIAGATRNSXXXXXXXXXXXXXXXGIPPDVWSYNSLMHCLFQLGKPDEANRVFQ 136
             VV Y SL+ G   +                 I PDV ++N+L+    + GK  +A  ++ 
Sbjct:   212 VVMYTSLVNGLCNSGRWRDADSLLRGMTKRKIKPDVITFNALIDAFVKEGKFLDAEELYN 271

Query:   137 DMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAG 196
             +MI   + P   T+  ++NG C     D A +MF  ++  G  P++V Y  LI G CK  
Sbjct:   272 EMIRMSIAPNIFTYTSLINGFCMEGCVDEARQMFYLMETKGCFPDVVAYTSLINGFCKCK 331

Query:   197 RLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYC 256
             ++  A  I  E+   G   N ITYTT+++   +  K  +  E+ S M  +G   +   Y 
Sbjct:   332 KVDDAMKIFYEMSQKGLTGNTITYTTLIQGFGQVGKPNVAQEVFSHMVSRGVPPNIRTYN 391

Query:   257 TVIAAFVKIGRLKEATDYMEQMVT---DGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEM 313
              ++      G++K+A    E M     DGV  +I +YN L++  C  GKLE A ++ ++M
Sbjct:   392 VLLHCLCYNGKVKKALMIFEDMQKREMDGVAPNIWTYNVLLHGLCYNGKLEKALMVFEDM 451

Query:   314 EKQGFECDKYTHTILIDGLCKAGNIKGA-RLHLEYMNKIGFDSNLEAYNCIVDRLGKDGK 372
              K+  +    T+TI+I G+CKAG +K A  L     +K G   N+  Y  ++  L ++G 
Sbjct:   452 RKREMDIGIITYTIIIQGMCKAGKVKNAVNLFCSLPSK-GVKPNVVTYTTMISGLFREG- 509

Query:   373 IDHAINV-FESME 384
             + H  +V F  M+
Sbjct:   510 LKHEAHVLFRKMK 522

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2031301 AT1G63400 [Arabidopsis thaliana (taxid:3702)]

 Score = 468 (169.8 bits), Expect = 1.9e-44, P = 1.9e-44
 Identities = 114/444 (25%), Positives = 211/444 (47%)

Query:    11 NICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMRE 70
             NI +  FC+ +++  A A++   ++LG  P +VT + L++ YC          ++++M E
Sbjct:   124 NILINCFCRRSQISLALALLGKMMKLGYEPSIVTLSSLLNGYCHGKRISDAVALVDQMVE 183

Query:    71 AGISPDVVTYNSLIAGATRNSXXXXXXXXXXXXXXXGIPPDVWSYNSLMHCLFQLGKPDE 130
              G  PD +T+ +LI G   ++               G  P++ +Y  +++ L + G  D 
Sbjct:   184 MGYRPDTITFTTLIHGLFLHNKASEAVALVDRMVQRGCQPNLVTYGVVVNGLCKRGDIDL 243

Query:   131 ANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIK 190
             A  +   M    +      ++ +++ LCK R+ D+AL +F  ++  G  P ++TY+ LI 
Sbjct:   244 AFNLLNKMEAAKIEANVVIYSTVIDSLCKYRHEDDALNLFTEMENKGVRPNVITYSSLIS 303

Query:   191 GLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTF 250
              LC   R   A  +L ++ +    PN +T+  ++    +  K     ++   M ++    
Sbjct:   304 CLCNYERWSDASRLLSDMIERKINPNVVTFNALIDAFVKEGKLVEAEKLYDEMIKRSIDP 363

Query:   251 DGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLL 310
             D F Y ++I  F    RL EA    E M++     ++V+YNTLIN +CK  +++    L 
Sbjct:   364 DIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLINGFCKAKRIDEGVELF 423

Query:   311 DEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKD 370
              EM ++G   +  T+T LI G  +A +   A++  + M   G   N+  YN ++D L K+
Sbjct:   424 REMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSDGVHPNIMTYNTLLDGLCKN 483

Query:   371 GKIDHAINVFESMEVKDS----FTYSSMVHNLCKAKRXXXXXXXXXXXXXXGVRILKSAQ 426
             GK++ A+ VFE ++        +TY+ M+  +CKA +              GV+      
Sbjct:   484 GKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGVKPDVIIY 543

Query:   427 KAVVDGLRHSGCRREAKKIQSKIR 450
               ++ G    G + EA  +  K+R
Sbjct:   544 NTMISGFCRKGLKEEADALFRKMR 567

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P0C043	PP318_ARATH	No assigned EC number	0.5372	0.9956	0.9805	yes	no
Q56XR6	PP421_ARATH	No assigned EC number	0.4966	0.9868	0.9615	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00014043001 SubName- Full=Chromosome chr16 scaffold_10, whole genome shotgun sequence; (442 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	456
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-23
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-19
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-18
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-18
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	9e-18
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-17
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	8e-15
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-14
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-14
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-14
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-13
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-12
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-11
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-09
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-08
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-07
pfam01535	31	pfam01535, PPR, PPR repeat	1e-06
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	9e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-05
COG0457	291	COG0457, NrfG, FOG: TPR repeat [General function p	8e-05
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	1e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	4e-04
pfam01535	31	pfam01535, PPR, PPR repeat	4e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	4e-04
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	7e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	8e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	8e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.001
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.002
pfam01535	31	pfam01535, PPR, PPR repeat	0.002
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.003
pfam01535	31	pfam01535, PPR, PPR repeat	0.003
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	0.004

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

 Score =  103 bits (259), Expect = 2e-23
 Identities = 88/357 (24%), Positives = 150/357 (42%), Gaps = 21/357 (5%)

Query: 34  IRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLL 93
           ++ G   DV   N LI  Y    S+     + +RM     + D V++ ++I+G  +N L 
Sbjct: 315 VKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLP 370

Query: 94  SCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIM 153
             +L+    M +  + PD  +  S++     LG  D   ++ +      L       N +
Sbjct: 371 DKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANAL 430

Query: 154 LNGLCKNRYTDNALRMFRGLQKHGFVPE--LVTYNILIKGLCKAGRLRTARWILKE-LGD 210
           +    K +  D AL +F        +PE  ++++  +I GL    R   A    ++ L  
Sbjct: 431 IEMYSKCKCIDKALEVFH------NIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT 484

Query: 211 SGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKE 270
               PN++T    +  C R      G EI + + R G  FDGF    ++  +V+ GR+  
Sbjct: 485 L--KPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNY 542

Query: 271 ATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILID 330
           A +          + D+VS+N L+  Y   GK   A  L + M + G   D+ T   L+ 
Sbjct: 543 AWNQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLC 597

Query: 331 GLCKAGNIKGARLHLEYM-NKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK 386
              ++G +     +   M  K     NL+ Y C+VD LG+ GK+  A N    M + 
Sbjct: 598 ACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPIT 654

Length = 857

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

 Score = 91.9 bits (228), Expect = 1e-19
 Identities = 68/344 (19%), Positives = 144/344 (41%), Gaps = 2/344 (0%)

Query: 40  PDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDL 99
           P + T+NML+         D    +L  ++EAG+  D   Y +LI+   ++  +    ++
Sbjct: 435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEV 494

Query: 100 LDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCK 159
             EM+  G+  +V ++ +L+    + G+  +A   +  M   ++ P    FN +++   +
Sbjct: 495 FHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQ 554

Query: 160 NRYTDNALRMFR--GLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNA 217
           +   D A  +      + H   P+ +T   L+K    AG++  A+ + + + +       
Sbjct: 555 SGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTP 614

Query: 218 ITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQ 277
             YT  +  C +   +   L I   MK+KG   D   +  ++      G L +A + ++ 
Sbjct: 615 EVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQD 674

Query: 278 MVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGN 337
               G++L  VSY++L+         + A  L ++++         T   LI  LC+   
Sbjct: 675 ARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQ 734

Query: 338 IKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFE 381
           +  A   L  M ++G   N   Y+ ++    +    D  +++  
Sbjct: 735 LPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLS 778

Length = 1060

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

 Score = 78.2 bits (194), Expect = 2e-18
 Identities = 29/49 (59%), Positives = 41/49 (83%)

Query: 286 DIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCK 334
           D+V+YNTLI+ YCK+GK+E A  L +EM+K+G + + YT++ILIDGLCK
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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 86.9 bits (215), Expect = 4e-18
 Identities = 60/233 (25%), Positives = 99/233 (42%), Gaps = 27/233 (11%)

Query: 25  KAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGI--SPDVVTYNS 82
           KAE   ID       PD +T   L+ A       D    +   + E  I  +P+V T   
Sbjct: 569 KAETHPID-------PDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYT--- 618

Query: 83  LIAGATRNSLLSCS--------LDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRV 134
            IA      + SCS        L + D+M + G+ PD   +++L+      G  D+A  +
Sbjct: 619 -IA------VNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEI 671

Query: 135 FQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCK 194
            QD     +   T +++ ++      +    AL ++  ++     P + T N LI  LC+
Sbjct: 672 LQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCE 731

Query: 195 AGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKG 247
             +L  A  +L E+   G  PN ITY+ ++    R     +GL++LS  K  G
Sbjct: 732 GNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDG 784

Length = 1060

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

 Score = 86.1 bits (213), Expect = 9e-18
 Identities = 73/309 (23%), Positives = 133/309 (43%), Gaps = 21/309 (6%)

Query: 37  GVLPDVVTYNMLIDAYC----QFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSL 92
           GV  +V T+  LID  C    Q       Y I   MR   + PD V +N+LI+   ++  
Sbjct: 502 GVEANVHTFGALIDG-CARAGQVAKAFGAYGI---MRSKNVKPDRVVFNALISACGQSGA 557

Query: 93  LSCSLDLLDEMLEMGIP--PDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATF 150
           +  + D+L EM     P  PD  +  +LM      G+ D A  V+Q +   ++      +
Sbjct: 558 VDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVY 617

Query: 151 NIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGD 210
            I +N   +    D AL ++  ++K G  P+ V ++ L+     AG L  A  IL++   
Sbjct: 618 TIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARK 677

Query: 211 SGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKE 270
            G     ++Y+++M  C   + +K  LE+   +K             +I A  +  +L +
Sbjct: 678 QGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPK 737

Query: 271 ATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFE-----CDKYTH 325
           A + + +M   G+  + ++Y+ L+    ++   +    LL + ++ G +     C     
Sbjct: 738 ALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCR---- 793

Query: 326 TILIDGLCK 334
              I GLC 
Sbjct: 794 --CITGLCL 800

Length = 1060

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

 Score = 84.2 bits (208), Expect = 2e-17
 Identities = 78/350 (22%), Positives = 148/350 (42%), Gaps = 14/350 (4%)

Query: 100 LDEMLEMGIP--PDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGL 157
           L E+LE G P      +Y++L+     L        V+  +      P     N +L   
Sbjct: 109 LFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMH 168

Query: 158 CKNRYTDNALRMFRGLQKHGFVPE--LVTYNILIKGLCKAGRLRTARWILKELGDSGHAP 215
            K     +A R+F  +      PE  L ++  +I GL  AG  R A  + +E+ + G   
Sbjct: 169 VKCGMLIDARRLFDEM------PERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDA 222

Query: 216 NAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYM 275
              T+  +++        + G ++   + + G   D F  C +I  + K G +++A    
Sbjct: 223 EPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVF 282

Query: 276 EQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKA 335
           + M     +   V++N+++  Y   G  E A  L  EM   G   D++T +I+I    + 
Sbjct: 283 DGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRL 338

Query: 336 GNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMV 395
             ++ A+     + + GF  ++ A   +VD   K G+++ A NVF+ M  K+  ++++++
Sbjct: 339 ALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALI 398

Query: 396 HNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKI 445
                  R   A ++    +  GV        AV+   R+SG   +  +I
Sbjct: 399 AGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEI 448

Length = 697

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

 Score = 76.4 bits (188), Expect = 8e-15
 Identities = 65/314 (20%), Positives = 130/314 (41%), Gaps = 24/314 (7%)

Query: 76  DVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVF 135
              TY++L+        + C   +   +   G  PD +  N ++    + G   +A R+F
Sbjct: 122 PASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLF 181

Query: 136 QDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKA 195
            +M   +L    A++  ++ GL        A  +FR + + G   E  T+ ++++     
Sbjct: 182 DEMPERNL----ASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGL 237

Query: 196 GRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGF-- 253
           G  R  + +   +  +G   +     T + C   +   K G   +   +     FDG   
Sbjct: 238 GSARAGQQLHCCVLKTGVVGD-----TFVSCALIDMYSKCGD--IEDARC---VFDGMPE 287

Query: 254 ----GYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLL 309
                + +++A +   G  +EA     +M   GV +D  +++ +I ++ +   LE A   
Sbjct: 288 KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQA 347

Query: 310 LDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGK 369
              + + GF  D   +T L+D   K G ++ AR   + M +     NL ++N ++   G 
Sbjct: 348 HAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGN 403

Query: 370 DGKIDHAINVFESM 383
            G+   A+ +FE M
Sbjct: 404 HGRGTKAVEMFERM 417

Length = 697

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

 Score = 76.1 bits (187), Expect = 1e-14
 Identities = 71/376 (18%), Positives = 146/376 (38%), Gaps = 54/376 (14%)

Query: 41  DVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLL 100
              TY+ L++A     S      +   +  +G  PD    N ++    +  +L  +  L 
Sbjct: 122 PASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLF 181

Query: 101 DEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPC-TATFNIMLN---- 155
           DEM E  +     S+ +++  L   G   EA  +F++M   D +     TF +ML     
Sbjct: 182 DEMPERNL----ASWGTIIGGLVDAGNYREAFALFREMW-EDGSDAEPRTFVVMLRASAG 236

Query: 156 -----------------GLCKNRYT--------------DNALRMFRGLQKHGFVPE--L 182
                            G+  + +               ++A  +F G+      PE   
Sbjct: 237 LGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM------PEKTT 290

Query: 183 VTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSA 242
           V +N ++ G    G    A  +  E+ DSG + +  T++ +++   R    +   +  + 
Sbjct: 291 VAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAG 350

Query: 243 MKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGK 302
           + R G+  D      ++  + K GR+++A +  ++M     + +++S+N LI  Y   G+
Sbjct: 351 LIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRM----PRKNLISWNALIAGYGNHGR 406

Query: 303 LEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNI-KGARLHLEYMNKIGFDSNLEAYN 361
              A  + + M  +G   +  T   ++     +G   +G  +                Y 
Sbjct: 407 GTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYA 466

Query: 362 CIVDRLGKDGKIDHAI 377
           C+++ LG++G +D A 
Sbjct: 467 CMIELLGREGLLDEAY 482

Length = 697

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

 Score = 74.9 bits (184), Expect = 3e-14
 Identities = 81/376 (21%), Positives = 153/376 (40%), Gaps = 38/376 (10%)

Query: 33  GIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSL 92
           G+RLG        N ++  + +F      + +  +M E     D+ ++N L+ G  +   
Sbjct: 120 GVRLG--------NAMLSMFVRFGELVHAWYVFGKMPER----DLFSWNVLVGGYAKAGY 167

Query: 93  LSCSLDLLDEMLEMGIPPDVWSYNSLMH-CLFQLGKPDEA--NRVFQDMICGDLTPCTAT 149
              +L L   ML  G+ PDV+++  ++  C    G PD A    V   ++          
Sbjct: 168 FDEALCLYHRMLWAGVRPDVYTFPCVLRTCG---GIPDLARGREVHAHVVRFGFELDVDV 224

Query: 150 FNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKG-----LCKAGRLRTARWI 204
            N ++    K     +A  +F  +       + +++N +I G      C  G        
Sbjct: 225 VNALITMYVKCGDVVSARLVFDRMP----RRDCISWNAMISGYFENGECLEG----LELF 276

Query: 205 LKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVK 264
                 S   P+ +T T+++  C      +LG E+   + + G+  D     ++I  ++ 
Sbjct: 277 FTMRELSVD-PDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLS 335

Query: 265 IGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYT 324
           +G   EA     +M T     D VS+  +I+ Y K G  + A      ME+     D+ T
Sbjct: 336 LGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEIT 391

Query: 325 HTILIDGLCKAGNI-KGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESM 383
              ++      G++  G +LH E   + G  S +   N +++   K   ID A+ VF ++
Sbjct: 392 IASVLSACACLGDLDVGVKLH-ELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNI 450

Query: 384 EVKDSFTYSSMVHNLC 399
             KD  +++S++  L 
Sbjct: 451 PEKDVISWTSIIAGLR 466

Length = 857

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

 Score = 74.5 bits (183), Expect = 4e-14
 Identities = 74/338 (21%), Positives = 144/338 (42%), Gaps = 31/338 (9%)

Query: 80  YNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLF-----QLGKPDEANRV 134
           YN L+    R+  +   +DLL++M + G+       + + H  F     +     EA R 
Sbjct: 377 YNRLL----RDGRIKDCIDLLEDMEKRGL----LDMDKIYHAKFFKACKKQRAVKEAFR- 427

Query: 135 FQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCK 194
           F  +I     P  +TFN++++    ++  D ALR+ R +Q+ G   +   Y  LI    K
Sbjct: 428 FAKLI---RNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAK 484

Query: 195 AGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFG 254
           +G++     +  E+ ++G   N  T+  ++  C R  +          M+ K    D   
Sbjct: 485 SGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVV 544

Query: 255 YCTVIAAFVKIGRLKEATDYMEQMV--TDGVQLDIVSYNTLINLYCKEGKLEAA---YLL 309
           +  +I+A  + G +  A D + +M   T  +  D ++   L+      G+++ A   Y +
Sbjct: 545 FNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQM 604

Query: 310 LDEMEKQGF-ECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLG 368
           + E   +G  E     +TI ++   + G+   A    + M K G   +   ++ +VD  G
Sbjct: 605 IHEYNIKGTPEV----YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAG 660

Query: 369 KDGKIDHAINVFESMEVK----DSFTYSSMVHNLCKAK 402
             G +D A  + +    +     + +YSS++     AK
Sbjct: 661 HAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAK 698

Length = 1060

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

 Score = 65.1 bits (160), Expect = 9e-14
 Identities = 21/50 (42%), Positives = 32/50 (64%)

Query: 145 PCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCK 194
           P   T+N +++G CK    + AL++F  ++K G  P + TY+ILI GLCK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 72.6 bits (178), Expect = 1e-13
 Identities = 43/185 (23%), Positives = 84/185 (45%)

Query: 45  YNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEML 104
           Y + +++  Q   +D   +I + M++ G+ PD V +++L+  A     L  + ++L +  
Sbjct: 617 YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDAR 676

Query: 105 EMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTD 164
           + GI     SY+SLM          +A  +++D+    L P  +T N ++  LC+     
Sbjct: 677 KQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLP 736

Query: 165 NALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIM 224
            AL +   +++ G  P  +TY+IL+    +         +L +  + G  PN +    I 
Sbjct: 737 KALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT 796

Query: 225 KCCFR 229
             C R
Sbjct: 797 GLCLR 801

Length = 1060

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

 Score = 63.2 bits (155), Expect = 4e-13
 Identities = 23/47 (48%), Positives = 30/47 (63%)

Query: 40 PDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAG 86
          PDVVTYN LID YC+    +    + N M++ GI P+V TY+ LI G
Sbjct: 1  PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDG 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 = 68.8 bits (168), Expect = 3e-12
 Identities = 45/172 (26%), Positives = 79/172 (45%), Gaps = 1/172 (0%)

Query: 23  LEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNS 82
            + A +I  D  + GV PD V ++ L+D        D  + IL   R+ GI    V+Y+S
Sbjct: 630 WDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSS 689

Query: 83  LIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGD 142
           L+   +       +L+L +++  + + P V + N+L+  L +  +  +A  V  +M    
Sbjct: 690 LMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLG 749

Query: 143 LTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCK 194
           L P T T++I+L    +    D  L +    ++ G  P LV    +  GLC 
Sbjct: 750 LCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT-GLCL 800

Length = 1060

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

 Score = 60.9 bits (149), Expect = 3e-12
 Identities = 19/50 (38%), Positives = 33/50 (66%)

Query: 110 PDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCK 159
           PDV +YN+L+    + GK +EA ++F +M    + P   T++I+++GLCK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 66.4 bits (162), Expect = 1e-11
 Identities = 75/318 (23%), Positives = 137/318 (43%), Gaps = 14/318 (4%)

Query: 81  NSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMH-CLFQLGKPDEANRVFQDMI 139
           NS +     +  L  +L LL+ M E+ +P D  +Y +L   C ++    +E +RV    +
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAV-EEGSRVCSRAL 113

Query: 140 CGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPE--LVTYNILIKGLCKAGR 197
               +      N ML+   +     +A  +F      G +PE  L ++N+L+ G  KAG 
Sbjct: 114 SSHPSLGVRLGNAMLSMFVRFGELVHAWYVF------GKMPERDLFSWNVLVGGYAKAGY 167

Query: 198 LRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCT 257
              A  +   +  +G  P+  T+  +++ C        G E+ + + R G+  D      
Sbjct: 168 FDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNA 227

Query: 258 VIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQG 317
           +I  +VK G +  A    ++M       D +S+N +I+ Y + G+      L   M +  
Sbjct: 228 LITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFFTMRELS 283

Query: 318 FECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAI 377
            + D  T T +I      G+ +  R    Y+ K GF  ++   N ++      G    A 
Sbjct: 284 VDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAE 343

Query: 378 NVFESMEVKDSFTYSSMV 395
            VF  ME KD+ ++++M+
Sbjct: 344 KVFSRMETKDAVSWTAMI 361

Length = 857

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

 Score = 58.2 bits (142), Expect = 2e-11
 Identities = 21/48 (43%), Positives = 32/48 (66%)

Query: 75  PDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCL 122
           PDVVTYN+LI G  +   +  +L L +EM + GI P+V++Y+ L+  L
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 56.6 bits (138), Expect = 7e-11
 Identities = 18/48 (37%), Positives = 27/48 (56%)

Query: 180 PELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCC 227
           P++VTYN LI G CK G++  A  +  E+   G  PN  TY+ ++   
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 52.4 bits (127), Expect = 2e-09
 Identities = 17/34 (50%), Positives = 26/34 (76%)

Query: 281 DGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEME 314
            G++ D+V+YNTLI+  C+ G+++ A  LLDEME
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 58.3 bits (141), Expect = 5e-09
 Identities = 43/178 (24%), Positives = 68/178 (38%), Gaps = 27/178 (15%)

Query: 14  VCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGI 73
            C    A   +KA  +  D   + + P V T N LI A C+         +L+ M+  G+
Sbjct: 693 AC--SNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGL 750

Query: 74  SPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMH-CL---------- 122
            P+ +TY+ L+  + R       LDLL +  E GI P++     +   CL          
Sbjct: 751 CPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALG 810

Query: 123 -----FQLGKPDEANR-------VFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALR 168
                F  G+P   N+       V+++ I     P     + +L  L      D  LR
Sbjct: 811 EPVVSFDSGRPQIENKWTSWALMVYRETISAGTLPTMEVLSQVLGCLQLPH--DATLR 866

Length = 1060

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

 Score = 57.6 bits (139), Expect = 8e-09
 Identities = 34/117 (29%), Positives = 59/117 (50%), Gaps = 4/117 (3%)

Query: 41  DVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLL 100
           DVV++N+L+  Y           + NRM E+G++PD VT+ SL+   +R+ +++  L+  
Sbjct: 553 DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYF 612

Query: 101 DEM-LEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNG 156
             M  +  I P++  Y  ++  L + GK  EA      M    +TP  A +  +LN 
Sbjct: 613 HSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM---PITPDPAVWGALLNA 666

Length = 857

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

 Score = 50.5 bits (122), Expect = 1e-08
 Identities = 14/47 (29%), Positives = 27/47 (57%)

Query: 253 FGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCK 299
             Y T+I  + K G+++EA     +M   G++ ++ +Y+ LI+  CK
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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 54.9 bits (132), Expect = 7e-08
 Identities = 69/305 (22%), Positives = 128/305 (41%), Gaps = 32/305 (10%)

Query: 34  IRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLL 93
            R G++  VV  N LI+ Y +    D    + + + E     DV+++ S+IAG   N+  
Sbjct: 416 ERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRC 471

Query: 94  SCSLDLLDEMLEMGIPPDVWSYNSLMHCL----FQLGKPDEANRVFQDMICGDLTPCTAT 149
             +L    +ML    P  V    +L  C        GK   A+ +   +      P    
Sbjct: 472 FEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLP---- 527

Query: 150 FNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELG 209
            N +L+   +    + A   F   +K     ++V++NIL+ G    G+   A  +   + 
Sbjct: 528 -NALLDLYVRCGRMNYAWNQFNSHEK-----DVVSWNILLTGYVAHGKGSMAVELFNRMV 581

Query: 210 DSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRK-GYTFDGFGYCTVIAAFVKIGRL 268
           +SG  P+ +T+ +++  C R+     GLE   +M+ K   T +   Y  V+    + G+L
Sbjct: 582 ESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKL 641

Query: 269 KEATDYMEQMVTDGVQLDIVSYNTLINLYCK------EGKLEAAYLLLDEMEKQGFE--- 319
            EA +++ +M    +  D   +  L+N  C+       G+L A ++   +    G+    
Sbjct: 642 TEAYNFINKM---PITPDPAVWGALLNA-CRIHRHVELGELAAQHIFELDPNSVGYYILL 697

Query: 320 CDKYT 324
           C+ Y 
Sbjct: 698 CNLYA 702

Length = 857

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

 Score = 47.0 bits (113), Expect = 1e-07
 Identities = 17/31 (54%), Positives = 22/31 (70%)

Query: 177 GFVPELVTYNILIKGLCKAGRLRTARWILKE 207
           G  P++VTYN LI GLC+AGR+  A  +L E
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDE 32

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

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

 Score = 47.4 bits (114), Expect = 2e-07
 Identities = 14/44 (31%), Positives = 27/44 (61%)

Query: 11 NICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQ 54
          N  +  +CK  ++E+A  +  +  + G+ P+V TY++LID  C+
Sbjct: 7  NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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 = 46.6 bits (112), Expect = 3e-07
 Identities = 15/46 (32%), Positives = 27/46 (58%), Gaps = 4/46 (8%)

Query: 359 AYNCIVDRLGKDGKIDHAINVFESMEVK----DSFTYSSMVHNLCK 400
            YN ++D   K GK++ A+ +F  M+ +    + +TYS ++  LCK
Sbjct: 5   TYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 45.1 bits (108), Expect = 7e-07
 Identities = 17/34 (50%), Positives = 24/34 (70%)

Query: 288 VSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECD 321
           V+YNTLI+  CK G++E A  L  EM+++G E D
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 44.4 bits (106), Expect = 1e-06
 Identities = 17/31 (54%), Positives = 23/31 (74%)

Query: 288 VSYNTLINLYCKEGKLEAAYLLLDEMEKQGF 318
           V+YN+LI+ YCK GKLE A  L  EM+++G 
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 47.9 bits (114), Expect = 9e-06
 Identities = 53/256 (20%), Positives = 97/256 (37%), Gaps = 47/256 (18%)

Query: 144 TPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARW 203
           +  T   N  L  LC +   + AL++   +Q+     +   Y  L + LC+  R      
Sbjct: 48  SSSTHDSNSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFR-LCEWKR------ 100

Query: 204 ILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFV 263
                        +   +  +          LG+ + +AM               ++ FV
Sbjct: 101 --------AVEEGSRVCSRALS-----SHPSLGVRLGNAM---------------LSMFV 132

Query: 264 KIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKY 323
           + G L  A     +M     + D+ S+N L+  Y K G  + A  L   M   G   D Y
Sbjct: 133 RFGELVHAWYVFGKM----PERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVY 188

Query: 324 THTILIDGLCKAGNI----KGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINV 379
           T   +   L   G I    +G  +H   + + GF+ +++  N ++    K G +  A  V
Sbjct: 189 TFPCV---LRTCGGIPDLARGREVHAHVV-RFGFELDVDVVNALITMYVKCGDVVSARLV 244

Query: 380 FESMEVKDSFTYSSMV 395
           F+ M  +D  ++++M+
Sbjct: 245 FDRMPRRDCISWNAMI 260

Length = 857

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

 Score = 41.6 bits (99), Expect = 1e-05
 Identities = 17/32 (53%), Positives = 23/32 (71%)

Query: 72  GISPDVVTYNSLIAGATRNSLLSCSLDLLDEM 103
           G+ PDVVTYN+LI G  R   +  +++LLDEM
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 40.8 bits (97), Expect = 2e-05
 Identities = 13/33 (39%), Positives = 21/33 (63%)

Query: 106 MGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDM 138
            G+ PDV +YN+L+  L + G+ DEA  +  +M
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 46.0 bits (109), Expect = 3e-05
 Identities = 35/147 (23%), Positives = 65/147 (44%), Gaps = 9/147 (6%)

Query: 20  ANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVT 79
           A  L+KA  I+ D  + G+    V+Y+ L+ A     ++     +   ++   + P V T
Sbjct: 662 AGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVST 721

Query: 80  YNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVF---- 135
            N+LI      + L  +L++L EM  +G+ P+  +Y+ L+    +    D    +     
Sbjct: 722 MNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAK 781

Query: 136 QDMICGDLTPCTATFNIMLNGLCKNRY 162
           +D I  +L  C       + GLC  R+
Sbjct: 782 EDGIKPNLVMCRC-----ITGLCLRRF 803

Length = 1060

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

 Score = 40.4 bits (96), Expect = 3e-05
 Identities = 15/33 (45%), Positives = 19/33 (57%)

Query: 37 GVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMR 69
          G+ PDVVTYN LID  C+    D    +L+ M 
Sbjct: 2  GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

>gnl|CDD|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only]

 Score = 44.1 bits (102), Expect = 8e-05
 Identities = 52/261 (19%), Positives = 85/261 (32%), Gaps = 5/261 (1%)

Query: 125 LGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMF-RGLQKHGFVPELV 183
           L     A  +  + +   L    A     L  L        AL +    L+         
Sbjct: 1   LKDLLLALAILLEALAKLLAEALALLEAGLALLELLGELAEALELLEEALELLPNSDLAG 60

Query: 184 TYNILIKGLCKAGRLRTAR-WILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSA 242
              +L   L K GRL  A   + K L        A     +        KY+  LE+L  
Sbjct: 61  LLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEK 120

Query: 243 MKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLD--IVSYNTLINLYCKE 300
                   D       + A  ++G  +EA +  E+ +    +L+    +   L  L    
Sbjct: 121 ALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEAL 180

Query: 301 GKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAY 360
           G+ E A  LL++  K   + D      L     K G  + A  + E   ++    N EA 
Sbjct: 181 GRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALEL-DPDNAEAL 239

Query: 361 NCIVDRLGKDGKIDHAINVFE 381
             +   L + G+ + A+   E
Sbjct: 240 YNLALLLLELGRYEEALEALE 260

Length = 291

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

 Score = 44.5 bits (105), Expect = 1e-04
 Identities = 56/278 (20%), Positives = 106/278 (38%), Gaps = 44/278 (15%)

Query: 34  IRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLL 93
           ++ GV+ D      LID Y +    +    + + M E       V +NS++AG   +   
Sbjct: 251 LKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEK----TTVAWNSMLAGYALHGYS 306

Query: 94  SCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIM 153
             +L L  EM + G+  D ++++ ++    +L   + A +    +I     P     N  
Sbjct: 307 EEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGF-PLDIVANTA 365

Query: 154 LNGL-CKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSG 212
           L  L  K    ++A  +F  + +      L+++N LI G    GR   A  + + +   G
Sbjct: 366 LVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVEMFERMIAEG 421

Query: 213 HAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEAT 272
            APN +T+  ++  C  +   + G EI  +M                             
Sbjct: 422 VAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSE--------------------------- 454

Query: 273 DYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLL 310
                     ++   + Y  +I L  +EG L+ AY ++
Sbjct: 455 -------NHRIKPRAMHYACMIELLGREGLLDEAYAMI 485

Length = 697

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

 Score = 38.7 bits (91), Expect = 1e-04
 Identities = 15/34 (44%), Positives = 19/34 (55%)

Query: 182 LVTYNILIKGLCKAGRLRTARWILKELGDSGHAP 215
           L TYN L+  L KAG    A  +L+E+  SG  P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 38.2 bits (90), Expect = 2e-04
 Identities = 11/32 (34%), Positives = 21/32 (65%)

Query: 149 TFNIMLNGLCKNRYTDNALRMFRGLQKHGFVP 180
           T+N +++GLCK    + AL +F+ +++ G  P
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33

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

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

 Score = 37.3 bits (88), Expect = 4e-04
 Identities = 14/33 (42%), Positives = 20/33 (60%)

Query: 316 QGFECDKYTHTILIDGLCKAGNIKGARLHLEYM 348
           +G + D  T+  LIDGLC+AG +  A   L+ M
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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 = 37.4 bits (88), Expect = 4e-04
 Identities = 16/30 (53%), Positives = 20/30 (66%)

Query: 183 VTYNILIKGLCKAGRLRTARWILKELGDSG 212
           VTYN LI G CKAG+L  A  + KE+ + G
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKG 30

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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 37.2 bits (87), Expect = 4e-04
 Identities = 10/33 (30%), Positives = 18/33 (54%)

Query: 287 IVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFE 319
           + +YN L+    K G  + A  +L+EM+  G +
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLK 33

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

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

 Score = 41.8 bits (98), Expect = 7e-04
 Identities = 53/278 (19%), Positives = 109/278 (39%), Gaps = 46/278 (16%)

Query: 10  LNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMR 69
            +I +  F +   LE A+      IR G   D+V    L+D Y ++   +    + +RM 
Sbjct: 328 FSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP 387

Query: 70  EAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPD 129
                 +++++N+LIAG                          +  +         G+  
Sbjct: 388 RK----NLISWNALIAG--------------------------YGNH---------GRGT 408

Query: 130 EANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGL-QKHGFVPELVTYNIL 188
           +A  +F+ MI   + P   TF  +L+    +  ++    +F+ + + H   P  + Y  +
Sbjct: 409 KAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACM 468

Query: 189 IKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGY 248
           I+ L + G L  A  +++    +   P    +  ++  C  ++  +LG   L+A K  G 
Sbjct: 469 IELLGREGLLDEAYAMIR---RAPFKPTVNMWAALLTACRIHKNLELGR--LAAEKLYGM 523

Query: 249 TFDGFG-YCTVIAAFVKIGRLKEATDYMEQMVTDGVQL 285
             +    Y  ++  +   GR  EA   +E +   G+ +
Sbjct: 524 GPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSM 561

Length = 697

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

 Score = 36.7 bits (86), Expect = 7e-04
 Identities = 10/32 (31%), Positives = 20/32 (62%)

Query: 114 SYNSLMHCLFQLGKPDEANRVFQDMICGDLTP 145
           +YN+L+  L + G+ +EA  +F++M    + P
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33

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

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

 Score = 36.7 bits (86), Expect = 8e-04
 Identities = 15/35 (42%), Positives = 19/35 (54%)

Query: 43 VTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDV 77
          VTYN LID  C+    +    +   M+E GI PDV
Sbjct: 1  VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 36.7 bits (86), Expect = 8e-04
 Identities = 18/35 (51%), Positives = 23/35 (65%)

Query: 183 VTYNILIKGLCKAGRLRTARWILKELGDSGHAPNA 217
           VTYN LI GLCKAGR+  A  + KE+ + G  P+ 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 36.3 bits (85), Expect = 0.001
 Identities = 17/35 (48%), Positives = 22/35 (62%)

Query: 78  VTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDV 112
           VTYN+LI G  +   +  +L+L  EM E GI PDV
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 36.4 bits (85), Expect = 0.001
 Identities = 10/34 (29%), Positives = 17/34 (50%)

Query: 42 VVTYNMLIDAYCQFVSFDAGYTILNRMREAGISP 75
          + TYN L+ A  +    D    +L  M+ +G+ P
Sbjct: 1  LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 35.1 bits (82), Expect = 0.002
 Identities = 9/34 (26%), Positives = 17/34 (50%)

Query: 218 ITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFD 251
           +TY T++    +  + +  LE+   MK +G   D
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 35.5 bits (83), Expect = 0.002
 Identities = 9/30 (30%), Positives = 19/30 (63%)

Query: 149 TFNIMLNGLCKNRYTDNALRMFRGLQKHGF 178
           T+N +++G CK    + AL +F+ +++ G 
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 34.6 bits (81), Expect = 0.003
 Identities = 7/23 (30%), Positives = 14/23 (60%)

Query: 149 TFNIMLNGLCKNRYTDNALRMFR 171
           T+N +++GLC+    D A+ +  
Sbjct: 9   TYNTLIDGLCRAGRVDEAVELLD 31

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 = 0.003
 Identities = 15/31 (48%), Positives = 20/31 (64%)

Query: 78  VTYNSLIAGATRNSLLSCSLDLLDEMLEMGI 108
           VTYNSLI+G  +   L  +L+L  EM E G+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 39.4 bits (92), Expect = 0.004
 Identities = 35/128 (27%), Positives = 57/128 (44%), Gaps = 10/128 (7%)

Query: 298 CKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLC--KAGNIKGARLH---LEYMNKIG 352
           C  G+LE A  LL+ M++     D+  +  L   LC  K    +G+R+    L     +G
Sbjct: 62  CSHGQLEQALKLLESMQELRVPVDEDAYVALFR-LCEWKRAVEEGSRVCSRALSSHPSLG 120

Query: 353 FDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLL 412
               +   N ++    + G++ HA  VF  M  +D F+++ +V    KA     A  L  
Sbjct: 121 ----VRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYH 176

Query: 413 SCLKSGVR 420
             L +GVR
Sbjct: 177 RMLWAGVR 184

Length = 857

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	456
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.97
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.96
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.96
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.95
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.95
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.94
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.94
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.93
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.93
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.93
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.93
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.93
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.93
PRK14574	822	hmsH outer membrane protein; Provisional	99.93
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.92
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.9
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.89
PRK14574	822	hmsH outer membrane protein; Provisional	99.88
KOG2003	840	consensus TPR repeat-containing protein [General f	99.88
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.87
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.87
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.85
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.85
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.83
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.83
KOG2076	895	consensus RNA polymerase III transcription factor	99.83
KOG2003	840	consensus TPR repeat-containing protein [General f	99.81
KOG2076	895	consensus RNA polymerase III transcription factor	99.79
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.78
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.78
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.77
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.77
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.77
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.76
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.75
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.75
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.73
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.73
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.72
KOG1126	638	consensus DNA-binding cell division cycle control	99.71
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.71
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.71
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.71
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.69
KOG1126	638	consensus DNA-binding cell division cycle control	99.69
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.64
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.64
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.63
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.62
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.6
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.6
PRK12370	553	invasion protein regulator; Provisional	99.59
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.58
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.57
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.56
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.56
KOG1129	478	consensus TPR repeat-containing protein [General f	99.56
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.56
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.55
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.55
PRK12370	553	invasion protein regulator; Provisional	99.55
KOG1129	478	consensus TPR repeat-containing protein [General f	99.55
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.53
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.52
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.51
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.5
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.48
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.45
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.44
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.43
PRK11189	296	lipoprotein NlpI; Provisional	99.41
PRK11189	296	lipoprotein NlpI; Provisional	99.4
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.38
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.37
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.33
PF13041	50	PPR_2: PPR repeat family	99.33
PF13041	50	PPR_2: PPR repeat family	99.32
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.31
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.3
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.29
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.27
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.27
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.26
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.25
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.24
PRK04841	903	transcriptional regulator MalT; Provisional	99.24
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.21
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.2
PRK04841	903	transcriptional regulator MalT; Provisional	99.2
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.17
KOG1125	579	consensus TPR repeat-containing protein [General f	99.15
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.14
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.13
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.12
KOG1128	777	consensus Uncharacterized conserved protein, conta	99.11
PLN02789	320	farnesyltranstransferase	99.1
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.08
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	99.08
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.07
KOG1125	579	consensus TPR repeat-containing protein [General f	99.03
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.02
KOG1128	777	consensus Uncharacterized conserved protein, conta	99.01
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.0
PLN02789	320	farnesyltranstransferase	98.99
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.98
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.93
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.92
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.92
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.91
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.9
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.89
PRK15359	144	type III secretion system chaperone protein SscB;	98.85
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.85
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.84
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.83
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.83
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.83
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.8
PRK15359	144	type III secretion system chaperone protein SscB;	98.8
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.79
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.76
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.73
PF12854	34	PPR_1: PPR repeat	98.72
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.67
PF12854	34	PPR_1: PPR repeat	98.67
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.66
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.63
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.59
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.56
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.5
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.49
KOG2041	1189	consensus WD40 repeat protein [General function pr	98.49
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.43
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.42
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.37
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.37
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.28
COG4700	251	Uncharacterized protein conserved in bacteria cont	98.25
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.23
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.19
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.19
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.15
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.15
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.15
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.14
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.14
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.14
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.13
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.11
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.1
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.09
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.09
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.09
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.08
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.08
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.07
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.07
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.04
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.04
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.03
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.03
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.03
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.03
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.03
KOG2041	1189	consensus WD40 repeat protein [General function pr	98.02
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	98.02
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.0
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.98
KOG0553	304	consensus TPR repeat-containing protein [General f	97.96
PF12688	120	TPR_5: Tetratrico peptide repeat	97.96
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.95
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.94
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.92
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.92
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.9
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.9
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.89
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.89
KOG0553	304	consensus TPR repeat-containing protein [General f	97.88
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.88
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.86
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.82
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.81
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.81
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.77
PF12688	120	TPR_5: Tetratrico peptide repeat	97.76
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.76
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.74
PRK10803	263	tol-pal system protein YbgF; Provisional	97.71
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.61
PRK15331	165	chaperone protein SicA; Provisional	97.59
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.58
PF13371	73	TPR_9: Tetratricopeptide repeat	97.57
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.51
COG4105	254	ComL DNA uptake lipoprotein [General function pred	97.51
PRK10803	263	tol-pal system protein YbgF; Provisional	97.5
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.47
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.45
PF13371	73	TPR_9: Tetratricopeptide repeat	97.41
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	97.4
KOG1258	577	consensus mRNA processing protein [RNA processing	97.32
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.32
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.31
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.3
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.29
PRK15331	165	chaperone protein SicA; Provisional	97.28
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.25
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.25
KOG4555	175	consensus TPR repeat-containing protein [Function	97.23
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.23
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.22
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.22
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	97.18
KOG1258	577	consensus mRNA processing protein [RNA processing	97.18
KOG1585	308	consensus Protein required for fusion of vesicles	97.17
KOG2610	491	consensus Uncharacterized conserved protein [Funct	97.1
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.09
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.05
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.05
PF13512	142	TPR_18: Tetratricopeptide repeat	97.04
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.99
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.99
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.96
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.94
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.92
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.92
PF13428	44	TPR_14: Tetratricopeptide repeat	96.9
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.81
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.78
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.77
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.75
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.74
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.73
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.73
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.72
PF13428	44	TPR_14: Tetratricopeptide repeat	96.72
KOG1585	308	consensus Protein required for fusion of vesicles	96.64
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.64
PRK11906	458	transcriptional regulator; Provisional	96.54
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.42
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.33
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.32
PF13512	142	TPR_18: Tetratricopeptide repeat	96.32
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.23
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.22
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.21
PRK11906	458	transcriptional regulator; Provisional	96.12
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	96.09
KOG4555	175	consensus TPR repeat-containing protein [Function	95.98
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.79
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.77
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	95.72
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.71
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.61
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	95.57
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.55
KOG3941	406	consensus Intermediate in Toll signal transduction	95.49
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.47
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.47
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.45
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.44
PF13431	34	TPR_17: Tetratricopeptide repeat	95.41
KOG3941	406	consensus Intermediate in Toll signal transduction	95.37
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.33
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.32
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.31
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	95.28
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.24
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.18
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	95.08
KOG4234	271	consensus TPR repeat-containing protein [General f	95.03
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.01
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.95
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.93
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.72
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.61
KOG1550	552	consensus Extracellular protein SEL-1 and related	94.43
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.41
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.37
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.36
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.3
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	94.28
PF13431	34	TPR_17: Tetratricopeptide repeat	94.28
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.22
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	94.17
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.15
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	94.0
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.84
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.83
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	93.81
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	93.21
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	93.2
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	93.05
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	92.9
KOG4570	418	consensus Uncharacterized conserved protein [Funct	92.75
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	92.75
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	92.72
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	92.7
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	92.48
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	92.28
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	92.25
KOG1550	552	consensus Extracellular protein SEL-1 and related	92.22
KOG1586	288	consensus Protein required for fusion of vesicles	92.19
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	92.14
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	92.07
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	92.06
PRK11619	644	lytic murein transglycosylase; Provisional	91.97
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	91.96
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	91.95
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	91.79
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	91.7
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	91.6
KOG2471	696	consensus TPR repeat-containing protein [General f	91.43
KOG4234	271	consensus TPR repeat-containing protein [General f	90.91
COG1747	711	Uncharacterized N-terminal domain of the transcrip	90.89
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	90.82
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	90.79
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	90.73
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	90.15
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	89.79
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	89.76
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	89.7
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	89.58
COG4455	273	ImpE Protein of avirulence locus involved in tempe	89.46
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	89.37
KOG4648	536	consensus Uncharacterized conserved protein, conta	89.33
PRK09687	280	putative lyase; Provisional	89.28
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	88.96
KOG4570	418	consensus Uncharacterized conserved protein [Funct	88.89
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	88.57
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	88.47
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	88.35
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	88.21
KOG4507	886	consensus Uncharacterized conserved protein, conta	87.64
PRK09687	280	putative lyase; Provisional	87.5
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	87.1
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	86.97
KOG4648	536	consensus Uncharacterized conserved protein, conta	86.88
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	86.82
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	86.69
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	86.45
KOG3364	149	consensus Membrane protein involved in organellar	86.1
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	86.04
COG4455	273	ImpE Protein of avirulence locus involved in tempe	85.9
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	85.66
PF13762	145	MNE1: Mitochondrial splicing apparatus component	85.32
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	84.65
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	84.32
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	84.18
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	84.05
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	83.79
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	83.71
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	83.7
PF07575	566	Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR0	83.52
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	83.23
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	83.23
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	83.08
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	83.06
PRK11619	644	lytic murein transglycosylase; Provisional	82.92
COG3947	361	Response regulator containing CheY-like receiver a	82.72
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	82.33
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	82.13
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	82.01
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	81.97
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	81.77
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	81.23
PRK12798	421	chemotaxis protein; Reviewed	81.05
COG5159	421	RPN6 26S proteasome regulatory complex component [	80.88
COG3947	361	Response regulator containing CheY-like receiver a	80.74
PF13929	292	mRNA_stabil: mRNA stabilisation	80.53

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.2e-66  Score=494.46  Aligned_cols=449  Identities=18%  Similarity=0.242  Sum_probs=341.1

Q ss_pred             CCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHH
Q 012804            4 KLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSL   83 (456)
Q Consensus         4 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   83 (456)
                      .||..+|+.++.+|++.|+++.|.++|+.|.+.|+.||..+|+.+|.+|++.|+++.|.++|++|.+.|+.||..+|+.+
T Consensus       434 ~pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaL  513 (1060)
T PLN03218        434 NPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGAL  513 (1060)
T ss_pred             CCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            36777777777777777777777777777777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHh--CCCCCChhHHHHHHHHHHhcC
Q 012804           84 IAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMIC--GDLTPCTATFNIMLNGLCKNR  161 (456)
Q Consensus        84 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~  161 (456)
                      |.+|++.|++++|.++|++|...|+.||..+|+.++.+|++.|++++|.++|++|..  .++.||..+|+.++.+|++.|
T Consensus       514 I~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G  593 (1060)
T PLN03218        514 IDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAG  593 (1060)
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCC
Confidence            777777777777777777777777777777777777777777777777777777765  466777777777777777777


Q ss_pred             ChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHH
Q 012804          162 YTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILS  241 (456)
Q Consensus       162 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  241 (456)
                      ++++|.++|+.|.+.|++|+..+|+.++.+|++.|++++|.++|+.|...|+.||..+|+.++.+|.+.|++++|.++++
T Consensus       594 ~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~  673 (1060)
T PLN03218        594 QVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQ  673 (1060)
T ss_pred             CHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            77777777777777777777777777777777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcC
Q 012804          242 AMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECD  321 (456)
Q Consensus       242 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  321 (456)
                      .|.+.|+.|+..+|+.++.+|++.|++++|.++|++|.+.++.||..+|+.+|.+|++.|++++|.++|++|...|+.||
T Consensus       674 eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd  753 (1060)
T PLN03218        674 DARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPN  753 (1060)
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            77777777777777777777777777777777777777777777777777777777777777777777777777777777


Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----CC-------------------CHHHHHH
Q 012804          322 KYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGK----DG-------------------KIDHAIN  378 (456)
Q Consensus       322 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g-------------------~~~~a~~  378 (456)
                      ..+|+.++.+|++.|+++.|.+++.+|.+.|+.||..+|+.++..|.+    ++                   ..+.|..
T Consensus       754 ~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~  833 (1060)
T PLN03218        754 TITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALM  833 (1060)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHH
Confidence            777777777777777777777777777777777777777777655321    11                   1355777


Q ss_pred             HHHHhccC----ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhccc
Q 012804          379 VFESMEVK----DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKI  454 (456)
Q Consensus       379 ~~~~~~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  454 (456)
                      +|++|...    +..+|+.++.++...+....+..+++.+...+..|+..+|+.++.++.+.  .++|..++++|.+.++
T Consensus       834 lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~Gi  911 (1060)
T PLN03218        834 VYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLGV  911 (1060)
T ss_pred             HHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcCC
Confidence            77777665    66777777766667777777777777776666667777777777776322  3567777777777664

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=7e-66  Score=491.06  Aligned_cols=443  Identities=17%  Similarity=0.275  Sum_probs=336.1

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIA   85 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   85 (456)
                      +...++.++..|.+.|.+++|+.+|+.|.    .|+..+|+.++.+|++.|+++.|.++|+.|.+.|+.||..+|+.+|.
T Consensus       405 ~~v~~~~li~~~~~~g~~~eAl~lf~~M~----~pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~  480 (1060)
T PLN03218        405 DKIYHAKFFKACKKQRAVKEAFRFAKLIR----NPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLIS  480 (1060)
T ss_pred             hHHHHHHHHHHHHHCCCHHHHHHHHHHcC----CCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            33344444444444444444444444442    26777778888888888888888888888887777788888888888


Q ss_pred             HHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHH
Q 012804           86 GATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDN  165 (456)
Q Consensus        86 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  165 (456)
                      +|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|+.|.+.|+.||..+|+.++.+|++.|++++
T Consensus       481 ~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~de  560 (1060)
T PLN03218        481 TCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDR  560 (1060)
T ss_pred             HHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHH
Confidence            88888888888888888887777778888888888888888888888888888777777888888888888888888888


Q ss_pred             HHHHHHHHHh--CCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHH
Q 012804          166 ALRMFRGLQK--HGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAM  243 (456)
Q Consensus       166 a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  243 (456)
                      |.++|++|..  .|+.||..+|+.++.+|++.|++++|.++|+.|.+.++.|+..+|+.++.+|++.|++++|.++|++|
T Consensus       561 A~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM  640 (1060)
T PLN03218        561 AFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDM  640 (1060)
T ss_pred             HHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            8888888765  46777888888888888888888888888888888777778888888888888888888888888888


Q ss_pred             HHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHH
Q 012804          244 KRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKY  323 (456)
Q Consensus       244 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  323 (456)
                      .+.|+.||..+|+.++.+|++.|++++|.++++.|.+.|+.|+..+|+.++.+|++.|++++|.++|++|.+.|+.|+..
T Consensus       641 ~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~Pdvv  720 (1060)
T PLN03218        641 KKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVS  720 (1060)
T ss_pred             HHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHH
Confidence            87777788888888888888888888888888888877777888888888888888888888888888887777778888


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC----ChhhHHHHHHHHH
Q 012804          324 THTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK----DSFTYSSMVHNLC  399 (456)
Q Consensus       324 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~l~~~~~  399 (456)
                      +|+.++.+|++.|++++|.++|++|...|+.||..+|+.++.+|.+.|++++|.++|.+|.+.    +..+|+.++..|.
T Consensus       721 tyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~  800 (1060)
T PLN03218        721 TMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCL  800 (1060)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            888888888888888888888888877777888888888888888888888888888877665    6667777765433


Q ss_pred             c-----------------------cCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhc
Q 012804          400 K-----------------------AKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMA  452 (456)
Q Consensus       400 ~-----------------------~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  452 (456)
                      +                       .+..++|..+|++|++.|+.||..||..++.++...+..+.+..+++.+...
T Consensus       801 ~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~  876 (1060)
T PLN03218        801 RRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGIS  876 (1060)
T ss_pred             HHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccC
Confidence            1                       1123567777888888788888888887777777777777777777766543

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=7.5e-64  Score=485.99  Aligned_cols=439  Identities=17%  Similarity=0.185  Sum_probs=298.1

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHH
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNS   82 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   82 (456)
                      ++||+.+|+.+|.+|.+.|++++|+++|++|...|+.||..+|+.++.+|...+++..+.+++..+.+.|+.||..+|+.
T Consensus       148 ~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~  227 (857)
T PLN03077        148 PERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNA  227 (857)
T ss_pred             CCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhH
Confidence            46889999999999999999999999999999888888888877666666655555555555555555555555555555


Q ss_pred             HHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCC
Q 012804           83 LIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRY  162 (456)
Q Consensus        83 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  162 (456)
                      ++.+|++.|+++.|.++|++|..    ||..+|+.++.+|.+.|++++|.++|++|...|+.||..+|+.++.+|++.|+
T Consensus       228 Li~~y~k~g~~~~A~~lf~~m~~----~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~  303 (857)
T PLN03077        228 LITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGD  303 (857)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCCC----CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCC
Confidence            55555555555555555555542    34555555555555555555555555555555555555555555555555555


Q ss_pred             hHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHH
Q 012804          163 TDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSA  242 (456)
Q Consensus       163 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  242 (456)
                      .+.+.+++..+.+.|+.||..+|+.++.+|++.|++++|.++|+.|..    ||..+|+.++.+|.+.|++++|.++|++
T Consensus       304 ~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~~s~n~li~~~~~~g~~~~A~~lf~~  379 (857)
T PLN03077        304 ERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGLPDKALETYAL  379 (857)
T ss_pred             hHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCCCHHHHHHHHHH
Confidence            555555555555555555555555555555555555555555554432    3444455555555555555555555555


Q ss_pred             HHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCH-------------------------------HHHH
Q 012804          243 MKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDI-------------------------------VSYN  291 (456)
Q Consensus       243 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------------------------------~~~~  291 (456)
                      |.+.++.||..+|+.++.+|++.|+++.|.++++.+.+.|+.|+.                               .+|+
T Consensus       380 M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~  459 (857)
T PLN03077        380 MEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWT  459 (857)
T ss_pred             HHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHH
Confidence            544444455445444444444444444444444444444444444                               4555


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC
Q 012804          292 TLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDG  371 (456)
Q Consensus       292 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  371 (456)
                      .++.+|++.|+.++|..+|++|.. ++.||..||..++.+|++.|+.+.+.+++..+.+.|+.++..+++.++.+|.++|
T Consensus       460 ~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G  538 (857)
T PLN03077        460 SIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCG  538 (857)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcC
Confidence            555555555555555555555543 3667777777777777777777777777777777777777778888889999999


Q ss_pred             CHHHHHHHHHHhccCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHh
Q 012804          372 KIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       372 ~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      ++++|.++|+.+ ..|..+|+.++.+|.+.|+.++|.++|++|.+.|+.||..||..++.+|.+.|++++|.++|++|.+
T Consensus       539 ~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~  617 (857)
T PLN03077        539 RMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEE  617 (857)
T ss_pred             CHHHHHHHHHhc-CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHH
Confidence            999999999999 7799999999999999999999999999999999999999999999999999999999999999983

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

Probab=100.00  E-value=2.7e-63  Score=471.01  Aligned_cols=438  Identities=16%  Similarity=0.236  Sum_probs=394.5

Q ss_pred             CCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHH
Q 012804            4 KLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSL   83 (456)
Q Consensus         4 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   83 (456)
                      +||..+|+.++.+|.+.++++.|.+++..|.+.|..||..+|+.++.+|.+.|+++.|.++|++|.    .||..+|+.+
T Consensus       120 ~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~----~~~~~t~n~l  195 (697)
T PLN03081        120 TLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMP----ERNLASWGTI  195 (697)
T ss_pred             CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCC----CCCeeeHHHH
Confidence            467778888888888888888888888888877777888888888888888888888888888775    3677788888


Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCh
Q 012804           84 IAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYT  163 (456)
Q Consensus        84 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  163 (456)
                      +.+|++.|++++|.++|++|.+.|+.|+..+|+.++.++.+.|..+.+.+++..+.+.|+.||..+++.++.+|++.|++
T Consensus       196 i~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~  275 (697)
T PLN03081        196 IGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDI  275 (697)
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCH
Confidence            88888888888888888888887888888888888888888888888888888888888888888999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHH
Q 012804          164 DNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAM  243 (456)
Q Consensus       164 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  243 (456)
                      ++|.++|+.|.+    +|..+|+.++.+|++.|++++|.++|++|...|+.||..||+.++.+|++.|+++.|.+++..+
T Consensus       276 ~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m  351 (697)
T PLN03081        276 EDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGL  351 (697)
T ss_pred             HHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHH
Confidence            999999999964    5899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHH
Q 012804          244 KRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKY  323 (456)
Q Consensus       244 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  323 (456)
                      .+.|++|+..+++.++.+|++.|++++|.++|++|.+    ||..+|+.+|.+|++.|+.++|.++|++|.+.|+.||..
T Consensus       352 ~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~  427 (697)
T PLN03081        352 IRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHV  427 (697)
T ss_pred             HHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHH
Confidence            9999999999999999999999999999999999964    689999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC-ChhhHHHHHHHHHcc
Q 012804          324 THTILIDGLCKAGNIKGARLHLEYMNK-IGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK-DSFTYSSMVHNLCKA  401 (456)
Q Consensus       324 ~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~~  401 (456)
                      ||+.++.+|.+.|.+++|.++|+.|.+ .|+.|+..+|+.++.+|.+.|++++|.++++++... +..+|+.++.+|...
T Consensus       428 T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~  507 (697)
T PLN03081        428 TFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIH  507 (697)
T ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Confidence            999999999999999999999999976 589999999999999999999999999999998654 889999999999999


Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhccc
Q 012804          402 KRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKI  454 (456)
Q Consensus       402 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  454 (456)
                      |+++.|..+++++.+.++. +..+|..++..|.+.|++++|.+++++|++.++
T Consensus       508 g~~~~a~~~~~~l~~~~p~-~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~  559 (697)
T PLN03081        508 KNLELGRLAAEKLYGMGPE-KLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGL  559 (697)
T ss_pred             CCcHHHHHHHHHHhCCCCC-CCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Confidence            9999999999999855422 577999999999999999999999999999875

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

Probab=100.00  E-value=6.3e-62  Score=461.73  Aligned_cols=435  Identities=19%  Similarity=0.240  Sum_probs=417.4

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhcC-CCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHH
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRLG-VLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLI   84 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   84 (456)
                      +...|+.+|..+.+.|++++|+++|+.|...+ ..||..+|+.++.+|.+.++++.+.+++..|.+.|+.||..+|+.++
T Consensus        86 ~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li  165 (697)
T PLN03081         86 SGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVL  165 (697)
T ss_pred             CceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHH
Confidence            45589999999999999999999999998765 67899999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChH
Q 012804           85 AGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTD  164 (456)
Q Consensus        85 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  164 (456)
                      ..|++.|+++.|.++|++|.+    ||..+|+.++.+|++.|++++|.++|++|.+.|+.|+..+|+.++.++++.|..+
T Consensus       166 ~~y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~  241 (697)
T PLN03081        166 LMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSAR  241 (697)
T ss_pred             HHHhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHH
Confidence            999999999999999999975    7999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHH
Q 012804          165 NALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMK  244 (456)
Q Consensus       165 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  244 (456)
                      .+.+++..+.+.|+.||..+++.++.+|++.|++++|.++|+.|..    +|..+|+.++.+|.+.|++++|.++|++|.
T Consensus       242 ~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~  317 (697)
T PLN03081        242 AGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMR  317 (697)
T ss_pred             HHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999964    689999999999999999999999999999


Q ss_pred             HcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHh
Q 012804          245 RKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYT  324 (456)
Q Consensus       245 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  324 (456)
                      +.|+.||..+|+.++.+|++.|++++|.+++..|.+.|+.||..+++.++.+|++.|++++|.++|++|.+    ||..+
T Consensus       318 ~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t  393 (697)
T PLN03081        318 DSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLIS  393 (697)
T ss_pred             HcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeee
Confidence            99999999999999999999999999999999999999999999999999999999999999999999964    68899


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC-----ChhhHHHHHHHHH
Q 012804          325 HTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK-----DSFTYSSMVHNLC  399 (456)
Q Consensus       325 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~l~~~~~  399 (456)
                      |+.++.+|++.|+.++|.++|++|.+.|+.||..+|+.++.+|.+.|.+++|.++|+.|.+.     +..+|+.++.+|.
T Consensus       394 ~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~  473 (697)
T PLN03081        394 WNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLG  473 (697)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999753     6779999999999


Q ss_pred             ccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhcccC
Q 012804          400 KAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKIS  455 (456)
Q Consensus       400 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  455 (456)
                      +.|++++|.+++++|   +..|+..+|..++.+|...|+++.|..+++++.+..+.
T Consensus       474 r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~  526 (697)
T PLN03081        474 REGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPE  526 (697)
T ss_pred             hcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCC
Confidence            999999999999887   68899999999999999999999999999998776553

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.2e-61  Score=467.63  Aligned_cols=439  Identities=20%  Similarity=0.257  Sum_probs=354.2

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHH
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNS   82 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   82 (456)
                      +.||+.+||.+|.+|++.|++++|+++|++|.+.|+.||..+|+.++.+|.+.|+.+.|.+++..|.+.|+.||..+|+.
T Consensus       249 ~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~  328 (857)
T PLN03077        249 PRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNS  328 (857)
T ss_pred             CCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHH
Confidence            46788889999999999999999999999998888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCC
Q 012804           83 LIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRY  162 (456)
Q Consensus        83 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  162 (456)
                      ++.+|++.|++++|.++|++|..    ||..+|+.++.+|.+.|++++|.++|++|...|+.||..+|+.++.+|++.|+
T Consensus       329 Li~~y~k~g~~~~A~~vf~~m~~----~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~  404 (857)
T PLN03077        329 LIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGD  404 (857)
T ss_pred             HHHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccch
Confidence            88888888888888888888764    67788888888888888888888888888888888888888888888888888


Q ss_pred             hHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHH
Q 012804          163 TDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSA  242 (456)
Q Consensus       163 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  242 (456)
                      ++.|.++++.+.+.|+.|+..+++.|+.+|++.|++++|.++|+.|.+    +|..+|+.++.+|.+.|+.++|..+|++
T Consensus       405 ~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~  480 (857)
T PLN03077        405 LDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQ  480 (857)
T ss_pred             HHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHH
Confidence            888888888888888888888888888888888888888887777654    3445555555555555555555555555


Q ss_pred             HH----------------------------------HcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHH
Q 012804          243 MK----------------------------------RKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIV  288 (456)
Q Consensus       243 ~~----------------------------------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  288 (456)
                      |.                                  +.|+.++..+++.++.+|++.|++++|..+|+.+     .||..
T Consensus       481 m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-----~~d~~  555 (857)
T PLN03077        481 MLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-----EKDVV  555 (857)
T ss_pred             HHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-----CCChh
Confidence            54                                  3444444444445555555566666666666554     46888


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHH-hCCCCCCHHHHHHHHHHH
Q 012804          289 SYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMN-KIGFDSNLEAYNCIVDRL  367 (456)
Q Consensus       289 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~  367 (456)
                      +|+.++.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|.+++|.++|+.|. +.|+.|+..+|+.++.+|
T Consensus       556 s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l  635 (857)
T PLN03077        556 SWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLL  635 (857)
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHH
Confidence            8888888888899999999999999888888999999999999999999999999999988 668888989999999999


Q ss_pred             HhCCCHHHHHHHHHHhc-cCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHH
Q 012804          368 GKDGKIDHAINVFESME-VKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQ  446 (456)
Q Consensus       368 ~~~g~~~~a~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  446 (456)
                      .+.|++++|.+++++|. +++..+|.+|+.+|...|+.+.+....+++.+..+ .+...|..+...|...|+|++|.++.
T Consensus       636 ~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p-~~~~~y~ll~n~ya~~g~~~~a~~vr  714 (857)
T PLN03077        636 GRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDP-NSVGYYILLCNLYADAGKWDEVARVR  714 (857)
T ss_pred             HhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCC-CCcchHHHHHHHHHHCCChHHHHHHH
Confidence            99999999999998885 44888899999988888888888888888876643 26677777888899999999999999


Q ss_pred             HHHHhcccC
Q 012804          447 SKIRMAKIS  455 (456)
Q Consensus       447 ~~~~~~~~~  455 (456)
                      +.|++.++.
T Consensus       715 ~~M~~~g~~  723 (857)
T PLN03077        715 KTMRENGLT  723 (857)
T ss_pred             HHHHHcCCC
Confidence            999887653

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

Probab=100.00  E-value=1.4e-32  Score=274.00  Aligned_cols=434  Identities=12%  Similarity=0.038  Sum_probs=335.9

Q ss_pred             CCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHH
Q 012804            4 KLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSL   83 (456)
Q Consensus         4 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   83 (456)
                      |.++.++..+...+...|++++|.+.|+++.+..+ .+...+..+...+...|++++|.+.++.+.+.+ +.+..++..+
T Consensus       462 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l  539 (899)
T TIGR02917       462 PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEP-DFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILAL  539 (899)
T ss_pred             CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHH
Confidence            45666777777777777777777777777776553 355566667777777777777777777776653 3456667777


Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCh
Q 012804           84 IAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYT  163 (456)
Q Consensus        84 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  163 (456)
                      ...+.+.|+.++|...++++...+. .+...+..++..+...|++++|..+++.+.... +.+...|..+..++...|++
T Consensus       540 ~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  617 (899)
T TIGR02917       540 AGLYLRTGNEEEAVAWLEKAAELNP-QEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDL  617 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCc-cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCH
Confidence            7777777778888877777766543 355666677777888888888888888877654 55677788888888888888


Q ss_pred             HHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHH
Q 012804          164 DNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAM  243 (456)
Q Consensus       164 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  243 (456)
                      ++|...++.+.+.. +.+...+..+...+...|++++|...++++..... .+..++..++..+...|++++|..+++.+
T Consensus       618 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  695 (899)
T TIGR02917       618 NKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELKP-DNTEAQIGLAQLLLAAKRTESAKKIAKSL  695 (899)
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            88888888877653 34566777777888888888888888888776532 35677777788888888888888888888


Q ss_pred             HHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHH
Q 012804          244 KRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKY  323 (456)
Q Consensus       244 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  323 (456)
                      .+.. +.+...+..+...+...|++++|...++.+...+  |+..++..++.++.+.|++++|...++.+.+.. +.+..
T Consensus       696 ~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~  771 (899)
T TIGR02917       696 QKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAV  771 (899)
T ss_pred             HhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH
Confidence            7765 5566777777888888888888888888888764  344667778888888888888888888887763 34677


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHc
Q 012804          324 THTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCK  400 (456)
Q Consensus       324 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~  400 (456)
                      .+..+...|...|++++|..+|+++.+.. +++..++..++..+...|+ .+|+.+++++...   ++..+..++.++..
T Consensus       772 ~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  849 (899)
T TIGR02917       772 LRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVE  849 (899)
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHH
Confidence            88888888888899999999999888764 6677888888888888888 7788888887665   67778888888999


Q ss_pred             cCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHH
Q 012804          401 AKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIR  450 (456)
Q Consensus       401 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  450 (456)
                      .|++++|.+.++++++.++. ++.++..++.++.+.|+.++|.++++++.
T Consensus       850 ~g~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       850 KGEADRALPLLRKAVNIAPE-AAAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             cCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            99999999999999988755 88888899999999999999999999875

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

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

Probab=100.00  E-value=1.5e-31  Score=266.78  Aligned_cols=435  Identities=12%  Similarity=0.053  Sum_probs=320.7

Q ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHH
Q 012804            8 RLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGA   87 (456)
Q Consensus         8 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   87 (456)
                      .....++..+.+.|++++|+.+++.+.+.. +.+..++..+..++...|++++|.+.|+++.+.. +.+...+..+...+
T Consensus       432 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  509 (899)
T TIGR02917       432 RADLLLILSYLRSGQFDKALAAAKKLEKKQ-PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARID  509 (899)
T ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHH
Confidence            334445555556666666666666655543 2355566667777777777777777777766543 23455566666677


Q ss_pred             HcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHH
Q 012804           88 TRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNAL  167 (456)
Q Consensus        88 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  167 (456)
                      ...|++++|.+.++++.+.++ .+..++..+...+.+.|+.++|...++++...+ +.+...+..++..+.+.|++++|.
T Consensus       510 ~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  587 (899)
T TIGR02917       510 IQEGNPDDAIQRFEKVLTIDP-KNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKAL  587 (899)
T ss_pred             HHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHH
Confidence            777777777777777766543 256666777777777777777777777776654 455666677777777778888888


Q ss_pred             HHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcC
Q 012804          168 RMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKG  247 (456)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  247 (456)
                      .+++.+.+. .+.+...|..+..++...|++++|...++.+..... .+...+..+..++...|++++|...++++.+..
T Consensus       588 ~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  665 (899)
T TIGR02917       588 AILNEAADA-APDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQP-DSALALLLLADAYAVMKNYAKAITSLKRALELK  665 (899)
T ss_pred             HHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            887777665 344667777778888888888888888887766432 255667777777888888888888888877664


Q ss_pred             CCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHH
Q 012804          248 YTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTI  327 (456)
Q Consensus       248 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  327 (456)
                       +.+...+..+...+...|++++|..+++.+...+ +.+...+..+...+...|++++|...++.+...+  |+..++..
T Consensus       666 -~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~  741 (899)
T TIGR02917       666 -PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIK  741 (899)
T ss_pred             -CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHH
Confidence             5556777777888888888888888888887764 3466777778888888888888888888887753  44467777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCCh
Q 012804          328 LIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRL  404 (456)
Q Consensus       328 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~  404 (456)
                      ++..+...|++++|...++.+.+.. +.+...+..++..|...|++++|.+.|+++...   ++.++..++..+...|+ 
T Consensus       742 l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-  819 (899)
T TIGR02917       742 LHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-  819 (899)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-
Confidence            8888888888888888888888763 667788888888888899999999999888765   66778888888888888 


Q ss_pred             hHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhcccC
Q 012804          405 PSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKIS  455 (456)
Q Consensus       405 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  455 (456)
                      .+|+..++++.+..+. ++.++..++.++...|++++|..+++++.+.++.
T Consensus       820 ~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~  869 (899)
T TIGR02917       820 PRALEYAEKALKLAPN-IPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE  869 (899)
T ss_pred             HHHHHHHHHHHhhCCC-CcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            7799999988876433 6677788888899999999999999999887653

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

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.97  E-value=1e-24  Score=217.96  Aligned_cols=426  Identities=11%  Similarity=0.009  Sum_probs=335.1

Q ss_pred             HHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCC-CHhHHH-----------
Q 012804           14 VCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISP-DVVTYN-----------   81 (456)
Q Consensus        14 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~-----------   81 (456)
                      ...+...|++++|+..|+++++..+. +...+..+..++.+.|++++|+..|++..+..... ....+.           
T Consensus       276 G~~~~~~g~~~~A~~~l~~aL~~~P~-~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~  354 (1157)
T PRK11447        276 GLAAVDSGQGGKAIPELQQAVRANPK-DSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLL  354 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHH
Confidence            45677889999999999999987653 78889999999999999999999999998764221 111121           


Q ss_pred             -HHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhc
Q 012804           82 -SLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKN  160 (456)
Q Consensus        82 -~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  160 (456)
                       .....+.+.|++++|++.|+++.+... .+...+..+..++...|++++|++.|+++.+.. +.+...+..+...+. .
T Consensus       355 ~~~g~~~~~~g~~~eA~~~~~~Al~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~-~  431 (1157)
T PRK11447        355 IQQGDAALKANNLAQAERLYQQARQVDN-TDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYR-Q  431 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-h
Confidence             224456789999999999999998753 366777888999999999999999999999775 455666777777764 4


Q ss_pred             CChHHHHHHHHHHHhCCCC--------CcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCc
Q 012804          161 RYTDNALRMFRGLQKHGFV--------PELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRK  232 (456)
Q Consensus       161 ~~~~~a~~~~~~~~~~~~~--------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  232 (456)
                      ++.++|+.+++.+......        .....+..+...+...|++++|...|++..+..+. +...+..+...+...|+
T Consensus       432 ~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~  510 (1157)
T PRK11447        432 QSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQ  510 (1157)
T ss_pred             cCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCC
Confidence            6789999888765432100        01223555677888999999999999999886543 66777888999999999


Q ss_pred             hhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCH---------HHHHHHHHHHHhcCCH
Q 012804          233 YKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDI---------VSYNTLINLYCKEGKL  303 (456)
Q Consensus       233 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------~~~~~l~~~~~~~~~~  303 (456)
                      +++|...++++.+.. +.+...+..+...+...++.++|...++.+......++.         ..+..+...+...|+.
T Consensus       511 ~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~  589 (1157)
T PRK11447        511 RSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKE  589 (1157)
T ss_pred             HHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCH
Confidence            999999999998764 445555555556677889999999999876543222221         1233456778899999


Q ss_pred             HHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHh
Q 012804          304 EAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESM  383 (456)
Q Consensus       304 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  383 (456)
                      ++|..+++.     .+.+...+..+...+.+.|++++|+..++.+.+.. +.+...+..++..+...|++++|++.++.+
T Consensus       590 ~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~l  663 (1157)
T PRK11447        590 AEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKL  663 (1157)
T ss_pred             HHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            999999872     23466677888899999999999999999999874 667899999999999999999999999988


Q ss_pred             ccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCC-----CHHhHHHHHHHHHccCChHHHHHHHHHHHh
Q 012804          384 EVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRI-----LKSAQKAVVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       384 ~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      ...   +...+..+..++...|++++|.+++++++......     +...+..++..+...|++++|...|++...
T Consensus       664 l~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        664 PATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             hccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            765   56677888999999999999999999998764322     224666778899999999999999998864

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.96  E-value=9.4e-24  Score=211.10  Aligned_cols=343  Identities=9%  Similarity=0.010  Sum_probs=243.5

Q ss_pred             CCCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhH----------------HHHHHHHHccCChhHHHHHH
Q 012804            2 FGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTY----------------NMLIDAYCQFVSFDAGYTIL   65 (456)
Q Consensus         2 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~----------------~~l~~~~~~~~~~~~a~~~~   65 (456)
                      +.|.|+..+..++..+.+.|+.++|.+.++++.+..+. +....                ......+...|++++|.+.|
T Consensus        57 ~~p~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~-~~~~~~~~~~~~~~~~~~~~~l~~A~ll~~~g~~~eA~~~~  135 (1157)
T PRK11447         57 IDPNNPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPD-SNAYRSSRTTMLLSTPEGRQALQQARLLATTGRTEEALASY  135 (1157)
T ss_pred             cCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHhcCCchhhHHHHHHHHHhCCCHHHHHHHH
Confidence            46778899999999999999999999999999987643 33322                23344678889999999999


Q ss_pred             HHHHhCCCCCCHh-HHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCC-
Q 012804           66 NRMREAGISPDVV-TYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDL-  143 (456)
Q Consensus        66 ~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-  143 (456)
                      +.+.+.+ +|+.. ............|+.++|++.++++.+..+. +...+..+...+...|+.++|++.++++..... 
T Consensus       136 ~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~-~~~~~~~LA~ll~~~g~~~eAl~~l~~~~~~~~~  213 (1157)
T PRK11447        136 DKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPG-NTGLRNTLALLLFSSGRRDEGFAVLEQMAKSPAG  213 (1157)
T ss_pred             HHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHhhCCCc
Confidence            9988753 33332 1111222233468899999999999887533 667777888888899999999999888754310 


Q ss_pred             ---------------C----------------CChhHH---------------------HHHHHHHHhcCChHHHHHHHH
Q 012804          144 ---------------T----------------PCTATF---------------------NIMLNGLCKNRYTDNALRMFR  171 (456)
Q Consensus       144 ---------------~----------------~~~~~~---------------------~~l~~~~~~~~~~~~a~~~~~  171 (456)
                                     .                |+....                     ......+...|++++|+..|+
T Consensus       214 ~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~G~~~~~~g~~~~A~~~l~  293 (1157)
T PRK11447        214 RDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQGLAAVDSGQGGKAIPELQ  293 (1157)
T ss_pred             hHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHCCCHHHHHHHHH
Confidence                           0                000000                     011344567789999999999


Q ss_pred             HHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCC-HHHH------------HHHHHHHHhcCchhHHHH
Q 012804          172 GLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPN-AITY------------TTIMKCCFRNRKYKLGLE  238 (456)
Q Consensus       172 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~------------~~l~~~~~~~~~~~~a~~  238 (456)
                      +..+.. +.+...+..+..++.+.|++++|...|++..+...... ...+            ......+...|++++|..
T Consensus       294 ~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~  372 (1157)
T PRK11447        294 QAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAER  372 (1157)
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHH
Confidence            988763 34677888888999999999999999998877543221 1111            122345678889999999


Q ss_pred             HHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHH--------------------------
Q 012804          239 ILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNT--------------------------  292 (456)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--------------------------  292 (456)
                      .++++.+.. +.+...+..+..++...|++++|++.|+++++.... +...+..                          
T Consensus       373 ~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~~a~~~L~~l~~~~~~~~A~~~l~~l~~~~~~  450 (1157)
T PRK11447        373 LYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NTNAVRGLANLYRQQSPEKALAFIASLSASQRR  450 (1157)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHHH
Confidence            999988875 556667777888888899999999999888875322 2222222                          


Q ss_pred             ----------------HHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 012804          293 ----------------LINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKI  351 (456)
Q Consensus       293 ----------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  351 (456)
                                      +...+...|++++|...+++..+.... +...+..+...+...|++++|...++++.+.
T Consensus       451 ~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~  524 (1157)
T PRK11447        451 SIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRSQADALMRRLAQQ  524 (1157)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence                            233445678888888888888876422 5667777888888889999999888887764

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

Probab=99.96  E-value=1.4e-24  Score=185.96  Aligned_cols=386  Identities=15%  Similarity=0.112  Sum_probs=301.5

Q ss_pred             HHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHh-HHHHHH
Q 012804           42 VVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWS-YNSLMH  120 (456)
Q Consensus        42 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~  120 (456)
                      ..+|..+.+++-..|+++.|+.+++.+.+.. +..+..|..+..++...|+.+.|.+.|.+.++.+  |+... ...+..
T Consensus       116 ae~ysn~aN~~kerg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~lgn  192 (966)
T KOG4626|consen  116 AEAYSNLANILKERGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSDLGN  192 (966)
T ss_pred             HHHHHHHHHHHHHhchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcchhH
Confidence            3467778888888888999999988888763 2357788888888888899999988888888753  44333 334555


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCc-HHHHHHHHHHHHHcCCHH
Q 012804          121 CLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPE-LVTYNILIKGLCKAGRLR  199 (456)
Q Consensus       121 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~  199 (456)
                      .+...|+.++|...|.+.++.. +--...|+.|...+-..|+...|+..|++..+.  .|+ ...|-.|...|...+.++
T Consensus       193 Llka~Grl~ea~~cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d  269 (966)
T KOG4626|consen  193 LLKAEGRLEEAKACYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFD  269 (966)
T ss_pred             HHHhhcccchhHHHHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcch
Confidence            5666788888888888888764 344677888888888899999999999988875  343 567888888898999999


Q ss_pred             HHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHH
Q 012804          200 TARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMV  279 (456)
Q Consensus       200 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  279 (456)
                      +|...|.+.....+ .....+..+...|...|+.+.|+..+++.++.. |--+..|+.+..++-..|++.+|.+.+.+.+
T Consensus       270 ~Avs~Y~rAl~lrp-n~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL  347 (966)
T KOG4626|consen  270 RAVSCYLRALNLRP-NHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKAL  347 (966)
T ss_pred             HHHHHHHHHHhcCC-cchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHH
Confidence            99998888776432 256677778888888999999999999998875 4456788999999999999999999999988


Q ss_pred             HCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-H
Q 012804          280 TDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECD-KYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSN-L  357 (456)
Q Consensus       280 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~  357 (456)
                      ..... .....+.|...|...|.+++|..+|....+-  .|. ...++.|...|-..|++++|+..++++++.  .|+ .
T Consensus       348 ~l~p~-hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI--~P~fA  422 (966)
T KOG4626|consen  348 RLCPN-HADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRI--KPTFA  422 (966)
T ss_pred             HhCCc-cHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhc--CchHH
Confidence            87433 5677888999999999999999999888774  333 456888888899999999999999998874  555 6


Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHhccCC---hhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHH
Q 012804          358 EAYNCIVDRLGKDGKIDHAINVFESMEVKD---SFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLR  434 (456)
Q Consensus       358 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  434 (456)
                      ..++.+...|...|+.+.|++.+.+++..+   .+.++.|...|...|+..+|+..++++++..+. -+..+..++.++.
T Consensus       423 da~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPD-fpdA~cNllh~lq  501 (966)
T KOG4626|consen  423 DALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPD-FPDAYCNLLHCLQ  501 (966)
T ss_pred             HHHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCC-CchhhhHHHHHHH
Confidence            788888899999999999999999888774   457788899999999999999999999866332 2345555555544


Q ss_pred             ccCChHH
Q 012804          435 HSGCRRE  441 (456)
Q Consensus       435 ~~g~~~~  441 (456)
                      -..+|.+
T Consensus       502 ~vcdw~D  508 (966)
T KOG4626|consen  502 IVCDWTD  508 (966)
T ss_pred             HHhcccc
Confidence            3333333

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

Probab=99.95  E-value=2.2e-24  Score=184.91  Aligned_cols=434  Identities=13%  Similarity=0.010  Sum_probs=353.1

Q ss_pred             HHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHH
Q 012804            9 LLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGAT   88 (456)
Q Consensus         9 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   88 (456)
                      .-..|.....+.|++++|++--...-+.++. +....-.+-..+.+..+.+....--....+.. +.-..+|..+...+.
T Consensus        50 ~~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   50 DRLELAHRLYQGGDYKQAEKHCNMVGQEDPT-NTERLLLLSAIFFQGSRLDKSSAGSLLAIRKN-PQGAEAYSNLANILK  127 (966)
T ss_pred             hHHHHHHHHHhccCHHHHHHHHhHhhccCCC-cccceeeehhhhhcccchhhhhhhhhhhhhcc-chHHHHHHHHHHHHH
Confidence            3456677788899999999977766555533 44444445566777777777665555444442 345778999999999


Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCh-hHHHHHHHHHHhcCChHHHH
Q 012804           89 RNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCT-ATFNIMLNGLCKNRYTDNAL  167 (456)
Q Consensus        89 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~  167 (456)
                      ..|+++.|+.+++.+++...+ ....|..+..++...|+.+.|.+.|.+.++.+  |+. ...+.+...+-..|++.+|.
T Consensus       128 erg~~~~al~~y~~aiel~p~-fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~lgnLlka~Grl~ea~  204 (966)
T KOG4626|consen  128 ERGQLQDALALYRAAIELKPK-FIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSDLGNLLKAEGRLEEAK  204 (966)
T ss_pred             HhchHHHHHHHHHHHHhcCch-hhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcchhHHHHhhcccchhH
Confidence            999999999999999987544 78889999999999999999999999998764  433 33444556666789999999


Q ss_pred             HHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcC
Q 012804          168 RMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKG  247 (456)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  247 (456)
                      ..+.+..+.. +--...|+.|...+..+|+...|+..|++..+..+. -...|..|...|...+.++.|...+.+.....
T Consensus       205 ~cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~-f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr  282 (966)
T KOG4626|consen  205 ACYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPN-FLDAYINLGNVYKEARIFDRAVSCYLRALNLR  282 (966)
T ss_pred             HHHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCc-chHHHhhHHHHHHHHhcchHHHHHHHHHHhcC
Confidence            9998887762 224567888999999999999999999998875332 35678889999999999999999999998775


Q ss_pred             CCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHH
Q 012804          248 YTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTI  327 (456)
Q Consensus       248 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  327 (456)
                       +-....+..+...|...|.++.|++.+++.++..+. =+..|+.+..++...|+..+|...+........ ......+.
T Consensus       283 -pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p-~hadam~N  359 (966)
T KOG4626|consen  283 -PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALRLCP-NHADAMNN  359 (966)
T ss_pred             -CcchhhccceEEEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHHhCC-ccHHHHHH
Confidence             556777888888899999999999999999987433 467899999999999999999999999988643 35678899


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCCh
Q 012804          328 LIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRL  404 (456)
Q Consensus       328 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~  404 (456)
                      |...+...|.++.|..+|....+.. +--....+.|...|-..|++++|+..++++...   -..+++.++..|...|+.
T Consensus       360 Lgni~~E~~~~e~A~~ly~~al~v~-p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v  438 (966)
T KOG4626|consen  360 LGNIYREQGKIEEATRLYLKALEVF-PEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDV  438 (966)
T ss_pred             HHHHHHHhccchHHHHHHHHHHhhC-hhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhH
Confidence            9999999999999999999998752 333677889999999999999999999998876   456788999999999999


Q ss_pred             hHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhccc
Q 012804          405 PSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKI  454 (456)
Q Consensus       405 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  454 (456)
                      +.|++.+.+++..++. -...+..++..|..+|+..+|+.-++...+.++
T Consensus       439 ~~A~q~y~rAI~~nPt-~AeAhsNLasi~kDsGni~~AI~sY~~aLklkP  487 (966)
T KOG4626|consen  439 SAAIQCYTRAIQINPT-FAEAHSNLASIYKDSGNIPEAIQSYRTALKLKP  487 (966)
T ss_pred             HHHHHHHHHHHhcCcH-HHHHHhhHHHHhhccCCcHHHHHHHHHHHccCC
Confidence            9999999999866432 457788899999999999999999998877654

>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=99.95  E-value=2.6e-22  Score=188.83  Aligned_cols=426  Identities=14%  Similarity=-0.001  Sum_probs=227.0

Q ss_pred             HHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHH
Q 012804            9 LLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGAT   88 (456)
Q Consensus         9 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   88 (456)
                      .+......+.+.|++++|+..|+++++..  |+...|..+..+|.+.|++++|++.++...+.+ +.+...+..+..++.
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~~--p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~  205 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIECK--PDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHH
Confidence            35567788899999999999999988754  567788888999999999999999999988864 335678888899999


Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHH
Q 012804           89 RNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALR  168 (456)
Q Consensus        89 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  168 (456)
                      ..|++++|+..+..+...+...+.. ...++..+..    ..+........... +++...+..+...+ ..........
T Consensus       206 ~lg~~~eA~~~~~~~~~~~~~~~~~-~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~~~-~~~~~~~~~~  278 (615)
T TIGR00990       206 GLGKYADALLDLTASCIIDGFRNEQ-SAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGNYL-QSFRPKPRPA  278 (615)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCccHH-HHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHHHH-HHccCCcchh
Confidence            9999999998887665543221221 1112221111    12222222222221 22222222221111 1111111111


Q ss_pred             HHHHHHhCCCCCc-HHHHHHHHHH---HHHcCCHHHHHHHHHHHhhCC-CCC-CHHHHHHHHHHHHhcCchhHHHHHHHH
Q 012804          169 MFRGLQKHGFVPE-LVTYNILIKG---LCKAGRLRTARWILKELGDSG-HAP-NAITYTTIMKCCFRNRKYKLGLEILSA  242 (456)
Q Consensus       169 ~~~~~~~~~~~~~-~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~  242 (456)
                      -+....+.  .+. ...+..+...   ....+++++|...|+.....+ ..| ....+..+...+...|++++|...++.
T Consensus       279 ~~~~~~~~--~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~k  356 (615)
T TIGR00990       279 GLEDSNEL--DEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSK  356 (615)
T ss_pred             hhhccccc--ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            11111110  000 0000111000   012345566666666555432 111 233445555555556666666666666


Q ss_pred             HHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCH
Q 012804          243 MKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDK  322 (456)
Q Consensus       243 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  322 (456)
                      ..+.. +.....+..+..++...|++++|...++++++.+. .+...+..+...+...|++++|...|++..+... .+.
T Consensus       357 al~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P-~~~  433 (615)
T TIGR00990       357 SIELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNS-EDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDP-DFI  433 (615)
T ss_pred             HHHcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCc-cCH
Confidence            65543 33344555555556666666666666666655432 2455555566666666666666666666655421 234


Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCChh---h-------HH
Q 012804          323 YTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSF---T-------YS  392 (456)
Q Consensus       323 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~-------~~  392 (456)
                      ..+..+...+.+.|++++|+..++...+. .+.+...+..+...+...|++++|++.|+++...++.   .       +.
T Consensus       434 ~~~~~la~~~~~~g~~~eA~~~~~~al~~-~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~  512 (615)
T TIGR00990       434 FSHIQLGVTQYKEGSIASSMATFRRCKKN-FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLIN  512 (615)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHH
Confidence            44555555566666666666666665554 2344555566666666666666666666655443110   0       11


Q ss_pred             HHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHh
Q 012804          393 SMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       393 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      ..+..+...|++++|.++++++++.++. +...+..++.++...|++++|.++|++..+
T Consensus       513 ~a~~~~~~~~~~~eA~~~~~kAl~l~p~-~~~a~~~la~~~~~~g~~~eAi~~~e~A~~  570 (615)
T TIGR00990       513 KALALFQWKQDFIEAENLCEKALIIDPE-CDIAVATMAQLLLQQGDVDEALKLFERAAE  570 (615)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            1111222346666666666666554322 334555566666666666666666665543

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.94  E-value=1e-20  Score=181.39  Aligned_cols=216  Identities=11%  Similarity=-0.026  Sum_probs=157.0

Q ss_pred             CchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHH
Q 012804          231 RKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLL  310 (456)
Q Consensus       231 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  310 (456)
                      +++++|...+.+.....  |+......+...+...|++++|...++++...  +|+...+..+..++.+.|++++|...+
T Consensus       490 ~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l  565 (987)
T PRK09782        490 TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWL  565 (987)
T ss_pred             CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHH
Confidence            34444555555444442  33322223334445778888888888776554  333444556667777888888888888


Q ss_pred             HHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---C
Q 012804          311 DEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---D  387 (456)
Q Consensus       311 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~  387 (456)
                      +...+.. +.....+..+.......|++++|...+++..+.  .|+...+..+..++.+.|++++|+..++++...   +
T Consensus       566 ~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~  642 (987)
T PRK09782        566 QQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALELEPNN  642 (987)
T ss_pred             HHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            8887753 223333333444445668999999999988875  456888888889999999999999999988776   6


Q ss_pred             hhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhccc
Q 012804          388 SFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKI  454 (456)
Q Consensus       388 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  454 (456)
                      +..+..+..++...|++++|++.++++++..+. ++..+..++.++...|++++|+..+++..+..+
T Consensus       643 ~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~-~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P  708 (987)
T PRK09782        643 SNYQAALGYALWDSGDIAQSREMLERAHKGLPD-DPALIRQLAYVNQRLDDMAATQHYARLVIDDID  708 (987)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            778888888999999999999999999887543 778888999999999999999999999877654

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.94  E-value=8.8e-23  Score=182.78  Aligned_cols=297  Identities=15%  Similarity=0.137  Sum_probs=167.7

Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCc---HHHHHHHHHHHHHcCCHH
Q 012804          123 FQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPE---LVTYNILIKGLCKAGRLR  199 (456)
Q Consensus       123 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~  199 (456)
                      ...|++++|...|+++.+.+ +.+..++..+...+...|++++|..+++.+...+..++   ...+..+...|...|+++
T Consensus        46 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~  124 (389)
T PRK11788         46 LLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLD  124 (389)
T ss_pred             HhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHH
Confidence            34444444444444444432 22333444444444444444444444444443311111   123444445555555555


Q ss_pred             HHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcC----hhhHHHHHHHHHHcCChHHHHHHH
Q 012804          200 TARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFD----GFGYCTVIAAFVKIGRLKEATDYM  275 (456)
Q Consensus       200 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~  275 (456)
                      +|..+|+++.+.. +.+..++..++..+...|++++|.+.++.+.+.+..+.    ...+..+...+...|++++|...+
T Consensus       125 ~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  203 (389)
T PRK11788        125 RAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALL  203 (389)
T ss_pred             HHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            5555555554431 12344445555555555555555555555544321111    112334555566677777777777


Q ss_pred             HHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 012804          276 EQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDS  355 (456)
Q Consensus       276 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  355 (456)
                      +++.+... .+...+..+...+.+.|++++|.+.++++...+......++..++.+|...|++++|...++.+.+.  .|
T Consensus       204 ~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p  280 (389)
T PRK11788        204 KKALAADP-QCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YP  280 (389)
T ss_pred             HHHHhHCc-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CC
Confidence            77766432 2455666667777777777777777777766432222345666777777777777777777777665  34


Q ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHhccC--ChhhHHHHHHHHHc---cCChhHHHHHHHHHHHcCCCCCHH
Q 012804          356 NLEAYNCIVDRLGKDGKIDHAINVFESMEVK--DSFTYSSMVHNLCK---AKRLPSASKLLLSCLKSGVRILKS  424 (456)
Q Consensus       356 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~l~~~~~~---~~~~~~A~~~~~~~~~~~~~~~~~  424 (456)
                      +...+..++..+.+.|++++|.++++++...  +...+..++..+..   .|+.++++.+++++++.+++|++.
T Consensus       281 ~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        281 GADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             CchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            5555567777777777777777777776654  44455555555543   457888888888888776666665

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.93  E-value=6.3e-21  Score=182.61  Aligned_cols=405  Identities=11%  Similarity=0.027  Sum_probs=230.9

Q ss_pred             CCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHH
Q 012804            4 KLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSL   83 (456)
Q Consensus         4 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   83 (456)
                      +.++....-.+......|+.++|+++|....... +.+...+..+..++...|++++|.++|++..+.. +.+...+..+
T Consensus        12 ~~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   89 (765)
T PRK10049         12 ALSNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGL   89 (765)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            3445555556666777788888888887776533 2345567777777778888888888888777652 3345566677


Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCh
Q 012804           84 IAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYT  163 (456)
Q Consensus        84 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  163 (456)
                      ...+...|++++|...++++.+..+ .+.. +..+..++...|+.++|+..++++.... +.+...+..+...+...+..
T Consensus        90 a~~l~~~g~~~eA~~~l~~~l~~~P-~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~  166 (765)
T PRK10049         90 ILTLADAGQYDEALVKAKQLVSGAP-DKAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLS  166 (765)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCC-CCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCh
Confidence            7777778888888888887777532 2444 6677777777888888888888877764 44555566666777777777


Q ss_pred             HHHHHHHHHHHhCCCCCcH------HHHHHHHHHHHH-----cCCH---HHHHHHHHHHhhC-CCCCCHH-HHHHH----
Q 012804          164 DNALRMFRGLQKHGFVPEL------VTYNILIKGLCK-----AGRL---RTARWILKELGDS-GHAPNAI-TYTTI----  223 (456)
Q Consensus       164 ~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~-----~~~~---~~a~~~~~~~~~~-~~~~~~~-~~~~l----  223 (456)
                      ++|+..++....   .|+.      .....++.....     .+++   ++|+..++.+.+. ...|+.. .+...    
T Consensus       167 e~Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~  243 (765)
T PRK10049        167 APALGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDR  243 (765)
T ss_pred             HHHHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHH
Confidence            777777766553   1221      011112222211     1122   4555555555542 1222221 11111    


Q ss_pred             HHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCcc---CHHHHHHHHHHHHhc
Q 012804          224 MKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQL---DIVSYNTLINLYCKE  300 (456)
Q Consensus       224 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~  300 (456)
                      +..+...+++++|+..|+.+.+.+.+........+..++...|++++|...|+.+.......   .......+..++...
T Consensus       244 l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~  323 (765)
T PRK10049        244 LGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLES  323 (765)
T ss_pred             HHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhc
Confidence            22334556666666666666655311011112223455666666666666666665432111   123344445555666


Q ss_pred             CCHHHHHHHHHHHHHcCC-----------CcC---HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 012804          301 GKLEAAYLLLDEMEKQGF-----------ECD---KYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDR  366 (456)
Q Consensus       301 ~~~~~a~~~~~~~~~~~~-----------~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  366 (456)
                      |++++|...++.+.....           .|+   ...+..+...+...|++++|+..++++.... |.+...+..++..
T Consensus       324 g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l  402 (765)
T PRK10049        324 ENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASV  402 (765)
T ss_pred             ccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            666666666666655321           111   1233344555556666666666666665542 4455566666666


Q ss_pred             HHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          367 LGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       367 ~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      +...|++++|++.++++...   +...+...+..+...|++++|+.+++++++.
T Consensus       403 ~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~  456 (765)
T PRK10049        403 LQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAR  456 (765)
T ss_pred             HHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            66666666666666665554   3444555555566666666666666666654

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.93  E-value=5.8e-21  Score=178.96  Aligned_cols=361  Identities=12%  Similarity=0.035  Sum_probs=258.2

Q ss_pred             HHhhCcHHHHHHHHHHHHhcC--CCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChh
Q 012804           17 FCKANRLEKAEAIIIDGIRLG--VLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLS   94 (456)
Q Consensus        17 ~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   94 (456)
                      +.++.+++.---+|....+..  -..+..-...++..+.+.|++++|..+++...... +-+...+..++.+....|+++
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~-p~~~~~l~~l~~~~l~~g~~~   93 (656)
T PRK15174         15 LLKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTA-KNGRDLLRRWVISPLASSQPD   93 (656)
T ss_pred             hhhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhC-CCchhHHHHHhhhHhhcCCHH
Confidence            455666665555554433211  01122334556677778888888888888887764 234455556666777788888


Q ss_pred             HHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 012804           95 CSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQ  174 (456)
Q Consensus        95 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  174 (456)
                      .|.+.++++....+. +...+..+...+...|++++|...++++.... +.+...+..+...+...|++++|...++.+.
T Consensus        94 ~A~~~l~~~l~~~P~-~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~  171 (656)
T PRK15174         94 AVLQVVNKLLAVNVC-QPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQA  171 (656)
T ss_pred             HHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHH
Confidence            888888888876433 56677778888888888888888888888764 5566777888888888888888888888776


Q ss_pred             hCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhh
Q 012804          175 KHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFG  254 (456)
Q Consensus       175 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  254 (456)
                      .... .+...+..+ ..+...|++++|...++.+......++......+..++...|++++|...++.+.+.. +.+...
T Consensus       172 ~~~P-~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~  248 (656)
T PRK15174        172 QEVP-PRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAAL  248 (656)
T ss_pred             HhCC-CCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHH
Confidence            6532 233333333 3467788888888888887765433444445555677788888888888888888775 556677


Q ss_pred             HHHHHHHHHHcCChHH----HHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHH
Q 012804          255 YCTVIAAFVKIGRLKE----ATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILID  330 (456)
Q Consensus       255 ~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  330 (456)
                      +..+...+...|++++    |...++++....+. +...+..+...+...|++++|...+++...... .+...+..+..
T Consensus       249 ~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P-~~~~a~~~La~  326 (656)
T PRK15174        249 RRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSD-NVRIVTLYADALIRTGQNEKAIPLLQQSLATHP-DLPYVRAMYAR  326 (656)
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            7778888888888875    78888888876433 677788888888888888888888888887632 24556777788


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC
Q 012804          331 GLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK  386 (456)
Q Consensus       331 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  386 (456)
                      .+...|++++|...++.+...+ +.+...+..+..++...|+.++|.+.|+++...
T Consensus       327 ~l~~~G~~~eA~~~l~~al~~~-P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        327 ALRQVGQYTAASDEFVQLAREK-GVTSKWNRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            8888888888888888887753 223334444566788888888888888887665

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.93  E-value=1.4e-20  Score=180.30  Aligned_cols=417  Identities=12%  Similarity=0.006  Sum_probs=317.7

Q ss_pred             HHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHC
Q 012804           27 EAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEM  106 (456)
Q Consensus        27 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  106 (456)
                      +..++. .+.+ ..+.....-.+.+....|+.++|++++....... +.+...+..+...+...|++++|.+++++..+.
T Consensus         2 ~~~~~~-~~~~-~~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~   78 (765)
T PRK10049          2 LSWLRQ-ALKS-ALSNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSL   78 (765)
T ss_pred             chhhhh-hhcc-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            345555 3333 3466666777888888999999999999998632 445667899999999999999999999999886


Q ss_pred             CCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHH
Q 012804          107 GIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYN  186 (456)
Q Consensus       107 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  186 (456)
                      . +.+...+..+..++...|++++|...++++.... +.+.. +..+..++...|+.++|+..++++.+.. +.+...+.
T Consensus        79 ~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~  154 (765)
T PRK10049         79 E-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPT  154 (765)
T ss_pred             C-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence            4 3356777888899999999999999999999875 55666 8888999999999999999999999873 33666667


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHhhCCCCCCH------HHHHHHHHHHH-----hcCch---hHHHHHHHHHHHc-CCCcC
Q 012804          187 ILIKGLCKAGRLRTARWILKELGDSGHAPNA------ITYTTIMKCCF-----RNRKY---KLGLEILSAMKRK-GYTFD  251 (456)
Q Consensus       187 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~-----~~~~~---~~a~~~~~~~~~~-~~~~~  251 (456)
                      .+..++...+..+.|+..++.+..   .|+.      ......+....     ..+++   ++|+..++.+.+. ...|+
T Consensus       155 ~la~~l~~~~~~e~Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~  231 (765)
T PRK10049        155 EYVQALRNNRLSAPALGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPD  231 (765)
T ss_pred             HHHHHHHHCCChHHHHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCc
Confidence            788888899999999999987664   1211      12222233222     12234   7788888888865 11222


Q ss_pred             hh-hHH----HHHHHHHHcCChHHHHHHHHHHHHCCCc-cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc---CH
Q 012804          252 GF-GYC----TVIAAFVKIGRLKEATDYMEQMVTDGVQ-LDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFEC---DK  322 (456)
Q Consensus       252 ~~-~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~  322 (456)
                      .. .+.    ..+..+...|++++|+..|+.+.+.+.+ |+. ....+...|...|++++|...|+++.......   ..
T Consensus       232 ~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~  310 (765)
T PRK10049        232 ATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSD  310 (765)
T ss_pred             cchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCCh
Confidence            21 111    1133456779999999999999987532 332 22235778999999999999999987653221   13


Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-----------CCC---HHHHHHHHHHHHhCCCHHHHHHHHHHhccC--
Q 012804          323 YTHTILIDGLCKAGNIKGARLHLEYMNKIGF-----------DSN---LEAYNCIVDRLGKDGKIDHAINVFESMEVK--  386 (456)
Q Consensus       323 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--  386 (456)
                      .....+..++...|++++|..+++.+.....           .|+   ...+..+...+...|+.++|+++++++...  
T Consensus       311 ~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P  390 (765)
T PRK10049        311 EELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAP  390 (765)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            4567777788999999999999999887521           123   235567788899999999999999998776  


Q ss_pred             -ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhcccC
Q 012804          387 -DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKIS  455 (456)
Q Consensus       387 -~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  455 (456)
                       ++..+..++..+...|++++|++.++++++..+ .+...+...+..+...|++++|...++++.+..+.
T Consensus       391 ~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~P-d~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd  459 (765)
T PRK10049        391 GNQGLRIDYASVLQARGWPRAAENELKKAEVLEP-RNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQ  459 (765)
T ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCC-CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC
Confidence             778899999999999999999999999997753 25677778888999999999999999999887654

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.93  E-value=1.9e-22  Score=180.68  Aligned_cols=303  Identities=14%  Similarity=0.091  Sum_probs=226.0

Q ss_pred             HHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCC---HHhHHHHHHHHHhc
Q 012804           49 IDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPD---VWSYNSLMHCLFQL  125 (456)
Q Consensus        49 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~  125 (456)
                      ...+...|++++|...|.++.+.+ +.+..++..+...+...|++++|.++++.+......++   ..++..+...|.+.
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~  120 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKA  120 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHC
Confidence            344566788888888888888764 33556777888888888888888888888877532211   24567778888888


Q ss_pred             CChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCc----HHHHHHHHHHHHHcCCHHHH
Q 012804          126 GKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPE----LVTYNILIKGLCKAGRLRTA  201 (456)
Q Consensus       126 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a  201 (456)
                      |++++|..+|+++.+.. +++..++..++..+.+.|++++|.+.++.+.+.+..+.    ...+..+...+...|++++|
T Consensus       121 g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  199 (389)
T PRK11788        121 GLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAA  199 (389)
T ss_pred             CCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHH
Confidence            88888888888887654 55677788888888888888888888888877643322    12345667778888888888


Q ss_pred             HHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 012804          202 RWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTD  281 (456)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  281 (456)
                      ...++++.+... .+...+..+...+...|++++|.+.++++.+.+......++..++.+|...|++++|...++.+.+.
T Consensus       200 ~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  278 (389)
T PRK11788        200 RALLKKALAADP-QCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE  278 (389)
T ss_pred             HHHHHHHHhHCc-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            888888876532 2455677777888888888888888888887642223456777888888889999999988888876


Q ss_pred             CCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHh---cCCHHHHHHHHHHHHhCCCCCCHH
Q 012804          282 GVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCK---AGNIKGARLHLEYMNKIGFDSNLE  358 (456)
Q Consensus       282 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~  358 (456)
                      .  |+...+..++..+.+.|++++|..+++++.+.  .|+..++..++..+..   .|+.+++..+++.+.+.++.|++.
T Consensus       279 ~--p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        279 Y--PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             C--CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            3  45556678888888899999999999888775  5777778777766654   457888888888888766655554

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

Probab=99.93  E-value=2.6e-21  Score=174.36  Aligned_cols=445  Identities=14%  Similarity=0.058  Sum_probs=340.0

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCC--CHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCC--Hh
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLP--DVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPD--VV   78 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~   78 (456)
                      .+.+|.+.+.|.+.|.-.|+++.+..+...+......-  -...|..+.+++-..|++++|...|.+..+..  ++  +.
T Consensus       266 n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~--~d~~~l  343 (1018)
T KOG2002|consen  266 NNENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKAD--NDNFVL  343 (1018)
T ss_pred             cCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccC--CCCccc
Confidence            46688899999999999999999999999888764221  23357888999999999999999998887753  33  34


Q ss_pred             HHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcC----ChhHHHHHHHHHHhCCCCCChhHHHHHH
Q 012804           79 TYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLG----KPDEANRVFQDMICGDLTPCTATFNIML  154 (456)
Q Consensus        79 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~  154 (456)
                      .+..+.+.+.+.|+++.+...|+...... +.+..+...|...|...+    ..+.|..++.+..... +.|...|-.+.
T Consensus       344 ~~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~la  421 (1018)
T KOG2002|consen  344 PLVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELA  421 (1018)
T ss_pred             cccchhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHH
Confidence            45567888999999999999999988864 335666666777777664    4567777777766554 66778888777


Q ss_pred             HHHHhcCChHHHHHHHHHHH----hCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC---CCCCCH------HHHH
Q 012804          155 NGLCKNRYTDNALRMFRGLQ----KHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDS---GHAPNA------ITYT  221 (456)
Q Consensus       155 ~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~------~~~~  221 (456)
                      ..+.....+.. +.+|....    ..+-.+.+...|.+...+...|++..|...|......   ...++.      .+-.
T Consensus       422 ql~e~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~Y  500 (1018)
T KOG2002|consen  422 QLLEQTDPWAS-LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKY  500 (1018)
T ss_pred             HHHHhcChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHH
Confidence            77766554443 66665443    4455577888999999999999999999999887654   112222      2333


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcC
Q 012804          222 TIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEG  301 (456)
Q Consensus       222 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  301 (456)
                      .+..+.-..++.+.|.+.|..+.+.. |--...|..++......++..+|...+......+ ..++..+..+...+....
T Consensus       501 Nlarl~E~l~~~~~A~e~Yk~Ilkeh-p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~  578 (1018)
T KOG2002|consen  501 NLARLLEELHDTEVAEEMYKSILKEH-PGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKS  578 (1018)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHHHC-chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhh
Confidence            45666677789999999999999874 3233344444444445578889999999988763 336777777888899888


Q ss_pred             CHHHHHHHHHHHHHc-CCCcCHHhHHHHHHHHHh------------cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 012804          302 KLEAAYLLLDEMEKQ-GFECDKYTHTILIDGLCK------------AGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLG  368 (456)
Q Consensus       302 ~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  368 (456)
                      .+..|.+-|..+.+. ...+|..+...|...|..            .+..++|+++|.++++.. |.|...-+.++-+++
T Consensus       579 ~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA  657 (1018)
T KOG2002|consen  579 EWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLA  657 (1018)
T ss_pred             hhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhh
Confidence            888888877776543 223577777777776542            245678999999998874 778888899999999


Q ss_pred             hCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHc-CCCCCHHhHHHHHHHHHccCChHHHHH
Q 012804          369 KDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS-GVRILKSAQKAVVDGLRHSGCRREAKK  444 (456)
Q Consensus       369 ~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~  444 (456)
                      ..|++.+|..+|.++.+.   ...+|..++.+|...|++..|++.|+.+.+. ....++..+..|+.++.+.|.+.+|.+
T Consensus       658 ~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~  737 (1018)
T KOG2002|consen  658 EKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKE  737 (1018)
T ss_pred             hccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHH
Confidence            999999999999999877   5689999999999999999999999999877 555678889999999999999999999


Q ss_pred             HHHHHHhcccC
Q 012804          445 IQSKIRMAKIS  455 (456)
Q Consensus       445 ~~~~~~~~~~~  455 (456)
                      .+.+.....++
T Consensus       738 ~ll~a~~~~p~  748 (1018)
T KOG2002|consen  738 ALLKARHLAPS  748 (1018)
T ss_pred             HHHHHHHhCCc
Confidence            99888776654

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.93  E-value=2.4e-21  Score=181.59  Aligned_cols=361  Identities=11%  Similarity=0.034  Sum_probs=285.6

Q ss_pred             HHccCChhHHHHHHHHHHhC--CCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChh
Q 012804           52 YCQFVSFDAGYTILNRMREA--GISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPD  129 (456)
Q Consensus        52 ~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  129 (456)
                      +.++.+|+..--.|....+.  ....+......++..+.+.|++++|..+++........ +...+..++.+....|+++
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~   93 (656)
T PRK15174         15 LLKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPD   93 (656)
T ss_pred             hhhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHH
Confidence            44566776655555544332  11123334556677888999999999999999887554 4556666777888899999


Q ss_pred             HHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Q 012804          130 EANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELG  209 (456)
Q Consensus       130 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  209 (456)
                      +|.+.++++.... |.+...+..+...+...|++++|...+++.... .+.+...+..+...+...|++++|...++.+.
T Consensus        94 ~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l-~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~  171 (656)
T PRK15174         94 AVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLA-FSGNSQIFALHLRTLVLMDKELQAISLARTQA  171 (656)
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHCCChHHHHHHHHHHH
Confidence            9999999999876 667788888999999999999999999999886 34467788889999999999999999999887


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHH
Q 012804          210 DSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVS  289 (456)
Q Consensus       210 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  289 (456)
                      ..... +...+..+ ..+...|++++|...++.+.+....++......+..++...|++++|...++++...+.. +...
T Consensus       172 ~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~-~~~~  248 (656)
T PRK15174        172 QEVPP-RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLD-GAAL  248 (656)
T ss_pred             HhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHH
Confidence            65443 33333333 347888999999999999887753344445555677888999999999999999987543 6788


Q ss_pred             HHHHHHHHHhcCCHHH----HHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 012804          290 YNTLINLYCKEGKLEA----AYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVD  365 (456)
Q Consensus       290 ~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  365 (456)
                      +..+...+...|++++    |...+++..+... .+...+..+...+...|++++|...++++.... +.+...+..+..
T Consensus       249 ~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P-~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~  326 (656)
T PRK15174        249 RRSLGLAYYQSGRSREAKLQAAEHWRHALQFNS-DNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYAR  326 (656)
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            8889999999999986    7999999988643 367788899999999999999999999998874 556778888899


Q ss_pred             HHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCC
Q 012804          366 RLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVR  420 (456)
Q Consensus       366 ~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  420 (456)
                      ++.+.|++++|...++++...   +...+..++.++...|++++|.+.|+++++..+.
T Consensus       327 ~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~  384 (656)
T PRK15174        327 ALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARAS  384 (656)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChh
Confidence            999999999999999998866   2333444677889999999999999999877443

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.93  E-value=8.5e-20  Score=171.55  Aligned_cols=442  Identities=9%  Similarity=-0.013  Sum_probs=325.2

Q ss_pred             hHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 012804            7 TRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAG   86 (456)
Q Consensus         7 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   86 (456)
                      +.+--.-+-...+.|+++.|+..|+++.+..+.-....+ .++..+...|+.++|+..+++.... ..........+...
T Consensus        34 ~~~~y~~aii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~l  111 (822)
T PRK14574         34 ADTQYDSLIIRARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARA  111 (822)
T ss_pred             hhHHHHHHHHHHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHH
Confidence            333333444678999999999999999987654222344 8888888899999999999998821 12223333444668


Q ss_pred             HHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHH
Q 012804           87 ATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNA  166 (456)
Q Consensus        87 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  166 (456)
                      +...|++++|+++|+++.+..+. ++..+..++..+...++.++|++.++++...  .|+...+..++..+...++..+|
T Consensus       112 y~~~gdyd~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~A  188 (822)
T PRK14574        112 YRNEKRWDQALALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDA  188 (822)
T ss_pred             HHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHH
Confidence            88999999999999999997654 5677778889999999999999999999876  45555554444455456677679


Q ss_pred             HHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHH------HHHHHHH---H--hcCc---
Q 012804          167 LRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITY------TTIMKCC---F--RNRK---  232 (456)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~------~~l~~~~---~--~~~~---  232 (456)
                      ++.++++.+.. +.+...+..+..+..+.|-...|.++..+-... +.+....+      ...+..-   .  ....   
T Consensus       189 L~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~  266 (822)
T PRK14574        189 LQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDI  266 (822)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhHHH
Confidence            99999999883 446778888889999999999998877653321 11111100      1111100   0  1112   


Q ss_pred             hhHHHHHHHHHHHc-C-CCcChh----hHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHH
Q 012804          233 YKLGLEILSAMKRK-G-YTFDGF----GYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAA  306 (456)
Q Consensus       233 ~~~a~~~~~~~~~~-~-~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  306 (456)
                      .+.|+.-++.+... + .|+...    ...-.+-++...+++.++++.++.+...+.+....+-..+..+|...+++++|
T Consensus       267 ~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA  346 (822)
T PRK14574        267 ADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKA  346 (822)
T ss_pred             HHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHH
Confidence            34455555555542 1 122212    22234567788999999999999999887665667888999999999999999


Q ss_pred             HHHHHHHHHcC-----CCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-----------CCC---HHHHHHHHHHH
Q 012804          307 YLLLDEMEKQG-----FECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGF-----------DSN---LEAYNCIVDRL  367 (456)
Q Consensus       307 ~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~---~~~~~~l~~~~  367 (456)
                      ..++..+....     ..++......|..++...+++++|..+++.+.+...           .||   ......++..+
T Consensus       347 ~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~  426 (822)
T PRK14574        347 APILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSL  426 (822)
T ss_pred             HHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHH
Confidence            99999996642     122344457889999999999999999999987311           122   23345567778


Q ss_pred             HhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHH
Q 012804          368 GKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKK  444 (456)
Q Consensus       368 ~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  444 (456)
                      ...|+..+|++.++++...   |......+...+...|.+.+|++.++.+....+. +..+....+.++...|++++|..
T Consensus       427 ~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~-~~~~~~~~~~~al~l~e~~~A~~  505 (822)
T PRK14574        427 VALNDLPTAQKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPR-SLILERAQAETAMALQEWHQMEL  505 (822)
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCc-cHHHHHHHHHHHHhhhhHHHHHH
Confidence            8999999999999998766   8899999999999999999999999887766433 66777788899999999999999


Q ss_pred             HHHHHHhcccCC
Q 012804          445 IQSKIRMAKISH  456 (456)
Q Consensus       445 ~~~~~~~~~~~~  456 (456)
                      +..++.+..+.|
T Consensus       506 ~~~~l~~~~Pe~  517 (822)
T PRK14574        506 LTDDVISRSPED  517 (822)
T ss_pred             HHHHHHhhCCCc
Confidence            998888776653

>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=99.92  E-value=1.5e-19  Score=170.18  Aligned_cols=400  Identities=12%  Similarity=-0.013  Sum_probs=276.3

Q ss_pred             CchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHH
Q 012804            5 LSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLI   84 (456)
Q Consensus         5 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   84 (456)
                      |++..|..+..+|.+.|++++|+..++.+++.++. +...+..+..++...|++++|+.-|..+...+...+. ....++
T Consensus       158 p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~-~~~a~~~~a~a~~~lg~~~eA~~~~~~~~~~~~~~~~-~~~~~~  235 (615)
T TIGR00990       158 PDPVYYSNRAACHNALGDWEKVVEDTTAALELDPD-YSKALNRRANAYDGLGKYADALLDLTASCIIDGFRNE-QSAQAV  235 (615)
T ss_pred             CchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccH-HHHHHH
Confidence            57788999999999999999999999999987643 6778999999999999999999988877654311122 112222


Q ss_pred             HHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC-hhHHHHHHHH---HHhc
Q 012804           85 AGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPC-TATFNIMLNG---LCKN  160 (456)
Q Consensus        85 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~---~~~~  160 (456)
                      ..+..    ..+........+.. +++...+..+.. +...........-+....+.  .+. ...+..+...   ....
T Consensus       236 ~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~e~~~~  307 (615)
T TIGR00990       236 ERLLK----KFAESKAKEILETK-PENLPSVTFVGN-YLQSFRPKPRPAGLEDSNEL--DEETGNGQLQLGLKSPESKAD  307 (615)
T ss_pred             HHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHHccCCcchhhhhccccc--ccccccchHHHHHHHHHhhhh
Confidence            22211    12223333333322 112222222222 22222222222222221111  111 1111111111   1234


Q ss_pred             CChHHHHHHHHHHHhCC-C-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHH
Q 012804          161 RYTDNALRMFRGLQKHG-F-VPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLE  238 (456)
Q Consensus       161 ~~~~~a~~~~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  238 (456)
                      +.+++|.+.|+...+.+ . +.....+..+...+...|++++|...+++.....+. ....|..+..++...|++++|..
T Consensus       308 ~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~  386 (615)
T TIGR00990       308 ESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPR-VTQSYIKRASMNLELGDPDKAEE  386 (615)
T ss_pred             hhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHCCCHHHHHH
Confidence            67889999999988764 2 224556777888888999999999999998875332 45677788888889999999999


Q ss_pred             HHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 012804          239 ILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGF  318 (456)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  318 (456)
                      .++.+.+.. +.+...+..+...+...|++++|...|++.+...+. +...+..+..++.+.|++++|+..+++..+.. 
T Consensus       387 ~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-  463 (615)
T TIGR00990       387 DFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPD-FIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-  463 (615)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCcc-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-
Confidence            999988775 566788888888999999999999999999887433 66777888888999999999999999988753 


Q ss_pred             CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH------HHHHHHHHHHHhCCCHHHHHHHHHHhccC---Chh
Q 012804          319 ECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNL------EAYNCIVDRLGKDGKIDHAINVFESMEVK---DSF  389 (456)
Q Consensus       319 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~  389 (456)
                      +.+...+..+...+...|++++|...|++........+.      ..+...+..+...|++++|.++++++...   +..
T Consensus       464 P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~  543 (615)
T TIGR00990       464 PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDI  543 (615)
T ss_pred             CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHH
Confidence            335778888889999999999999999998875311111      11122222344568999999999987655   455


Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          390 TYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       390 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      .+..++.++.+.|++++|++.|+++.+..
T Consensus       544 a~~~la~~~~~~g~~~eAi~~~e~A~~l~  572 (615)
T TIGR00990       544 AVATMAQLLLQQGDVDEALKLFERAAELA  572 (615)
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHh
Confidence            67888999999999999999999987663

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.90  E-value=5e-18  Score=163.08  Aligned_cols=431  Identities=11%  Similarity=0.040  Sum_probs=297.9

Q ss_pred             chHHHHHH-HHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHc-cCChhHHHHHHHHHHhCCCCCCHhHHHHH
Q 012804            6 STRLLNIC-VCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQ-FVSFDAGYTILNRMREAGISPDVVTYNSL   83 (456)
Q Consensus         6 ~~~~~~~l-~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   83 (456)
                      ++.+.... .+.|.+.|++++|+.++..+.+.++. +......+..+|.. .++ +.+..+++.    ..+.++..+..+
T Consensus       180 ~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~pl-~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~al  253 (987)
T PRK09782        180 EGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNTL-SAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITY  253 (987)
T ss_pred             CcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHH
Confidence            44444444 88999999999999999999998754 55666677777777 366 777777553    233577888888


Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCC-CCHHhHH------------------------------HHHHHHHhcCChh---
Q 012804           84 IAGATRNSLLSCSLDLLDEMLEMGIP-PDVWSYN------------------------------SLMHCLFQLGKPD---  129 (456)
Q Consensus        84 ~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~------------------------------~l~~~~~~~~~~~---  129 (456)
                      ...+.+.|+.++|.++++++...... |...++.                              .++..+.+.++++   
T Consensus       254 a~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  333 (987)
T PRK09782        254 ATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQ  333 (987)
T ss_pred             HHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHH
Confidence            99999999999999888886543211 1111110                              1123333333333   


Q ss_pred             ------------------------------------------------------------HHHHHHHHHHhC--CCCCCh
Q 012804          130 ------------------------------------------------------------EANRVFQDMICG--DLTPCT  147 (456)
Q Consensus       130 ------------------------------------------------------------~a~~~~~~~~~~--~~~~~~  147 (456)
                                                                                  +|.++|+.....  +-.++.
T Consensus       334 ~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  413 (987)
T PRK09782        334 KLLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQ  413 (987)
T ss_pred             HHhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCH
Confidence                                                                        333333333221  001112


Q ss_pred             hHHHHHHHHHHhcCC---hHHHHHH----------------------HHHHHhC-C-CCC--cHHHHHHHHHHHHHcCCH
Q 012804          148 ATFNIMLNGLCKNRY---TDNALRM----------------------FRGLQKH-G-FVP--ELVTYNILIKGLCKAGRL  198 (456)
Q Consensus       148 ~~~~~l~~~~~~~~~---~~~a~~~----------------------~~~~~~~-~-~~~--~~~~~~~l~~~~~~~~~~  198 (456)
                      .....++..|.+.+.   ..++..+                      ++..... + .++  +...|..+..++.. ++.
T Consensus       414 ~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~  492 (987)
T PRK09782        414 TLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLP  492 (987)
T ss_pred             HHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCc
Confidence            222344444444433   2222221                      1111110 0 123  45566666666665 677


Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHH
Q 012804          199 RTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQM  278 (456)
Q Consensus       199 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  278 (456)
                      ++|...+.+.....  |+......+...+...|++++|...++++...  +|+...+..+..++.+.|++++|...++..
T Consensus       493 ~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qA  568 (987)
T PRK09782        493 GVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQA  568 (987)
T ss_pred             HHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            78888777766543  55444444555667899999999999998665  444555667778889999999999999999


Q ss_pred             HHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 012804          279 VTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLE  358 (456)
Q Consensus       279 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  358 (456)
                      .+.++. +...+..+.......|++++|...+++..+.  .|+...+..+..++.+.|++++|...++++.... |.+..
T Consensus       569 L~l~P~-~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~  644 (987)
T PRK09782        569 EQRGLG-DNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSN  644 (987)
T ss_pred             HhcCCc-cHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH
Confidence            987432 3333444444555669999999999999986  4578889999999999999999999999999874 66788


Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHc
Q 012804          359 AYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRH  435 (456)
Q Consensus       359 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  435 (456)
                      .+..+..++...|++++|++.++++...   ++..+..+..++...|++++|+..++++++..+. +..+....++...+
T Consensus       645 a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~-~a~i~~~~g~~~~~  723 (987)
T PRK09782        645 YQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDIDN-QALITPLTPEQNQQ  723 (987)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CchhhhhhhHHHHH
Confidence            8999999999999999999999998766   7788999999999999999999999999977532 44566667777777


Q ss_pred             cCChHHHHHHHHHHHhc
Q 012804          436 SGCRREAKKIQSKIRMA  452 (456)
Q Consensus       436 ~g~~~~A~~~~~~~~~~  452 (456)
                      ..+++.|.+-+++.-.-
T Consensus       724 ~~~~~~a~~~~~r~~~~  740 (987)
T PRK09782        724 RFNFRRLHEEVGRRWTF  740 (987)
T ss_pred             HHHHHHHHHHHHHHhhc
Confidence            88888888777665443

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

Probab=99.89  E-value=1e-18  Score=157.90  Aligned_cols=439  Identities=13%  Similarity=0.060  Sum_probs=331.5

Q ss_pred             hHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 012804            7 TRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAG   86 (456)
Q Consensus         7 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   86 (456)
                      +++|--+.++|-..|++++|...|.+..+......+..+.-+.+.+.+.|+.+.+...|+.+.+.. +.+..+...|...
T Consensus       307 aes~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  307 AESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCL  385 (1018)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhH
Confidence            456778899999999999999999999887644335566778999999999999999999998873 4456677777777


Q ss_pred             HHcCC----ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHH----hCCCCCChhHHHHHHHHHH
Q 012804           87 ATRNS----LLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMI----CGDLTPCTATFNIMLNGLC  158 (456)
Q Consensus        87 ~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~l~~~~~  158 (456)
                      |...+    ..+.|..++.+..+.. +.|...|..+...+....-+. ++.+|..+.    ..+.++.+...|.+...+.
T Consensus       386 ya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d~~~-sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf  463 (1018)
T KOG2002|consen  386 YAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTDPWA-SLDAYGNALDILESKGKQIPPEVLNNVASLHF  463 (1018)
T ss_pred             HHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcChHH-HHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHH
Confidence            77665    4567777777777654 447788888777766554443 377666544    3454577889999999999


Q ss_pred             hcCChHHHHHHHHHHHhC---CCC------CcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCH-HHHHHHHHHHH
Q 012804          159 KNRYTDNALRMFRGLQKH---GFV------PELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNA-ITYTTIMKCCF  228 (456)
Q Consensus       159 ~~~~~~~a~~~~~~~~~~---~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~  228 (456)
                      ..|++.+|...|......   ...      ++..+-..+....-..++++.|.+.|..+....  |.. ..|..++....
T Consensus       464 ~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh--p~YId~ylRl~~ma~  541 (1018)
T KOG2002|consen  464 RLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH--PGYIDAYLRLGCMAR  541 (1018)
T ss_pred             HhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC--chhHHHHHHhhHHHH
Confidence            999999999999988765   112      222234456667777889999999999998753  333 33444444445


Q ss_pred             hcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHC-CCccCHHHHHHHHHHHHh--------
Q 012804          229 RNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTD-GVQLDIVSYNTLINLYCK--------  299 (456)
Q Consensus       229 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~--------  299 (456)
                      ..+...+|...+..+...+ ..++..+..+...+.....+..|.+-|..+.+. ...+|+.+...|...|.+        
T Consensus       542 ~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn  620 (1018)
T KOG2002|consen  542 DKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRN  620 (1018)
T ss_pred             hccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccC
Confidence            5678899999999999876 667778888888999999999999877777664 223577777777775553        


Q ss_pred             ----cCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHH
Q 012804          300 ----EGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDH  375 (456)
Q Consensus       300 ----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  375 (456)
                          .+..++|+++|....+..+ -+...-+.+.-.++..|++..|..+|.++.+.. .....+|..+..+|..+|++..
T Consensus       621 ~ek~kk~~~KAlq~y~kvL~~dp-kN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~-~~~~dv~lNlah~~~e~~qy~~  698 (1018)
T KOG2002|consen  621 PEKEKKHQEKALQLYGKVLRNDP-KNMYAANGIGIVLAEKGRFSEARDIFSQVREAT-SDFEDVWLNLAHCYVEQGQYRL  698 (1018)
T ss_pred             hHHHHHHHHHHHHHHHHHHhcCc-chhhhccchhhhhhhccCchHHHHHHHHHHHHH-hhCCceeeeHHHHHHHHHHHHH
Confidence                3457889999998887643 377888888889999999999999999999874 4456789999999999999999


Q ss_pred             HHHHHHHhccC-----ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHH------------------H
Q 012804          376 AINVFESMEVK-----DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVD------------------G  432 (456)
Q Consensus       376 a~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~------------------~  432 (456)
                      |+++|+.....     ++.+...|.+++.+.|.+.+|.+.+..++...+.-....++..+-                  .
T Consensus       699 AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev  778 (1018)
T KOG2002|consen  699 AIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEV  778 (1018)
T ss_pred             HHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHH
Confidence            99999987766     788999999999999999999999999887654433333332221                  1


Q ss_pred             HHccCChHHHHHHHHHHHhcc
Q 012804          433 LRHSGCRREAKKIQSKIRMAK  453 (456)
Q Consensus       433 ~~~~g~~~~A~~~~~~~~~~~  453 (456)
                      ....+..+.|.++|..+...+
T Consensus       779 ~~a~~~le~a~r~F~~ls~~~  799 (1018)
T KOG2002|consen  779 LEAVKELEEARRLFTELSKNG  799 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHhcC
Confidence            122334667777777776543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.88  E-value=5.1e-17  Score=153.09  Aligned_cols=400  Identities=13%  Similarity=0.064  Sum_probs=302.3

Q ss_pred             HHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCC
Q 012804           12 ICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNS   91 (456)
Q Consensus        12 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   91 (456)
                      .++..+...|+.++|+..++++.... ..+......+...+...|++++|+++|+++.+.. +.++..+..++..+...+
T Consensus        73 dll~l~~~~G~~~~A~~~~eka~~p~-n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~  150 (822)
T PRK14574         73 DWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARAYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAG  150 (822)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcC
Confidence            88888899999999999999998221 2233344444668888999999999999999875 335677778889999999


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHH
Q 012804           92 LLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFR  171 (456)
Q Consensus        92 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  171 (456)
                      +.++|++.++++....  |+...+..++..+...++..+|++.++++.+.. |.+...+..+..++.+.|-...|.++..
T Consensus       151 q~~eAl~~l~~l~~~d--p~~~~~l~layL~~~~~~~~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~  227 (822)
T PRK14574        151 RGGVVLKQATELAERD--PTVQNYMTLSYLNRATDRNYDALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAK  227 (822)
T ss_pred             CHHHHHHHHHHhcccC--cchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHH
Confidence            9999999999998864  555556555555555677767999999999886 6678888999999999999999998877


Q ss_pred             HHHhCCCCCcHHHH------HHHHHHH-----HHcCC---HHHHHHHHHHHhh-CCCCCCH-HH----HHHHHHHHHhcC
Q 012804          172 GLQKHGFVPELVTY------NILIKGL-----CKAGR---LRTARWILKELGD-SGHAPNA-IT----YTTIMKCCFRNR  231 (456)
Q Consensus       172 ~~~~~~~~~~~~~~------~~l~~~~-----~~~~~---~~~a~~~~~~~~~-~~~~~~~-~~----~~~l~~~~~~~~  231 (456)
                      +-... +.+....+      ..+++.-     ....+   .+.|+.-++.+.. .+..|.. ..    ..-.+-++...+
T Consensus       228 ~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~  306 (822)
T PRK14574        228 ENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRH  306 (822)
T ss_pred             hCccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhh
Confidence            65433 22221111      1111100     01122   3445555555544 1222322 11    123355678889


Q ss_pred             chhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCC-----CccCHHHHHHHHHHHHhcCCHHHH
Q 012804          232 KYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDG-----VQLDIVSYNTLINLYCKEGKLEAA  306 (456)
Q Consensus       232 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a  306 (456)
                      +..+++..++.+...+.+....+...+..+|...+++++|..++..+....     ..++......|.-+|...+++++|
T Consensus       307 r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A  386 (822)
T PRK14574        307 QTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKA  386 (822)
T ss_pred             hHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHH
Confidence            999999999999988866667788899999999999999999999997753     123444457889999999999999


Q ss_pred             HHHHHHHHHcCC-----------CcCH---HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC
Q 012804          307 YLLLDEMEKQGF-----------ECDK---YTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGK  372 (456)
Q Consensus       307 ~~~~~~~~~~~~-----------~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  372 (456)
                      ..+++.+.+...           .|+.   ..+..++..+...|+..+|++.++.+.... |-|......+...+...|.
T Consensus       387 ~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~  465 (822)
T PRK14574        387 YQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDL  465 (822)
T ss_pred             HHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCC
Confidence            999999987422           1221   234456777889999999999999998874 7889999999999999999


Q ss_pred             HHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          373 IDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       373 ~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      +.+|.+.++.+...   +..+....+.++...|++++|..+.+.+.+..
T Consensus       466 p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~  514 (822)
T PRK14574        466 PRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVISRS  514 (822)
T ss_pred             HHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhC
Confidence            99999999876655   66777788899999999999999999998763

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

Probab=99.88  E-value=7.4e-19  Score=146.04  Aligned_cols=422  Identities=14%  Similarity=0.101  Sum_probs=268.7

Q ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHH-HHHHHHHccCChhHHHHHHHHHHhCCCCCC------HhHH
Q 012804            8 RLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYN-MLIDAYCQFVSFDAGYTILNRMREAGISPD------VVTY   80 (456)
Q Consensus         8 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~   80 (456)
                      .+...|.+.|..+..+.+|+..++-+++...-|+..... .+.+.+.+.+++.+|++.|+.....  .|+      +...
T Consensus       202 svl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldq--vpsink~~rikil  279 (840)
T KOG2003|consen  202 SVLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQ--VPSINKDMRIKIL  279 (840)
T ss_pred             HHHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhh--ccccchhhHHHHH
Confidence            344455667777788888888888888777666665432 3556777888888888888776654  222      2334


Q ss_pred             HHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC------------Chh
Q 012804           81 NSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTP------------CTA  148 (456)
Q Consensus        81 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------------~~~  148 (456)
                      +.+...+.+.|+++.|+..|+...+.  .|+..+-..|+-++..-|+-++..+.|.+|+.....+            +..
T Consensus       280 ~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~  357 (840)
T KOG2003|consen  280 NNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDN  357 (840)
T ss_pred             hhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchH
Confidence            55555677888888888888887764  3677666667777777888888888888887543222            222


Q ss_pred             HHHHHH-----HHHHhcC--ChHHHHHHHHHHHhCCCCCcHH-------------HH--------HHHHHHHHHcCCHHH
Q 012804          149 TFNIML-----NGLCKNR--YTDNALRMFRGLQKHGFVPELV-------------TY--------NILIKGLCKAGRLRT  200 (456)
Q Consensus       149 ~~~~l~-----~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~-------------~~--------~~l~~~~~~~~~~~~  200 (456)
                      ..+.-+     .-.-+.+  +.++++-.--++..--+.|+-.             .+        -.-...+.++|+++.
T Consensus       358 ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~  437 (840)
T KOG2003|consen  358 LLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEG  437 (840)
T ss_pred             HHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHH
Confidence            222111     1111111  1112221111111111111100             00        011234667777777


Q ss_pred             HHHHHHHHhhCCCCCCHHH------------------------------------HHHHHHHHHhcCchhHHHHHHHHHH
Q 012804          201 ARWILKELGDSGHAPNAIT------------------------------------YTTIMKCCFRNRKYKLGLEILSAMK  244 (456)
Q Consensus       201 a~~~~~~~~~~~~~~~~~~------------------------------------~~~l~~~~~~~~~~~~a~~~~~~~~  244 (456)
                      |.++++-+.+.........                                    ...-.......|++++|.+.+++.+
T Consensus       438 aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal  517 (840)
T KOG2003|consen  438 AIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEAL  517 (840)
T ss_pred             HHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHH
Confidence            7777665544322111111                                    1111111223577888888888888


Q ss_pred             HcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHh
Q 012804          245 RKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYT  324 (456)
Q Consensus       245 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  324 (456)
                      ..+..-....|+ +.-.+-..|+.++|.+.|-++... ...+..+...+...|-...++..|++++-+.... ++.|+..
T Consensus       518 ~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~i  594 (840)
T KOG2003|consen  518 NNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAI  594 (840)
T ss_pred             cCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHH
Confidence            665333333333 333456778888888888776654 3346677777888888888888888888777654 4557788


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhc--cCChhhHHHHHHHHH-cc
Q 012804          325 HTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESME--VKDSFTYSSMVHNLC-KA  401 (456)
Q Consensus       325 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~--~~~~~~~~~l~~~~~-~~  401 (456)
                      +..|...|-+.|+..+|.+.+-.--+. ++.+.++...|...|....-+++++..|+++.  +++..-|..++..|. +.
T Consensus       595 lskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrs  673 (840)
T KOG2003|consen  595 LSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRS  673 (840)
T ss_pred             HHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhc
Confidence            888888888888888888877665554 57788888888888888888888888888754  447777877766554 58


Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCC
Q 012804          402 KRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGC  438 (456)
Q Consensus       402 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  438 (456)
                      |++.+|.++++....+ ++.|...+..+++.+...|.
T Consensus       674 gnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  674 GNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             ccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            8899998888888765 55588888888888877775

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.87  E-value=8e-17  Score=132.94  Aligned_cols=409  Identities=15%  Similarity=0.151  Sum_probs=292.9

Q ss_pred             CchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccC--Chh-HHHHHHHHHHhCC---------
Q 012804            5 LSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFV--SFD-AGYTILNRMREAG---------   72 (456)
Q Consensus         5 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~-~a~~~~~~~~~~~---------   72 (456)
                      ..+++=|.|+ -...+|.+.++.-+++.|...|+..+...-..+++..+-.+  +.- .-++.|-.|...|         
T Consensus       114 ~~V~~E~nL~-kmIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~  192 (625)
T KOG4422|consen  114 LQVETENNLL-KMISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKS  192 (625)
T ss_pred             hhhcchhHHH-HHHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccccc
Confidence            3444445554 45678999999999999999998877776666655433222  111 1123333333322         


Q ss_pred             ----------CCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 012804           73 ----------ISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGD  142 (456)
Q Consensus        73 ----------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  142 (456)
                                .+-+..+|..+|.++|+-...+.|.+++++......+.+..+||.+|.+-.-..+    .+++.+|.+..
T Consensus       193 G~vAdL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqk  268 (625)
T KOG4422|consen  193 GAVADLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQK  268 (625)
T ss_pred             ccHHHHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhh
Confidence                      2345678999999999999999999999999888788899999999887554332    78899999999


Q ss_pred             CCCChhHHHHHHHHHHhcCChHH----HHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHH-HHHHHHHHhh----CCC
Q 012804          143 LTPCTATFNIMLNGLCKNRYTDN----ALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRT-ARWILKELGD----SGH  213 (456)
Q Consensus       143 ~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~----~~~  213 (456)
                      +.||..|+|.++.+..+.|+++.    |.+++.+|.+.|+.|...+|..+|..+.+.++..+ +..++..+.+    ..+
T Consensus       269 m~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~f  348 (625)
T KOG4422|consen  269 MTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTF  348 (625)
T ss_pred             cCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcc
Confidence            99999999999999999998765    56788999999999999999999999998887644 4444444433    222


Q ss_pred             C---C-CHHHHHHHHHHHHhcCchhHHHHHHHHHHHcC----CCcC---hhhHHHHHHHHHHcCChHHHHHHHHHHHHCC
Q 012804          214 A---P-NAITYTTIMKCCFRNRKYKLGLEILSAMKRKG----YTFD---GFGYCTVIAAFVKIGRLKEATDYMEQMVTDG  282 (456)
Q Consensus       214 ~---~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  282 (456)
                      +   | +...|...+..|.+..+.+.|.++..-+....    +.|+   ..-|..+..+.+.....+.....++.|+-.-
T Consensus       349 kp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~  428 (625)
T KOG4422|consen  349 KPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSA  428 (625)
T ss_pred             cCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccce
Confidence            2   2 44556778888889999999998877665432    2232   2345667777888889999999999999887


Q ss_pred             CccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcC-CH---H----------HHHHHH---
Q 012804          283 VQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAG-NI---K----------GARLHL---  345 (456)
Q Consensus       283 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~---~----------~a~~~~---  345 (456)
                      .-|+..+...++++..-.|.++-..++|..++..|..........++..+++.+ ..   +          -|..++   
T Consensus       429 y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~  508 (625)
T KOG4422|consen  429 YFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAY  508 (625)
T ss_pred             ecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHH
Confidence            788889999999999999999999999998887765444444444444444333 11   0          011111   


Q ss_pred             ----HHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC--------ChhhHHHHHHHHHccCChhHHHHHHHH
Q 012804          346 ----EYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK--------DSFTYSSMVHNLCKAKRLPSASKLLLS  413 (456)
Q Consensus       346 ----~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~A~~~~~~  413 (456)
                          .++.+.  ..+....+..+-.+.+.|+.++|.++|.-....        ...+...++..-.+.+.+..|+..++-
T Consensus       509 e~~~~R~r~~--~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~  586 (625)
T KOG4422|consen  509 ESQPIRQRAQ--DWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQL  586 (625)
T ss_pred             HhhHHHHHhc--cCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHH
Confidence                122222  344566777788889999999999999877544        122233556666778888899999988


Q ss_pred             HHHcCCC
Q 012804          414 CLKSGVR  420 (456)
Q Consensus       414 ~~~~~~~  420 (456)
                      |...+.+
T Consensus       587 a~~~n~~  593 (625)
T KOG4422|consen  587 ASAFNLP  593 (625)
T ss_pred             HHHcCch
Confidence            8766544

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

Probab=99.87  E-value=4.6e-16  Score=135.14  Aligned_cols=429  Identities=12%  Similarity=0.045  Sum_probs=249.2

Q ss_pred             HHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHH----HhCCCCCCHhHHHHHHHHH----
Q 012804           16 TFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRM----REAGISPDVVTYNSLIAGA----   87 (456)
Q Consensus        16 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~l~~~~----   87 (456)
                      +|.+..-|+.|..+++.+.+. ++.+...|..-...=-.+|+.+....++++-    ...|+..+...|-.=...|    
T Consensus       415 AlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~ag  493 (913)
T KOG0495|consen  415 ALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAG  493 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcC
Confidence            344555566666666665553 3335555555555555555555555444332    2334444444444444444    


Q ss_pred             ---------------------------------HcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHH
Q 012804           88 ---------------------------------TRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRV  134 (456)
Q Consensus        88 ---------------------------------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  134 (456)
                                                       .+.+.++-+..+|...++- .+.+...|......--..|..++...+
T Consensus       494 sv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Al  572 (913)
T KOG0495|consen  494 SVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEAL  572 (913)
T ss_pred             ChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHH
Confidence                                             4444444444444444442 122333444444444444555555555


Q ss_pred             HHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCC
Q 012804          135 FQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHA  214 (456)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  214 (456)
                      |+++...- +.....|......+-..|+...|..++....+.. +.+...|-..+.....+..++.|..+|.+...  ..
T Consensus       573 lqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~--~s  648 (913)
T KOG0495|consen  573 LQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARS--IS  648 (913)
T ss_pred             HHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhc--cC
Confidence            55555432 3333444444455555566666666666655542 22455555555555666666666666665554  23


Q ss_pred             CCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHH
Q 012804          215 PNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLI  294 (456)
Q Consensus       215 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  294 (456)
                      |+...|..-+....-.+..++|.+++++.++.- +.-...|..+.+.+-+.++++.|...|..-.+. .+..+..|..+.
T Consensus       649 gTeRv~mKs~~~er~ld~~eeA~rllEe~lk~f-p~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLa  726 (913)
T KOG0495|consen  649 GTERVWMKSANLERYLDNVEEALRLLEEALKSF-PDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLA  726 (913)
T ss_pred             CcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhC-CchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHH
Confidence            445555444444445556666666666665542 333445555555666666666666655544443 333444555555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHH
Q 012804          295 NLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKID  374 (456)
Q Consensus       295 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  374 (456)
                      ..--+.|.+-+|..++++..-.++. +...|...++.-.+.|+.+.|..+..++++. .+.+...|..-|...-+.++-.
T Consensus       727 kleEk~~~~~rAR~ildrarlkNPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkT  804 (913)
T KOG0495|consen  727 KLEEKDGQLVRARSILDRARLKNPK-NALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKT  804 (913)
T ss_pred             HHHHHhcchhhHHHHHHHHHhcCCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcccch
Confidence            5555566666666666666555432 5556666666666666666666666666554 3445556666665555555544


Q ss_pred             HHHHHHHHhccCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhccc
Q 012804          375 HAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKI  454 (456)
Q Consensus       375 ~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  454 (456)
                      .....+.+... |+.+...+...+-....+++|.+.|.+.++.+.. +..+|..+...+.+.|.-++-..++.+.....+
T Consensus       805 ks~DALkkce~-dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d-~GD~wa~fykfel~hG~eed~kev~~~c~~~EP  882 (913)
T KOG0495|consen  805 KSIDALKKCEH-DPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPD-NGDAWAWFYKFELRHGTEEDQKEVLKKCETAEP  882 (913)
T ss_pred             HHHHHHHhccC-CchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCc-cchHHHHHHHHHHHhCCHHHHHHHHHHHhccCC
Confidence            44444433322 7788888888999999999999999999988644 778899999999999999999999999988877


Q ss_pred             CC
Q 012804          455 SH  456 (456)
Q Consensus       455 ~~  456 (456)
                      .|
T Consensus       883 ~h  884 (913)
T KOG0495|consen  883 TH  884 (913)
T ss_pred             CC
Confidence            65

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

Probab=99.85  E-value=2.4e-15  Score=125.89  Aligned_cols=430  Identities=11%  Similarity=0.005  Sum_probs=244.4

Q ss_pred             hHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 012804            7 TRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAG   86 (456)
Q Consensus         7 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   86 (456)
                      ...|...+..=+++..+..|..+|++++..-|..| ..|...+.+=-..|+...|.++|+...+.  .|+..+|.+.+..
T Consensus       107 itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVd-qlWyKY~ymEE~LgNi~gaRqiferW~~w--~P~eqaW~sfI~f  183 (677)
T KOG1915|consen  107 ITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVD-QLWYKYIYMEEMLGNIAGARQIFERWMEW--EPDEQAWLSFIKF  183 (677)
T ss_pred             chHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHH-HHHHHHHHHHHHhcccHHHHHHHHHHHcC--CCcHHHHHHHHHH
Confidence            33444444444444555555555555444322211 12333333333345555555555555443  4555555555555


Q ss_pred             HHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhC-C-CCCChhHHHHHHHHHHhcCChH
Q 012804           87 ATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICG-D-LTPCTATFNIMLNGLCKNRYTD  164 (456)
Q Consensus        87 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~  164 (456)
                      =.+.+.++.|..+++...-  +.|++.+|.-....=.+.|....+..+|+..++. | -..+...+.++...-.++..++
T Consensus       184 ElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~E  261 (677)
T KOG1915|consen  184 ELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYE  261 (677)
T ss_pred             HHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555544  2355555555555555555555555555554432 1 0111222333333333444555


Q ss_pred             HHHHHHHHHHhCCCCCc--HHHHHHHHHHHHHcCCHHHHHHH--------HHHHhhCCCCCCHHHHHHHHHHHHhcCchh
Q 012804          165 NALRMFRGLQKHGFVPE--LVTYNILIKGLCKAGRLRTARWI--------LKELGDSGHAPNAITYTTIMKCCFRNRKYK  234 (456)
Q Consensus       165 ~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~--------~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  234 (456)
                      .|.-+|+-.+++ ++.+  ...|......--+-|+.....+.        ++.+...+ +.|..+|-..+..-...|+.+
T Consensus       262 Rar~iykyAld~-~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~  339 (677)
T KOG1915|consen  262 RARFIYKYALDH-IPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKD  339 (677)
T ss_pred             HHHHHHHHHHHh-cCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHH
Confidence            555555555544 2222  22233332222233333222221        22223322 336677777777777778888


Q ss_pred             HHHHHHHHHHHcCCCcChh--hHHHH--------HHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHH----Hhc
Q 012804          235 LGLEILSAMKRKGYTFDGF--GYCTV--------IAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLY----CKE  300 (456)
Q Consensus       235 ~a~~~~~~~~~~~~~~~~~--~~~~l--------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~  300 (456)
                      ...++|+++...- ||-..  .+...        +-.-....+.+.+.++++..++. ++....||..+--.|    .++
T Consensus       340 ~Ire~yErAIanv-pp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq  417 (677)
T KOG1915|consen  340 RIRETYERAIANV-PPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQ  417 (677)
T ss_pred             HHHHHHHHHHccC-CchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHH
Confidence            8888888887653 43211  11111        11123456788888888888774 444555555444333    356


Q ss_pred             CCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHH
Q 012804          301 GKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVF  380 (456)
Q Consensus       301 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  380 (456)
                      .+...|.+++...+.  .-|...+|...|..-.+.++++.+..++++.++.+ |.+..+|......-...|+.+.|..+|
T Consensus       418 ~~l~~ARkiLG~AIG--~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~-Pe~c~~W~kyaElE~~LgdtdRaRaif  494 (677)
T KOG1915|consen  418 LNLTGARKILGNAIG--KCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS-PENCYAWSKYAELETSLGDTDRARAIF  494 (677)
T ss_pred             cccHHHHHHHHHHhc--cCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-hHhhHHHHHHHHHHHHhhhHHHHHHHH
Confidence            778888888877764  46777888888888888888888888888888875 667788888888888888888888888


Q ss_pred             HHhccC-----ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHH-----ccC-----------Ch
Q 012804          381 ESMEVK-----DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLR-----HSG-----------CR  439 (456)
Q Consensus       381 ~~~~~~-----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~-----~~g-----------~~  439 (456)
                      +-+...     ....|.+.|..-...|.++.|..+++++++..  +....|.+++.--.     +.|           ..
T Consensus       495 elAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt--~h~kvWisFA~fe~s~~~~~~~~~~~~~e~~~~~~  572 (677)
T KOG1915|consen  495 ELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRT--QHVKVWISFAKFEASASEGQEDEDLAELEITDENI  572 (677)
T ss_pred             HHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhc--ccchHHHhHHHHhccccccccccchhhhhcchhHH
Confidence            877665     44567777777778888888888888888663  23345555543322     333           45


Q ss_pred             HHHHHHHHHHH
Q 012804          440 REAKKIQSKIR  450 (456)
Q Consensus       440 ~~A~~~~~~~~  450 (456)
                      ..|+++|++..
T Consensus       573 ~~AR~iferAn  583 (677)
T KOG1915|consen  573 KRARKIFERAN  583 (677)
T ss_pred             HHHHHHHHHHH
Confidence            56777777654

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

Probab=99.85  E-value=4.6e-15  Score=124.28  Aligned_cols=437  Identities=10%  Similarity=0.053  Sum_probs=332.3

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCH-hHHHHHH
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDV-VTYNSLI   84 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~   84 (456)
                      +...|-...+.=..++++..|.++|++++..+. .+...|-..+.+=.++.....|..+++.....  -|-+ ..|--.+
T Consensus        72 ~~~~WikYaqwEesq~e~~RARSv~ERALdvd~-r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~  148 (677)
T KOG1915|consen   72 NMQVWIKYAQWEESQKEIQRARSVFERALDVDY-RNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYI  148 (677)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHhccc-ccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHH
Confidence            455666666677778999999999999998774 58888999999999999999999999999875  3433 3444445


Q ss_pred             HHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChH
Q 012804           85 AGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTD  164 (456)
Q Consensus        85 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  164 (456)
                      ..=-..|++..|.++|+.-.+  .+|+...|.+.+..=.+.+.++.|..++++..-.  .|++.+|--..+.-.+.|...
T Consensus       149 ymEE~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~  224 (677)
T KOG1915|consen  149 YMEEMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVA  224 (677)
T ss_pred             HHHHHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHH
Confidence            555568999999999999887  5799999999999999999999999999998865  689999999999999999999


Q ss_pred             HHHHHHHHHHhC-CC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHhcCchhHHHHH--
Q 012804          165 NALRMFRGLQKH-GF-VPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAP-NAITYTTIMKCCFRNRKYKLGLEI--  239 (456)
Q Consensus       165 ~a~~~~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~--  239 (456)
                      .+..+|+...+. |- .-+...+.+...--.+++.++.|.-+|+-.+..-+.. ....|..+...--+-|+.......  
T Consensus       225 ~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv  304 (677)
T KOG1915|consen  225 LARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIV  304 (677)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHh
Confidence            999999988764 11 0122334444444456778899999998877642221 133444444444445554333322  


Q ss_pred             ------HHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCH--HHHHHHHH--------HHHhcCCH
Q 012804          240 ------LSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDI--VSYNTLIN--------LYCKEGKL  303 (456)
Q Consensus       240 ------~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~--------~~~~~~~~  303 (456)
                            ++.....+ +.|-.++-..+......|+.+...++++..+.. ++|-.  ..|...|-        .-....+.
T Consensus       305 ~KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~  382 (677)
T KOG1915|consen  305 GKRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDV  382 (677)
T ss_pred             hhhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhH
Confidence                  34444444 677788888888888899999999999999986 44422  12222221        12346899


Q ss_pred             HHHHHHHHHHHHcCCCcCHHhHHHH----HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHH
Q 012804          304 EAAYLLLDEMEKQGFECDKYTHTIL----IDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINV  379 (456)
Q Consensus       304 ~~a~~~~~~~~~~~~~~~~~~~~~l----~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  379 (456)
                      +.+.++++...+. ++....||..+    ...-.++.+...|.+++..++  |..|...+|...|..-.+.+.++...++
T Consensus       383 ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkL  459 (677)
T KOG1915|consen  383 ERTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKL  459 (677)
T ss_pred             HHHHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHH
Confidence            9999999999884 33345555543    344467889999999999887  4588999999999999999999999999


Q ss_pred             HHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC-CCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhccc
Q 012804          380 FESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSG-VRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKI  454 (456)
Q Consensus       380 ~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  454 (456)
                      +++...-   +..+|...+..-...|+.+.|..+|+-++... +......|...++--...|.++.|+.+++++.+.+.
T Consensus       460 YEkfle~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~  538 (677)
T KOG1915|consen  460 YEKFLEFSPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQ  538 (677)
T ss_pred             HHHHHhcChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcc
Confidence            9998887   55677777777788999999999999998762 333456777888888889999999999999987654

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.83  E-value=1.9e-15  Score=124.90  Aligned_cols=408  Identities=15%  Similarity=0.167  Sum_probs=297.1

Q ss_pred             HHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCC--ChhHH-HHHHHHHHH-------------
Q 012804           42 VVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNS--LLSCS-LDLLDEMLE-------------  105 (456)
Q Consensus        42 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a-~~~~~~~~~-------------  105 (456)
                      +.+-|.++... ..|..+++.-+|+.|.+.|++.+...-..|++..+-.+  ++.-+ ++.|-.|..             
T Consensus       116 V~~E~nL~kmI-S~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~  194 (625)
T KOG4422|consen  116 VETENNLLKMI-SSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGA  194 (625)
T ss_pred             hcchhHHHHHH-hhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccccccc
Confidence            44556666654 57889999999999999998877766655554433211  11100 111111111             


Q ss_pred             ------CCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 012804          106 ------MGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFV  179 (456)
Q Consensus       106 ------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  179 (456)
                            .-.+.+..++..+|.+.++--..+.|.+++++-.....+.+..+||.++.+-.-..+    .+++.+|....+.
T Consensus       195 vAdL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~  270 (625)
T KOG4422|consen  195 VADLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMT  270 (625)
T ss_pred             HHHHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcC
Confidence                  112346788999999999999999999999998887778999999999876543322    7888999999999


Q ss_pred             CcHHHHHHHHHHHHHcCCHHHH----HHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhH-HHHHHHHHHHc----CC--
Q 012804          180 PELVTYNILIKGLCKAGRLRTA----RWILKELGDSGHAPNAITYTTIMKCCFRNRKYKL-GLEILSAMKRK----GY--  248 (456)
Q Consensus       180 ~~~~~~~~l~~~~~~~~~~~~a----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~----~~--  248 (456)
                      ||..|+|+++.+..+.|+++.|    .+++.+|.+.|+.|...+|..+|..+.+.+++.+ +..++.++...    .+  
T Consensus       271 Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp  350 (625)
T KOG4422|consen  271 PNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKP  350 (625)
T ss_pred             CchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccC
Confidence            9999999999999999988764    5677788999999999999999999998888744 45555555432    22  


Q ss_pred             --CcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCC----CccC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 012804          249 --TFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDG----VQLD---IVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFE  319 (456)
Q Consensus       249 --~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  319 (456)
                        +.+...|...+..|.+..+.+-|..+..-+....    +.|+   ..-|..+....++....+.-...|+.|.-.-+-
T Consensus       351 ~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~  430 (625)
T KOG4422|consen  351 ITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYF  430 (625)
T ss_pred             CCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceec
Confidence              2345567777888889999999988877665431    2222   234566777788888899999999999887778


Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC-CH--------H-----HHHHHHHH---
Q 012804          320 CDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDG-KI--------D-----HAINVFES---  382 (456)
Q Consensus       320 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~--------~-----~a~~~~~~---  382 (456)
                      |+..+...++++....+.++-.-++|..++..|..-+...-..+...+++.. +.        .     -|..+++.   
T Consensus       431 p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~  510 (625)
T KOG4422|consen  431 PHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYES  510 (625)
T ss_pred             CCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHh
Confidence            8999999999999999999999999999998876655555555555555544 11        1     11122221   


Q ss_pred             ----hccC--ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCC----CCCHHhHHHHHHHHHccCChHHHHHHHHHHHhc
Q 012804          383 ----MEVK--DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGV----RILKSAQKAVVDGLRHSGCRREAKKIQSKIRMA  452 (456)
Q Consensus       383 ----~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  452 (456)
                          +.+.  .+...+.++-.+.+.|+.++|.+++.-..+.+-    .|....+..+.++-...++...|...++-+...
T Consensus       511 ~~~R~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~  590 (625)
T KOG4422|consen  511 QPIRQRAQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAF  590 (625)
T ss_pred             hHHHHHhccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Confidence                1111  667788888899999999999999998865532    234445557777888889999999988888665


Q ss_pred             cc
Q 012804          453 KI  454 (456)
Q Consensus       453 ~~  454 (456)
                      +.
T Consensus       591 n~  592 (625)
T KOG4422|consen  591 NL  592 (625)
T ss_pred             Cc
Confidence            54

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

Probab=99.83  E-value=1.2e-14  Score=126.46  Aligned_cols=435  Identities=13%  Similarity=0.051  Sum_probs=291.4

Q ss_pred             CCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHH
Q 012804            4 KLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSL   83 (456)
Q Consensus         4 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   83 (456)
                      |.++..|-..+    ...+.++|..++.++++.- +.+...|    .++.+...++.|..+++...+. ++.+...|.+.
T Consensus       377 P~sv~LWKaAV----elE~~~darilL~rAvecc-p~s~dLw----lAlarLetYenAkkvLNkaRe~-iptd~~IWita  446 (913)
T KOG0495|consen  377 PRSVRLWKAAV----ELEEPEDARILLERAVECC-PQSMDLW----LALARLETYENAKKVLNKAREI-IPTDREIWITA  446 (913)
T ss_pred             CchHHHHHHHH----hccChHHHHHHHHHHHHhc-cchHHHH----HHHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHH
Confidence            44555665544    4567778999999999864 3355444    4556667789999999999876 56678888887


Q ss_pred             HHHHHcCCChhHHHHHHHHH----HHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC--ChhHHHHHHHHH
Q 012804           84 IAGATRNSLLSCSLDLLDEM----LEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTP--CTATFNIMLNGL  157 (456)
Q Consensus        84 ~~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~  157 (456)
                      ...=-.+|+.+...+++++-    ...|+..+...|..=...|-..|..-.+..+....+..|+..  -..+|..-...|
T Consensus       447 a~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~  526 (913)
T KOG0495|consen  447 AKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSC  526 (913)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHH
Confidence            77777899999888887764    345777788778777777777788777777777777666432  235677777777


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHH
Q 012804          158 CKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGL  237 (456)
Q Consensus       158 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  237 (456)
                      .+.+.++-|..+|....+- ++.+...|......--..|..++...+|+++...-+ .....|......+-..|+...|.
T Consensus       527 ~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~p-kae~lwlM~ake~w~agdv~~ar  604 (913)
T KOG0495|consen  527 EKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCP-KAEILWLMYAKEKWKAGDVPAAR  604 (913)
T ss_pred             HhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCC-cchhHHHHHHHHHHhcCCcHHHH
Confidence            7777777777777777665 444555666665555666777777777777666422 24455555556666667777777


Q ss_pred             HHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 012804          238 EILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQG  317 (456)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  317 (456)
                      .++..+.+.. +-+...+-..+.......+++.|..+|.+....  .|+..+|..-+....-.++.++|.+++++..+. 
T Consensus       605 ~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-  680 (913)
T KOG0495|consen  605 VILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS-  680 (913)
T ss_pred             HHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-
Confidence            7777777664 445566666666666777777777777776653  456666666666666667777777777766654 


Q ss_pred             CCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHH
Q 012804          318 FECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSM  394 (456)
Q Consensus       318 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l  394 (456)
                      ++.-...|..+.+.+-+.++.+.|...|..-.+. .+..+..|..|...-.+.|.+-.|..++++..-+   +...|...
T Consensus       681 fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~  759 (913)
T KOG0495|consen  681 FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLES  759 (913)
T ss_pred             CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHH
Confidence            2222445666666666667777776666655443 2334555666666666666666677776665544   55566666


Q ss_pred             HHHHHccCChhHHHHHHHHHHHcC-----------------------------CCCCHHhHHHHHHHHHccCChHHHHHH
Q 012804          395 VHNLCKAKRLPSASKLLLSCLKSG-----------------------------VRILKSAQKAVVDGLRHSGCRREAKKI  445 (456)
Q Consensus       395 ~~~~~~~~~~~~A~~~~~~~~~~~-----------------------------~~~~~~~~~~l~~~~~~~g~~~~A~~~  445 (456)
                      ++.-.+.|+.+.|..+.-++++.-                             ..-|+..+..+...+....+++.|+.+
T Consensus       760 Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~W  839 (913)
T KOG0495|consen  760 IRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREW  839 (913)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666665555543321                             123455666677778888889999999


Q ss_pred             HHHHHhcccC
Q 012804          446 QSKIRMAKIS  455 (456)
Q Consensus       446 ~~~~~~~~~~  455 (456)
                      |++.....+.
T Consensus       840 f~Ravk~d~d  849 (913)
T KOG0495|consen  840 FERAVKKDPD  849 (913)
T ss_pred             HHHHHccCCc
Confidence            9998776543

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

Probab=99.83  E-value=1e-14  Score=131.56  Aligned_cols=441  Identities=14%  Similarity=0.084  Sum_probs=282.4

Q ss_pred             hHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 012804            7 TRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAG   86 (456)
Q Consensus         7 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   86 (456)
                      ....-...+.+...|++++|.+++.+.++..+. +...|..|..+|-+.|+.+++...+-.+...+ +.|...|..+...
T Consensus       139 l~~ll~eAN~lfarg~~eeA~~i~~EvIkqdp~-~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladl  216 (895)
T KOG2076|consen  139 LRQLLGEANNLFARGDLEEAEEILMEVIKQDPR-NPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADL  216 (895)
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHH
Confidence            334444455566679999999999999998754 88899999999999999999998887766654 4467888889999


Q ss_pred             HHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHH----HHHHHHHhcCC
Q 012804           87 ATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFN----IMLNGLCKNRY  162 (456)
Q Consensus        87 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~~~  162 (456)
                      ..+.|.+..|.-.|.+.++..++ +...+---+..|-+.|+...|.+.|.++.....+.|..-+.    .++..+...++
T Consensus       217 s~~~~~i~qA~~cy~rAI~~~p~-n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~  295 (895)
T KOG2076|consen  217 SEQLGNINQARYCYSRAIQANPS-NWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNE  295 (895)
T ss_pred             HHhcccHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhH
Confidence            99999999999999999987533 55555667788999999999999999998775333332222    23455666777


Q ss_pred             hHHHHHHHHHHHhC-CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCC---------------------------CC
Q 012804          163 TDNALRMFRGLQKH-GFVPELVTYNILIKGLCKAGRLRTARWILKELGDSG---------------------------HA  214 (456)
Q Consensus       163 ~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------------------------~~  214 (456)
                      -+.|.+.++..... +-..+...++.++..+.+...++.+...........                           ..
T Consensus       296 ~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s  375 (895)
T KOG2076|consen  296 RERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELS  375 (895)
T ss_pred             HHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCC
Confidence            78888888887662 223455677788888888888888887776665411                           11


Q ss_pred             CCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcC--CCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHH
Q 012804          215 PNAITYTTIMKCCFRNRKYKLGLEILSAMKRKG--YTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNT  292 (456)
Q Consensus       215 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  292 (456)
                      ++..+ -.++-++......+....+...+....  +..+...|..+..++...|++.+|..++..+......-+...|..
T Consensus       376 ~~l~v-~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~  454 (895)
T KOG2076|consen  376 YDLRV-IRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYK  454 (895)
T ss_pred             ccchh-HhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHH
Confidence            11111 112223333344444444444444444  223345566666677777777777777777766544445566677


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHH--------hCCCCCCHHHHHHHH
Q 012804          293 LINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMN--------KIGFDSNLEAYNCIV  364 (456)
Q Consensus       293 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~  364 (456)
                      +..+|...|.++.|.+.++...... +-+...-..|...+.+.|+.++|.+.+..+.        ..+..|+........
T Consensus       455 ~a~c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~  533 (895)
T KOG2076|consen  455 LARCYMELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRC  533 (895)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHH
Confidence            7777777777777777777666542 1234445555566666777777776666643        112334433333344


Q ss_pred             HHHHhCCCHHHHHHHHHHhcc----------------------------------------C------------------
Q 012804          365 DRLGKDGKIDHAINVFESMEV----------------------------------------K------------------  386 (456)
Q Consensus       365 ~~~~~~g~~~~a~~~~~~~~~----------------------------------------~------------------  386 (456)
                      ..+...|+.++-+.+-..+..                                        +                  
T Consensus       534 d~l~~~gk~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~  613 (895)
T KOG2076|consen  534 DILFQVGKREEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFR  613 (895)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhh
Confidence            444444443332111110000                                        0                  


Q ss_pred             -------Ch----hhHHHHHHHHHccCChhHHHHHHHHHHHcC-CCCCHH----hHHHHHHHHHccCChHHHHHHHHHHH
Q 012804          387 -------DS----FTYSSMVHNLCKAKRLPSASKLLLSCLKSG-VRILKS----AQKAVVDGLRHSGCRREAKKIQSKIR  450 (456)
Q Consensus       387 -------~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~  450 (456)
                             +.    ..+..++.++.+.+++++|+.+...+.+.. +.-+..    .-...+.+....+++..|...+..+.
T Consensus       614 ~~e~~~Lsiddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i  693 (895)
T KOG2076|consen  614 AVELRGLSIDDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVI  693 (895)
T ss_pred             hhhhccCcHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence                   11    123456677788889999998888887652 111222    22345567778889999988888776


Q ss_pred             hc
Q 012804          451 MA  452 (456)
Q Consensus       451 ~~  452 (456)
                      ..
T Consensus       694 ~~  695 (895)
T KOG2076|consen  694 TQ  695 (895)
T ss_pred             HH
Confidence            54

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

Probab=99.81  E-value=6.9e-16  Score=128.62  Aligned_cols=402  Identities=12%  Similarity=0.043  Sum_probs=276.4

Q ss_pred             HHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHH-HHHHHHHHcCCChhHHHHHHHHHHHCCCCCC----HHhHHHHHHH
Q 012804           47 MLIDAYCQFVSFDAGYTILNRMREAGISPDVVTY-NSLIAGATRNSLLSCSLDLLDEMLEMGIPPD----VWSYNSLMHC  121 (456)
Q Consensus        47 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~  121 (456)
                      .+..-|.-+....+|+..|+-+.+...-|+.... ..+...+.+...+.+|+++++-.+..-+..+    ....+.+.-.
T Consensus       206 nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvt  285 (840)
T KOG2003|consen  206 NLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVT  285 (840)
T ss_pred             HHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCee
Confidence            3444555566677888888888776655665433 2345667888999999999988877533223    2344555556


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC------------CcHHHHHHHH
Q 012804          122 LFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFV------------PELVTYNILI  189 (456)
Q Consensus       122 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------------~~~~~~~~l~  189 (456)
                      +.+.|.++.|+..|+...+.  .|+-.+-..|+-++...|+-++..+.|.+|......            |+....+..+
T Consensus       286 fiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai  363 (840)
T KOG2003|consen  286 FIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAI  363 (840)
T ss_pred             EEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHH
Confidence            88999999999999998876  577666666777777889999999999999765222            3333333322


Q ss_pred             H-----HHHHcC--CHHHHHHHHHHHhhCCCCCCHHH-------------H--------HHHHHHHHhcCchhHHHHHHH
Q 012804          190 K-----GLCKAG--RLRTARWILKELGDSGHAPNAIT-------------Y--------TTIMKCCFRNRKYKLGLEILS  241 (456)
Q Consensus       190 ~-----~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~-------------~--------~~l~~~~~~~~~~~~a~~~~~  241 (456)
                      .     -.-+.+  +.++++-.-..+...-+.|+...             +        ..-..-+.+.|+++.|.+++.
T Consensus       364 ~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieilk  443 (840)
T KOG2003|consen  364 KNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEILK  443 (840)
T ss_pred             hhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHHH
Confidence            1     111111  12222222222222112222100             0        011345789999999999998


Q ss_pred             HHHHcCCCcChhhHHHH-----H-------------------------------HHHHHcCChHHHHHHHHHHHHCCCcc
Q 012804          242 AMKRKGYTFDGFGYCTV-----I-------------------------------AAFVKIGRLKEATDYMEQMVTDGVQL  285 (456)
Q Consensus       242 ~~~~~~~~~~~~~~~~l-----~-------------------------------~~~~~~~~~~~a~~~~~~~~~~~~~~  285 (456)
                      -+.+.+...-...-+.+     +                               ......|++++|...+++.+..+..-
T Consensus       444 v~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc  523 (840)
T KOG2003|consen  444 VFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASC  523 (840)
T ss_pred             HHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHH
Confidence            88765422111111111     0                               00112478899999999888764332


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 012804          286 DIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVD  365 (456)
Q Consensus       286 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  365 (456)
                      ....|+ +.-.+-..|+.++|++.|-.+... +..+..++..+...|....+..+|++++.+.... ++.|+.+++.|..
T Consensus       524 ~ealfn-iglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl~d  600 (840)
T KOG2003|consen  524 TEALFN-IGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKLAD  600 (840)
T ss_pred             HHHHHH-hcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHHH
Confidence            223333 344567889999999999887654 2347788889999999999999999999998776 6788999999999


Q ss_pred             HHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHH-HHHccCChHH
Q 012804          366 RLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVD-GLRHSGCRRE  441 (456)
Q Consensus       366 ~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~g~~~~  441 (456)
                      .|-+.|+-..|.+..-..-.-   +..+..-|...|....-+++|+.+|+++.  -++|+.+-|..++. ++++.|+++.
T Consensus       601 lydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaa--liqp~~~kwqlmiasc~rrsgnyqk  678 (840)
T KOG2003|consen  601 LYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAA--LIQPNQSKWQLMIASCFRRSGNYQK  678 (840)
T ss_pred             HhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH--hcCccHHHHHHHHHHHHHhcccHHH
Confidence            999999999998876544333   77888888888999999999999999985  46899999997765 5577999999


Q ss_pred             HHHHHHHHHhcccC
Q 012804          442 AKKIQSKIRMAKIS  455 (456)
Q Consensus       442 A~~~~~~~~~~~~~  455 (456)
                      |..+++.+.+.-+.
T Consensus       679 a~d~yk~~hrkfpe  692 (840)
T KOG2003|consen  679 AFDLYKDIHRKFPE  692 (840)
T ss_pred             HHHHHHHHHHhCcc
Confidence            99999999886553

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

Probab=99.79  E-value=1.7e-14  Score=130.13  Aligned_cols=186  Identities=11%  Similarity=0.035  Sum_probs=82.6

Q ss_pred             CChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHH
Q 012804           56 VSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVF  135 (456)
Q Consensus        56 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  135 (456)
                      |++++|.+++.++.+.. +.+...|..|...|-..|+.+++...+-..-...+ .|...|..+.....+.|.+++|.-+|
T Consensus       153 g~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p-~d~e~W~~ladls~~~~~i~qA~~cy  230 (895)
T KOG2076|consen  153 GDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNP-KDYELWKRLADLSEQLGNINQARYCY  230 (895)
T ss_pred             CCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCC-CChHHHHHHHHHHHhcccHHHHHHHH
Confidence            55555555555555442 23444455555555555555555544433332222 13344555555555555555555555


Q ss_pred             HHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHH----HHHHHHHHHcCCHHHHHHHHHHHhhC
Q 012804          136 QDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTY----NILIKGLCKAGRLRTARWILKELGDS  211 (456)
Q Consensus       136 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~  211 (456)
                      .+.++.. +++....-.-...|-+.|+...|...|.++.....+.+..-+    ...+..+...++.+.|.+.++.....
T Consensus       231 ~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~  309 (895)
T KOG2076|consen  231 SRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSK  309 (895)
T ss_pred             HHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhh
Confidence            5555444 333333333444455555555555555555444211111111    11233334444444454444443331


Q ss_pred             -CCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHH
Q 012804          212 -GHAPNAITYTTIMKCCFRNRKYKLGLEILSAMK  244 (456)
Q Consensus       212 -~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  244 (456)
                       +-..+...++.++..+.+...++.+........
T Consensus       310 ~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~  343 (895)
T KOG2076|consen  310 EKDEASLEDLNILAELFLKNKQSDKALMKIVDDR  343 (895)
T ss_pred             ccccccccHHHHHHHHHHHhHHHHHhhHHHHHHh
Confidence             111233344444455555555555554444443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.78  E-value=3.6e-15  Score=132.22  Aligned_cols=280  Identities=12%  Similarity=0.024  Sum_probs=185.3

Q ss_pred             cCChHHHHHHHHHHHhCCCCCcHHHHHH-HHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHH--HHHHHHHHhcCchhHH
Q 012804          160 NRYTDNALRMFRGLQKHGFVPELVTYNI-LIKGLCKAGRLRTARWILKELGDSGHAPNAITY--TTIMKCCFRNRKYKLG  236 (456)
Q Consensus       160 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~~a  236 (456)
                      .|+++.|.+.+....+..  +++..+.. ...+....|+++.|...+.++.+.  .|+....  ......+...|+++.|
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHH
Confidence            577777776666654431  12222222 234446777777777777777653  2333222  2335566777777777


Q ss_pred             HHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCH-------HHHHHHHHHHHhcCCHHHHHHH
Q 012804          237 LEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDI-------VSYNTLINLYCKEGKLEAAYLL  309 (456)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~  309 (456)
                      ...++.+.+.. |-++.....+...|.+.|++++|.+++..+.+.+..++.       ..|..++.......+.+...++
T Consensus       173 l~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~  251 (398)
T PRK10747        173 RHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRW  251 (398)
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            77777777665 556667777777777777777777777777776443222       1222333333344455666666


Q ss_pred             HHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---
Q 012804          310 LDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---  386 (456)
Q Consensus       310 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---  386 (456)
                      ++.+.+. .+.+......+...+...|+.++|...+++..+.  +|+.....  +.+....++.+++.+..++..+.   
T Consensus       252 w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~~--l~~~l~~~~~~~al~~~e~~lk~~P~  326 (398)
T PRK10747        252 WKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLVL--LIPRLKTNNPEQLEKVLRQQIKQHGD  326 (398)
T ss_pred             HHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHH--HHhhccCCChHHHHHHHHHHHhhCCC
Confidence            6666443 2346677778888888888888888888888774  55553322  22334558888888888877665   


Q ss_pred             ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHh
Q 012804          387 DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       387 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      |+..+..++..+.+.+++++|.+.|+++.+.  .|+..++..+..++.+.|+.++|..++++-..
T Consensus       327 ~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        327 TPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            6677788888888888888888888888855  57888888888888888888888888887643

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

Probab=99.78  E-value=1.9e-13  Score=114.42  Aligned_cols=357  Identities=11%  Similarity=0.046  Sum_probs=249.2

Q ss_pred             CHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHH--HHH
Q 012804           76 DVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATF--NIM  153 (456)
Q Consensus        76 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l  153 (456)
                      |...+-.....+.+.|..+.|++.|...... .|-.-..|..|...   ..+.+.+    ..+.. +.+.+..-+  -.+
T Consensus       163 D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~-~P~~W~AWleL~~l---it~~e~~----~~l~~-~l~~~~h~M~~~F~  233 (559)
T KOG1155|consen  163 DEFLLYLYGVVLKELGLLSLAIDSFVEVVNR-YPWFWSAWLELSEL---ITDIEIL----SILVV-GLPSDMHWMKKFFL  233 (559)
T ss_pred             hhHHHHHHHHHHHhhchHHHHHHHHHHHHhc-CCcchHHHHHHHHh---hchHHHH----HHHHh-cCcccchHHHHHHH
Confidence            4433334444455667777777777666543 12222233332222   2222222    22221 112221111  123


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCC--CCHHHHHHHHHHHHhcC
Q 012804          154 LNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHA--PNAITYTTIMKCCFRNR  231 (456)
Q Consensus       154 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~  231 (456)
                      ..++....+.+++..-.+...+.|++.+...-+....+.....++++|+.+|+.+.+..+-  -|..+|+.++-.  +..
T Consensus       234 ~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv--~~~  311 (559)
T KOG1155|consen  234 KKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYV--KND  311 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHH--Hhh
Confidence            4566666788888888888888888777766666777778888999999999999886321  255667666533  222


Q ss_pred             chhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 012804          232 KYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLD  311 (456)
Q Consensus       232 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  311 (456)
                      +- +..-+.......+ +.-+.|...+..-|+-.++.++|...|+..++.++. ....|+.+..-|....+...|.+.++
T Consensus       312 ~s-kLs~LA~~v~~id-KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYR  388 (559)
T KOG1155|consen  312 KS-KLSYLAQNVSNID-KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYR  388 (559)
T ss_pred             hH-HHHHHHHHHHHhc-cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHH
Confidence            21 1111222222222 444567778888899999999999999999998655 67789999999999999999999999


Q ss_pred             HHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---Ch
Q 012804          312 EMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DS  388 (456)
Q Consensus       312 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~  388 (456)
                      ..++.++ .|-..|-.|.++|.-.+.+.-|+-+|+++.... |.|...|..|+.+|.+.++.++|++.|.++...   +.
T Consensus       389 rAvdi~p-~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~  466 (559)
T KOG1155|consen  389 RAVDINP-RDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEG  466 (559)
T ss_pred             HHHhcCc-hhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccch
Confidence            9998753 388899999999999999999999999999874 778999999999999999999999999998876   45


Q ss_pred             hhHHHHHHHHHccCChhHHHHHHHHHHHc----CCCCCHH---hHHHHHHHHHccCChHHHHHHHHHH
Q 012804          389 FTYSSMVHNLCKAKRLPSASKLLLSCLKS----GVRILKS---AQKAVVDGLRHSGCRREAKKIQSKI  449 (456)
Q Consensus       389 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~  449 (456)
                      ..+..++..|-+.++.++|...|++.++.    |.. ++.   +...|..-+.+.+++++|..+..+.
T Consensus       467 ~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~-~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~  533 (559)
T KOG1155|consen  467 SALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEI-DDETIKARLFLAEYFKKMKDFDEASYYATLV  533 (559)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhccc-chHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            78999999999999999999999998763    322 332   2233555567777877776654443

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

Probab=99.77  E-value=4.3e-18  Score=144.34  Aligned_cols=259  Identities=17%  Similarity=0.131  Sum_probs=110.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHhhCC-CCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHc
Q 012804          187 ILIKGLCKAGRLRTARWILKELGDSG-HAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKI  265 (456)
Q Consensus       187 ~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  265 (456)
                      .+...+.+.|++++|+++++...... .+.+...|..+...+...++++.|...++++...+ +.++..+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccc
Confidence            44677788888888888886544433 23345555556667777888999999999888775 3456667777766 688


Q ss_pred             CChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCcCHHhHHHHHHHHHhcCCHHHHHHH
Q 012804          266 GRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQG-FECDKYTHTILIDGLCKAGNIKGARLH  344 (456)
Q Consensus       266 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~  344 (456)
                      +++++|.+++....+.  .+++..+..++..+...++++++..+++.+.... .+.+...|..+...+.+.|+.++|...
T Consensus        91 ~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             cccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            8999999888776654  3466777788888999999999999999987532 345677788888889999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCC
Q 012804          345 LEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRI  421 (456)
Q Consensus       345 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  421 (456)
                      ++++++.. |.|......++..+...|+.+++.+++......   ++..|..++.++...|++++|+..+++..+..+ .
T Consensus       169 ~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p-~  246 (280)
T PF13429_consen  169 YRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNP-D  246 (280)
T ss_dssp             HHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHST-T
T ss_pred             HHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccc-c
Confidence            99998873 556888889999999999999877777665544   788889999999999999999999999988753 3


Q ss_pred             CHHhHHHHHHHHHccCChHHHHHHHHHHHh
Q 012804          422 LKSAQKAVVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       422 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      |+.+...++.++...|+.++|..+..++-+
T Consensus       247 d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  247 DPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             -HHHHHHHHHHHT-----------------
T ss_pred             cccccccccccccccccccccccccccccc
Confidence            889999999999999999999998877643

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

Probab=99.77  E-value=2.6e-14  Score=120.26  Aligned_cols=217  Identities=14%  Similarity=0.055  Sum_probs=119.5

Q ss_pred             hcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHH
Q 012804          229 RNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYL  308 (456)
Q Consensus       229 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  308 (456)
                      -.|+.-.+..-|+..+..... +...|-.+..+|....+.++....|++..+.++. ++.+|..-.+.+.-.+++++|..
T Consensus       338 L~g~~~~a~~d~~~~I~l~~~-~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~a  415 (606)
T KOG0547|consen  338 LKGDSLGAQEDFDAAIKLDPA-FNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIA  415 (606)
T ss_pred             hcCCchhhhhhHHHHHhcCcc-cchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHH
Confidence            345556666666666655422 2222444555566666666666666666665433 45555555555555666666666


Q ss_pred             HHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC--
Q 012804          309 LLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK--  386 (456)
Q Consensus       309 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--  386 (456)
                      =|++.+..... +...|..+.-+..+.+.+++++..|++.+++ +|.-+++|+.....+...++++.|.+.|+.++..  
T Consensus       416 DF~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~  493 (606)
T KOG0547|consen  416 DFQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEP  493 (606)
T ss_pred             HHHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhcc
Confidence            66666654221 3444555555555666666666666666554 4555566666666666666666666666655544  


Q ss_pred             -------ChhhHHHHHH-HHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHH
Q 012804          387 -------DSFTYSSMVH-NLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIR  450 (456)
Q Consensus       387 -------~~~~~~~l~~-~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  450 (456)
                             ++..+..-.- .+.-.+++..|+.++.++++.+++ ....+..++..-.+.|+.++|+++|++..
T Consensus       494 ~~~~~~v~~~plV~Ka~l~~qwk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  494 REHLIIVNAAPLVHKALLVLQWKEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             ccccccccchhhhhhhHhhhchhhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence                   1111111000 111235666666666666655443 44555666666666666666666666543

>TIGR00540 hemY_coli hemY protein

Probab=99.77  E-value=5.7e-15  Score=131.70  Aligned_cols=287  Identities=10%  Similarity=0.013  Sum_probs=162.7

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCc-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHH
Q 012804          159 KNRYTDNALRMFRGLQKHGFVPE-LVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGL  237 (456)
Q Consensus       159 ~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  237 (456)
                      ..|+++.|.+.+.+..+.  .|+ ...+-....+....|+++.|...+.+..+....+...........+...|+++.|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            356666666666555544  222 22223334555566666666666666554322222222233355556666666666


Q ss_pred             HHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHH-HHHH---HHHhcCCHHHHHHHHHHH
Q 012804          238 EILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYN-TLIN---LYCKEGKLEAAYLLLDEM  313 (456)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~---~~~~~~~~~~a~~~~~~~  313 (456)
                      ..++.+.+.. |-++.....+...+...|++++|.+.+..+.+.+.. +...+. .-..   .....+..++..+.+..+
T Consensus       174 ~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~  251 (409)
T TIGR00540       174 HGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLNW  251 (409)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            6666666664 445556666666666666666666666666665433 222221 1111   112222222223344333


Q ss_pred             HHcCC---CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH--HHHhCCCHHHHHHHHHHhccC--
Q 012804          314 EKQGF---ECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVD--RLGKDGKIDHAINVFESMEVK--  386 (456)
Q Consensus       314 ~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~g~~~~a~~~~~~~~~~--  386 (456)
                      .....   +.+...+..++..+...|+.++|...+++..+.. +++......++.  .....++.+.+.+.+++..+.  
T Consensus       252 ~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~-pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p  330 (409)
T TIGR00540       252 WKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL-GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVD  330 (409)
T ss_pred             HHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC-CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCC
Confidence            33211   1256666677777777777777777777777652 222211001111  223346667777777666554  


Q ss_pred             -Ch--hhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHH
Q 012804          387 -DS--FTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIR  450 (456)
Q Consensus       387 -~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  450 (456)
                       ++  ....++++.+.+.|++++|.+.|++.......|++.++..++..+.+.|+.++|.+++++..
T Consensus       331 ~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       331 DKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             CChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence             55  56667888888888888888888854333446777777788888888888888888888753

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.

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.76  E-value=1.6e-14  Score=128.10  Aligned_cols=284  Identities=11%  Similarity=0.047  Sum_probs=218.5

Q ss_pred             cCChhHHHHHHHHHHhCCCCCCHhH-HHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhH--HHHHHHHHhcCChhHH
Q 012804           55 FVSFDAGYTILNRMREAGISPDVVT-YNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSY--NSLMHCLFQLGKPDEA  131 (456)
Q Consensus        55 ~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~~a  131 (456)
                      .|+++.|.+.+....+..  +++.. |........+.|+++.+.+.+.++.+..  |+....  ......+...|++++|
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~--~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAELA--DNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHCCCHHHH
Confidence            699999998888766542  23333 3333555588999999999999998753  444322  2446788899999999


Q ss_pred             HHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcH-------HHHHHHHHHHHHcCCHHHHHHH
Q 012804          132 NRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPEL-------VTYNILIKGLCKAGRLRTARWI  204 (456)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~  204 (456)
                      .+.++++.+.. |.+......+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...++
T Consensus       173 l~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~  251 (398)
T PRK10747        173 RHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRW  251 (398)
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            99999998876 667788888899999999999999999999887654322       2344445555555666777777


Q ss_pred             HHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCc
Q 012804          205 LKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQ  284 (456)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  284 (456)
                      ++.+... .+.++.....+...+...|+.++|...+++..+.  ++++...  ++.+....++.+++.+..+...+..+.
T Consensus       252 w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~  326 (398)
T PRK10747        252 WKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGD  326 (398)
T ss_pred             HHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCC
Confidence            7766543 2347788888999999999999999999998874  5555322  233344568999999999999887543


Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 012804          285 LDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKI  351 (456)
Q Consensus       285 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  351 (456)
                       |+..+..+...+.+.+++++|.+.|+...+.  .|+...+..+...+.+.|+.++|..++++....
T Consensus       327 -~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~  390 (398)
T PRK10747        327 -TPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLML  390 (398)
T ss_pred             -CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence             7788889999999999999999999999885  688888899999999999999999999987643

>TIGR00540 hemY_coli hemY protein

Probab=99.75  E-value=3.1e-14  Score=127.04  Aligned_cols=289  Identities=10%  Similarity=-0.007  Sum_probs=169.0

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCC-HHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCh--hHHHHHHHHHHhcCChHH
Q 012804           89 RNSLLSCSLDLLDEMLEMGIPPD-VWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCT--ATFNIMLNGLCKNRYTDN  165 (456)
Q Consensus        89 ~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~  165 (456)
                      ..|+++.|.+.+.+..+..  |+ ...+......+...|+++.|.+.+.+..+..  |+.  .........+...|+++.
T Consensus        96 ~~g~~~~A~~~l~~~~~~~--~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~  171 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHA--AEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHA  171 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHH
Confidence            4677777777776665543  33 2233344555666677777777777765442  332  223334566666777777


Q ss_pred             HHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHH-HHHHHH---HhcCchhHHHHHHH
Q 012804          166 ALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYT-TIMKCC---FRNRKYKLGLEILS  241 (456)
Q Consensus       166 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~---~~~~~~~~a~~~~~  241 (456)
                      |...++.+.+.. |-+...+..+...+...|++++|.+.+..+.+.+.. +...+. .-..++   ...+..+.+...+.
T Consensus       172 Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~  249 (409)
T TIGR00540       172 ARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLL  249 (409)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHH
Confidence            777777777663 335566666777777777777777777777766543 222221 111111   22222222333444


Q ss_pred             HHHHcCC---CcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 012804          242 AMKRKGY---TFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVS-YNTLINLYCKEGKLEAAYLLLDEMEKQG  317 (456)
Q Consensus       242 ~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~  317 (456)
                      .+.+...   +.+...+..+...+...|+.++|.+.+++..+..+...... ...........++.+.+.+.++...+..
T Consensus       250 ~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~  329 (409)
T TIGR00540       250 NWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNV  329 (409)
T ss_pred             HHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhC
Confidence            4443321   23666667777777777888888877777777533221111 1111112233466777777777766542


Q ss_pred             CCcCH--HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhc
Q 012804          318 FECDK--YTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESME  384 (456)
Q Consensus       318 ~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  384 (456)
                       +-+.  .....+...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.++|++..
T Consensus       330 -p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       330 -DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             -CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence             1233  45567777778888888888888853333346777777778888888888888888887654

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.

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

Probab=99.75  E-value=1.2e-17  Score=141.68  Aligned_cols=258  Identities=14%  Similarity=0.096  Sum_probs=63.1

Q ss_pred             HHHHHccCChhHHHHHHHHHHhCC-CCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCC
Q 012804           49 IDAYCQFVSFDAGYTILNRMREAG-ISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGK  127 (456)
Q Consensus        49 ~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  127 (456)
                      ...+.+.|++++|+++++...... .+.++..|..+.......++++.|.+.++++...+.. ++..+..++.. ...++
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~   92 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGD   92 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccccc
Confidence            444444444444444443322221 1112222333333334444444454444444443322 23333333333 34444


Q ss_pred             hhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCCcHHHHHHHHHHHHHcCCHHHHHHHHH
Q 012804          128 PDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHG-FVPELVTYNILIKGLCKAGRLRTARWILK  206 (456)
Q Consensus       128 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  206 (456)
                      +++|.++++...+.  .++...+..++..+...++++++.++++.+.... .+++...|..+...+.+.|+.++|...++
T Consensus        93 ~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~  170 (280)
T PF13429_consen   93 PEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYR  170 (280)
T ss_dssp             ---------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHH
T ss_pred             cccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            45554444443322  2233334444444444555555555544443321 12334444444455555555555555555


Q ss_pred             HHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccC
Q 012804          207 ELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLD  286 (456)
Q Consensus       207 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  286 (456)
                      +..+..+. +......++..+...|+.+++.+++....+.. +.++..+..+..++...|+.++|..++++..+.+ +.|
T Consensus       171 ~al~~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d  247 (280)
T PF13429_consen  171 KALELDPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDD  247 (280)
T ss_dssp             HHHHH-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-
T ss_pred             HHHHcCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-ccc
Confidence            54443221 34444445555555555555555555444443 3344444455555555555555555555555432 224


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 012804          287 IVSYNTLINLYCKEGKLEAAYLLLDEM  313 (456)
Q Consensus       287 ~~~~~~l~~~~~~~~~~~~a~~~~~~~  313 (456)
                      +.....+..++...|+.++|..+..++
T Consensus       248 ~~~~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  248 PLWLLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             HHHHHHHHHHHT---------------
T ss_pred             ccccccccccccccccccccccccccc
Confidence            555555555555555555555554443

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

Probab=99.73  E-value=1.2e-12  Score=112.56  Aligned_cols=441  Identities=12%  Similarity=0.031  Sum_probs=312.1

Q ss_pred             CCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHH
Q 012804            4 KLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSL   83 (456)
Q Consensus         4 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   83 (456)
                      ..+..-+..+++-+..+.++..|.-+-++....+  .++..-.-+.+++.-.|++..|..++..-.-.  ..|..+....
T Consensus        13 ~~s~~~~~~~~r~~l~q~~y~~a~f~adkV~~l~--~dp~d~~~~aq~l~~~~~y~ra~~lit~~~le--~~d~~cryL~   88 (611)
T KOG1173|consen   13 ELSLEKYRRLVRDALMQHRYKTALFWADKVAGLT--NDPADIYWLAQVLYLGRQYERAAHLITTYKLE--KRDIACRYLA   88 (611)
T ss_pred             cccHHHHHHHHHHHHHHHhhhHHHHHHHHHHhcc--CChHHHHHHHHHHHhhhHHHHHHHHHHHhhhh--hhhHHHHHHH
Confidence            3466778888888889999999999999887665  45555566788888888899888887665432  4578888888


Q ss_pred             HHHHHcCCChhHHHHHHHHH----HHC---------CCCCCHHh----HHHHH-------HHHHhcCChhHHHHHHHHHH
Q 012804           84 IAGATRNSLLSCSLDLLDEM----LEM---------GIPPDVWS----YNSLM-------HCLFQLGKPDEANRVFQDMI  139 (456)
Q Consensus        84 ~~~~~~~~~~~~a~~~~~~~----~~~---------~~~~~~~~----~~~l~-------~~~~~~~~~~~a~~~~~~~~  139 (456)
                      ..++.+..+++.|..++..-    ..-         -+.+|..-    -+.-.       ..|....+.++|...|.+..
T Consensus        89 ~~~l~~lk~~~~al~vl~~~~~~~~~f~yy~~~~~~~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al  168 (611)
T KOG1173|consen   89 AKCLVKLKEWDQALLVLGRGHVETNPFSYYEKDAANTLELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEAL  168 (611)
T ss_pred             HHHHHHHHHHHHHHHHhcccchhhcchhhcchhhhceeccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHH
Confidence            88899999999999988722    110         01111111    01111       23444456677777777666


Q ss_pred             hCCCCCChhHHHHHHHHHH-----------------hcC-ChHHHHHHHHHHHh----------------CCCCCcHHHH
Q 012804          140 CGDLTPCTATFNIMLNGLC-----------------KNR-YTDNALRMFRGLQK----------------HGFVPELVTY  185 (456)
Q Consensus       140 ~~~~~~~~~~~~~l~~~~~-----------------~~~-~~~~a~~~~~~~~~----------------~~~~~~~~~~  185 (456)
                      ..++ ..-..+..++....                 -.+ +.+.-..+|+-...                .+..-+....
T Consensus       169 ~~D~-~c~Ea~~~lvs~~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dll  247 (611)
T KOG1173|consen  169 LADA-KCFEAFEKLVSAHMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLDLL  247 (611)
T ss_pred             hcch-hhHHHHHHHHHHHhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHHHH
Confidence            4331 11111211211111                 001 11111122221100                0122244445


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHc
Q 012804          186 NILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKI  265 (456)
Q Consensus       186 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  265 (456)
                      .....-+...+++.+..++.+.+.+..+ +....+..-|.++...|+..+-..+-.++.+.. |..+.+|-.+..-|...
T Consensus       248 ~~~ad~~y~~c~f~~c~kit~~lle~dp-fh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i  325 (611)
T KOG1173|consen  248 AEKADRLYYGCRFKECLKITEELLEKDP-FHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLMI  325 (611)
T ss_pred             HHHHHHHHHcChHHHHHHHhHHHHhhCC-CCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHHh
Confidence            5556667788899999999998877533 355555555668888888888877777777764 77788899999999999


Q ss_pred             CChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHH
Q 012804          266 GRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHL  345 (456)
Q Consensus       266 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  345 (456)
                      |...+|++.|.+....+.. =...|......|+-.|..++|+..+...-+.- +-...-+..+..-|.+.++.+.|.++|
T Consensus       326 ~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t~n~kLAe~Ff  403 (611)
T KOG1173|consen  326 GKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRTNNLKLAEKFF  403 (611)
T ss_pred             cCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHhccHHHHHHHH
Confidence            9999999999998876433 34568889999999999999999998887641 112223344555688899999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC----------ChhhHHHHHHHHHccCChhHHHHHHHHHH
Q 012804          346 EYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK----------DSFTYSSMVHNLCKAKRLPSASKLLLSCL  415 (456)
Q Consensus       346 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  415 (456)
                      .++.... |.|+.+.+.+.-.....+.+.+|..+|+.....          -..+++.|+.+|.+.+.+++|+..+++.+
T Consensus       404 ~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL  482 (611)
T KOG1173|consen  404 KQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKAL  482 (611)
T ss_pred             HHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHH
Confidence            9998763 777888888888888899999999999987643          23458889999999999999999999999


Q ss_pred             HcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhcccC
Q 012804          416 KSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKIS  455 (456)
Q Consensus       416 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  455 (456)
                      ...++ +..++.+++-.|...|+++.|...|.+....++.
T Consensus       483 ~l~~k-~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~  521 (611)
T KOG1173|consen  483 LLSPK-DASTHASIGYIYHLLGNLDKAIDHFHKALALKPD  521 (611)
T ss_pred             HcCCC-chhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCc
Confidence            88654 9999999999999999999999999998776654

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

Probab=99.73  E-value=1.7e-12  Score=108.81  Aligned_cols=381  Identities=13%  Similarity=0.025  Sum_probs=269.4

Q ss_pred             CCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHh--H
Q 012804           38 VLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWS--Y  115 (456)
Q Consensus        38 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~  115 (456)
                      ...|...+-.....+.+.|....|+..|...... .+-.-.+|..|....       .-++....+... .+.|...  -
T Consensus       160 ~~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~-~P~~W~AWleL~~li-------t~~e~~~~l~~~-l~~~~h~M~~  230 (559)
T KOG1155|consen  160 GEKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNR-YPWFWSAWLELSELI-------TDIEILSILVVG-LPSDMHWMKK  230 (559)
T ss_pred             ccchhHHHHHHHHHHHhhchHHHHHHHHHHHHhc-CCcchHHHHHHHHhh-------chHHHHHHHHhc-CcccchHHHH
Confidence            3445555555666677778888888888777653 122333343333322       222333333322 2212111  1


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC--CCcHHHHHHHHHHHH
Q 012804          116 NSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGF--VPELVTYNILIKGLC  193 (456)
Q Consensus       116 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~  193 (456)
                      -.+..++......+++.+-.+.+.+.|.+.+...-+....+.....++++|+.+|+++.+...  -.|..+|..++..  
T Consensus       231 ~F~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv--  308 (559)
T KOG1155|consen  231 FFLKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYV--  308 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHH--
Confidence            124456666778889998889998888777666666666777788999999999999998721  1256777776643  


Q ss_pred             HcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHH
Q 012804          194 KAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATD  273 (456)
Q Consensus       194 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  273 (456)
                      +..+-.  +..+.+-...-.+-.+.|...+.+-|+-.++.++|...|++.++.+ +.....|..+.+-|....+...|..
T Consensus       309 ~~~~sk--Ls~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~  385 (559)
T KOG1155|consen  309 KNDKSK--LSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIE  385 (559)
T ss_pred             HhhhHH--HHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHH
Confidence            333222  1122211111122355677778888999999999999999999987 6677788889999999999999999


Q ss_pred             HHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 012804          274 YMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGF  353 (456)
Q Consensus       274 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  353 (456)
                      .++..++.++. |-..|-.+.++|.-.+.+.-|+-.|++..... +.|...|..|...|.+.++.++|++.|......| 
T Consensus       386 sYRrAvdi~p~-DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-  462 (559)
T KOG1155|consen  386 SYRRAVDINPR-DYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-  462 (559)
T ss_pred             HHHHHHhcCch-hHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-
Confidence            99999998554 88999999999999999999999999998863 3488899999999999999999999999999876 


Q ss_pred             CCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC-------ChhhH---HHHHHHHHccCChhHHHHHHHHHHHcCCCCCH
Q 012804          354 DSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK-------DSFTY---SSMVHNLCKAKRLPSASKLLLSCLKSGVRILK  423 (456)
Q Consensus       354 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------~~~~~---~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  423 (456)
                      ..+...+..|...|.+.++.++|...|.+..+.       ++.+.   .-|..-+.+.+++++|.........-      
T Consensus       463 dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~------  536 (559)
T KOG1155|consen  463 DTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKG------  536 (559)
T ss_pred             ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcC------
Confidence            556788999999999999999999999876652       33222   22455556677777777665554322      


Q ss_pred             HhHHHHHHHHHccCChHHHHHHHHHHHhcc
Q 012804          424 SAQKAVVDGLRHSGCRREAKKIQSKIRMAK  453 (456)
Q Consensus       424 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  453 (456)
                                  .-..++|..+++++++..
T Consensus       537 ------------~~e~eeak~LlReir~~~  554 (559)
T KOG1155|consen  537 ------------ETECEEAKALLREIRKIQ  554 (559)
T ss_pred             ------------CchHHHHHHHHHHHHHhc
Confidence                        123467777777776643

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

Probab=99.72  E-value=3.2e-13  Score=107.93  Aligned_cols=272  Identities=14%  Similarity=0.083  Sum_probs=174.9

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC-C--hhHHHHHHHHHHhcCChHHH
Q 012804           90 NSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTP-C--TATFNIMLNGLCKNRYTDNA  166 (456)
Q Consensus        90 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~--~~~~~~l~~~~~~~~~~~~a  166 (456)
                      +++.++|+++|-+|.+.+.. +..+-.+|.+.|.+.|..+.|+++-+.+.++.--+ +  ......|..-|...|-+|.|
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~-t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPE-TFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcCch-hhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            45667777777777764322 44445567777777777777777777776532111 0  12334455667777777777


Q ss_pred             HHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHH----HHHHHHHHHHhcCchhHHHHHHHH
Q 012804          167 LRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAI----TYTTIMKCCFRNRKYKLGLEILSA  242 (456)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~  242 (456)
                      +.+|..+.+.+.- -......|+..|-...+|++|++.-+++.+.+..+...    .|--+...+....+++.|..++.+
T Consensus       127 E~~f~~L~de~ef-a~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~k  205 (389)
T COG2956         127 EDIFNQLVDEGEF-AEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKK  205 (389)
T ss_pred             HHHHHHHhcchhh-hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            7777777765322 34556677777777788888887777776654443321    233455555566777888888888


Q ss_pred             HHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCH
Q 012804          243 MKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDK  322 (456)
Q Consensus       243 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  322 (456)
                      ..+.+ +.....--.+.+.....|+++.|.+.++.+.+.++..-+.+...|..+|.+.|+.++....+..+.+...  ..
T Consensus       206 Alqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~--g~  282 (389)
T COG2956         206 ALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNT--GA  282 (389)
T ss_pred             HHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccC--Cc
Confidence            77765 4444455556677778888888888888888876666667777788888888888888888888777533  33


Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 012804          323 YTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLG  368 (456)
Q Consensus       323 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  368 (456)
                      ..-..+...-....-.+.|..++.+-+..  .|+...+..++..-.
T Consensus       283 ~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l  326 (389)
T COG2956         283 DAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHL  326 (389)
T ss_pred             cHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhh
Confidence            33333433333444455666655555544  677777777777543

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

Probab=99.71  E-value=6.1e-15  Score=128.83  Aligned_cols=282  Identities=13%  Similarity=0.000  Sum_probs=207.5

Q ss_pred             ChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCC--CCCHHHHHHHHHHHHhcCchhHHHH-
Q 012804          162 YTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGH--APNAITYTTIMKCCFRNRKYKLGLE-  238 (456)
Q Consensus       162 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~-  238 (456)
                      +..+|...|.++.++ ..-.......+..+|...+++++|.++|+.+.+...  .-+...|.+.+..+-+    +-++. 
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~  408 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSY  408 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHH
Confidence            457788888886555 333456667788888888888888888888876422  1255666666544322    22232 


Q ss_pred             HHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 012804          239 ILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGF  318 (456)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  318 (456)
                      +-+.+.+.. +..+.+|..+..+|.-+++.+.|++.|++.+..+.. ...+|+.+..-+....++|.|...|+.......
T Consensus       409 Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~  486 (638)
T KOG1126|consen  409 LAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGVDP  486 (638)
T ss_pred             HHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcCCc
Confidence            333444444 667888999999999899999999999888876332 567788888888888888889888888876422


Q ss_pred             CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHH
Q 012804          319 ECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMV  395 (456)
Q Consensus       319 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~  395 (456)
                      . +-..|..+...|.+.++++.|+-.|+++.+.+ |.+......+...+.+.|+.++|+++++++...   ++..-...+
T Consensus       487 r-hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~  564 (638)
T KOG1126|consen  487 R-HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRA  564 (638)
T ss_pred             h-hhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHH
Confidence            2 34456667778888899999999999888765 556677777888888889999999999887665   666666777


Q ss_pred             HHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhcc
Q 012804          396 HNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAK  453 (456)
Q Consensus       396 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  453 (456)
                      ..+...+++++|+..++++.+.- +.+...+..++..|.+.|+.+.|..-|.-+.+..
T Consensus       565 ~il~~~~~~~eal~~LEeLk~~v-P~es~v~~llgki~k~~~~~~~Al~~f~~A~~ld  621 (638)
T KOG1126|consen  565 SILFSLGRYVEALQELEELKELV-PQESSVFALLGKIYKRLGNTDLALLHFSWALDLD  621 (638)
T ss_pred             HHHHhhcchHHHHHHHHHHHHhC-cchHHHHHHHHHHHHHHccchHHHHhhHHHhcCC
Confidence            88888889999999999887663 3356777788888999999988888776665543

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

Probab=99.71  E-value=3.3e-13  Score=111.09  Aligned_cols=282  Identities=16%  Similarity=0.141  Sum_probs=172.9

Q ss_pred             cCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHH
Q 012804          160 NRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEI  239 (456)
Q Consensus       160 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  239 (456)
                      .|++.+|++.+.+-.+.+-. ....|..-+.+-...|+.+.+-.++.++.+....++....-.........|+.+.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            46666666666666555433 23334444555566667777777666666543344555555555666667777777777


Q ss_pred             HHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCH-------HHHHHHHHHHHhcCCHHHHHHHHHH
Q 012804          240 LSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDI-------VSYNTLINLYCKEGKLEAAYLLLDE  312 (456)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~  312 (456)
                      +.++.+.+ +-++.......++|.+.|++.....++..+.+.+.-.+.       .+|..+++-....+..+.-...|+.
T Consensus       176 v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~  254 (400)
T COG3071         176 VDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            77666665 555666666677777777777777777777766544333       2344444444444444444455555


Q ss_pred             HHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---Chh
Q 012804          313 MEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSF  389 (456)
Q Consensus       313 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~  389 (456)
                      .... .+.++..-..++.-+.++|+.++|.++..+..+.+..|+   ...+ -.+.+-++...-++..+.....   ++.
T Consensus       255 ~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~---L~~~-~~~l~~~d~~~l~k~~e~~l~~h~~~p~  329 (400)
T COG3071         255 QPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR---LCRL-IPRLRPGDPEPLIKAAEKWLKQHPEDPL  329 (400)
T ss_pred             ccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh---HHHH-HhhcCCCCchHHHHHHHHHHHhCCCChh
Confidence            5433 233455566666667777777777777777776655554   1111 2334555555555555544433   667


Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHH
Q 012804          390 TYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIR  450 (456)
Q Consensus       390 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  450 (456)
                      .+.+|+..|.+.+.+.+|.+.|+.+++.  +|+..++..++.++.+.|+..+|....++..
T Consensus       330 L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         330 LLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREAL  388 (400)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            7777777777777777777777766643  6677777777777777777777777766554

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

Probab=99.71  E-value=1.2e-12  Score=110.55  Aligned_cols=393  Identities=11%  Similarity=0.036  Sum_probs=258.5

Q ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCC-HHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCC-HhHHHHHHHHH
Q 012804           10 LNICVCTFCKANRLEKAEAIIIDGIRLGVLPD-VVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPD-VVTYNSLIAGA   87 (456)
Q Consensus        10 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~   87 (456)
                      +-...+-|.++|++++|++.+..++...  |+ +.-|.....+|...|+|++..+--.+..+.  .|+ +..+..-.+++
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~l~--p~epiFYsNraAcY~~lgd~~~Vied~TkALEl--~P~Y~KAl~RRA~A~  193 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIELC--PDEPIFYSNRAACYESLGDWEKVIEDCTKALEL--NPDYVKALLRRASAH  193 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhcC--CCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhc--CcHHHHHHHHHHHHH
Confidence            3445677889999999999999998764  56 667888888899999999998888777765  344 34555555666


Q ss_pred             HcCCChhHHHHHHHHHHHC-CCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHh-CC--CCCChhHHHHHHHHHHh----
Q 012804           88 TRNSLLSCSLDLLDEMLEM-GIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMIC-GD--LTPCTATFNIMLNGLCK----  159 (456)
Q Consensus        88 ~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~--~~~~~~~~~~l~~~~~~----  159 (456)
                      -..|++.+|+.=..-..-. |+. |..+--.+=+.+-+     .|..-.++-.+ .+  +-|+.....+....+..    
T Consensus       194 E~lg~~~eal~D~tv~ci~~~F~-n~s~~~~~eR~Lkk-----~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~  267 (606)
T KOG0547|consen  194 EQLGKFDEALFDVTVLCILEGFQ-NASIEPMAERVLKK-----QAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKP  267 (606)
T ss_pred             HhhccHHHHHHhhhHHHHhhhcc-cchhHHHHHHHHHH-----HHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccc
Confidence            6677776665322221111 111 11111111111111     11111111111 11  12333222222222210    


Q ss_pred             ---------------------cC---ChHHHHHHHHHHHhC---CCCCc---------HHHHHHHHHHHHHcCCHHHHHH
Q 012804          160 ---------------------NR---YTDNALRMFRGLQKH---GFVPE---------LVTYNILIKGLCKAGRLRTARW  203 (456)
Q Consensus       160 ---------------------~~---~~~~a~~~~~~~~~~---~~~~~---------~~~~~~l~~~~~~~~~~~~a~~  203 (456)
                                           .+   .+..|...+.+-...   ....+         ..+...-...+.-.|+.-.|..
T Consensus       268 ~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~  347 (606)
T KOG0547|consen  268 LFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQE  347 (606)
T ss_pred             cccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhh
Confidence                                 01   122222222221110   00001         1111112222345678888888


Q ss_pred             HHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCC
Q 012804          204 ILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGV  283 (456)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  283 (456)
                      -|+........++. .|-.+..+|....+.++....|....+.+ +.++.+|..-.+...-.+++++|..-|++.++.++
T Consensus       348 d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~p  425 (606)
T KOG0547|consen  348 DFDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDP  425 (606)
T ss_pred             hHHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcCh
Confidence            89888876544332 27777788999999999999999999887 77888888888888889999999999999998754


Q ss_pred             ccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-----CCHH
Q 012804          284 QLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFD-----SNLE  358 (456)
Q Consensus       284 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~  358 (456)
                      . +...|..+..+..+.+.++++...|++.++. ++..+..|+.....+...++++.|.+.|+..++....     .++.
T Consensus       426 e-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~  503 (606)
T KOG0547|consen  426 E-NAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAA  503 (606)
T ss_pred             h-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccch
Confidence            4 6777878888888999999999999999987 4557889999999999999999999999998876211     1222


Q ss_pred             H--HHHHHHHHHhCCCHHHHHHHHHHhccCCh---hhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          359 A--YNCIVDRLGKDGKIDHAINVFESMEVKDS---FTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       359 ~--~~~l~~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      .  -..++..- =.+++..|..+++++.+.|+   ..+..|...-.+.|+.++|+++|++....
T Consensus       504 plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~l  566 (606)
T KOG0547|consen  504 PLVHKALLVLQ-WKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQL  566 (606)
T ss_pred             hhhhhhHhhhc-hhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            2  22222222 23899999999999998855   56888999999999999999999998644

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

Probab=99.71  E-value=2.2e-13  Score=108.77  Aligned_cols=300  Identities=13%  Similarity=0.092  Sum_probs=218.9

Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCC-CCC--CHHhHHHHHH
Q 012804           44 TYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMG-IPP--DVWSYNSLMH  120 (456)
Q Consensus        44 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~  120 (456)
                      .|..-++.+. ..+.++|.++|-+|.+.. +.+..+--+|.+.|.+.|..+.|+.+.+.+.++- .+-  .......|..
T Consensus        38 ~Yv~GlNfLL-s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~  115 (389)
T COG2956          38 DYVKGLNFLL-SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGR  115 (389)
T ss_pred             HHHhHHHHHh-hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHH
Confidence            3444455443 467889999999988753 2244455678888889999999999998888751 111  1233456777


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCc----HHHHHHHHHHHHHcC
Q 012804          121 CLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPE----LVTYNILIKGLCKAG  196 (456)
Q Consensus       121 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~  196 (456)
                      -|...|-++.|+++|..+.+.+ ..-......|+..|-...+|++|+++-+++.+.+-.+.    ...|.-+...+....
T Consensus       116 Dym~aGl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~  194 (389)
T COG2956         116 DYMAAGLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASS  194 (389)
T ss_pred             HHHHhhhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhh
Confidence            7889999999999999988765 44566778888999999999999999988887754443    345677788888888


Q ss_pred             CHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHH
Q 012804          197 RLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYME  276 (456)
Q Consensus       197 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  276 (456)
                      +++.|..++.+..+.+.+ ....--.+.......|+++.|.+.++.+.+.+...-+.+...+..+|...|+.++....+.
T Consensus       195 ~~d~A~~~l~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~  273 (389)
T COG2956         195 DVDRARELLKKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLR  273 (389)
T ss_pred             hHHHHHHHHHHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            899999999988876443 3344445667888899999999999999988766677788889999999999999999998


Q ss_pred             HHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHh---cCCHHHHHHHHHHHHhC
Q 012804          277 QMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCK---AGNIKGARLHLEYMNKI  351 (456)
Q Consensus       277 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~  351 (456)
                      .+.+...  ....-..+..........+.|...+.+-...  .|+...+..++.....   .|...+....++.|...
T Consensus       274 ~~~~~~~--g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge  347 (389)
T COG2956         274 RAMETNT--GADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGE  347 (389)
T ss_pred             HHHHccC--CccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHH
Confidence            8887633  3344455555555556666777666665554  5888888888886543   34456667777777643

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

Probab=99.69  E-value=1.2e-12  Score=107.89  Aligned_cols=292  Identities=14%  Similarity=0.065  Sum_probs=232.5

Q ss_pred             cCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHH
Q 012804           55 FVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRV  134 (456)
Q Consensus        55 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  134 (456)
                      .|+|..|.++..+..+.+-. ....|..-.++.-+.|+.+.+-.++.+..+.-..++.....+........|+.+.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            79999999999988777533 45567777788889999999999999988864455677777788889999999999999


Q ss_pred             HHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcH-------HHHHHHHHHHHHcCCHHHHHHHHHH
Q 012804          135 FQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPEL-------VTYNILIKGLCKAGRLRTARWILKE  207 (456)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~  207 (456)
                      ++++...+ +-.+.......++|.+.|++.....++.++.+.|.-.+.       .+|..++.-....+..+.-...++.
T Consensus       176 v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~  254 (400)
T COG3071         176 VDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            99988876 666788888999999999999999999999988765443       4677777777766666666667766


Q ss_pred             HhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCH
Q 012804          208 LGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDI  287 (456)
Q Consensus       208 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  287 (456)
                      .... ...++..-..++.-+.+.|+.++|.++..+..+.+..+.   ...++ .+.+.++.+.-.+..++-.+.. +.++
T Consensus       255 ~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~---L~~~~-~~l~~~d~~~l~k~~e~~l~~h-~~~p  328 (400)
T COG3071         255 QPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR---LCRLI-PRLRPGDPEPLIKAAEKWLKQH-PEDP  328 (400)
T ss_pred             ccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh---HHHHH-hhcCCCCchHHHHHHHHHHHhC-CCCh
Confidence            5543 344677777888889999999999999999998865555   22222 3556778888788777777663 3366


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 012804          288 VSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSN  356 (456)
Q Consensus       288 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  356 (456)
                      ..+..|...|.+.+.|.+|...|+...+.  .|+..+|..+..++.+.|+.++|.+..++....-.+|+
T Consensus       329 ~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         329 LLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCC
Confidence            88999999999999999999999977775  68999999999999999999999999998765433443

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

Probab=99.69  E-value=2.8e-14  Score=124.77  Aligned_cols=283  Identities=11%  Similarity=0.075  Sum_probs=145.8

Q ss_pred             hhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCC--CCCHHhHHHHHHHHHhcCChhHHHHHH
Q 012804           58 FDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGI--PPDVWSYNSLMHCLFQLGKPDEANRVF  135 (456)
Q Consensus        58 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~  135 (456)
                      ..+|+..|..+... +.-+......+..+|...+++++|.++|+.+.+...  --+...|.+.+.-+-+   .-+---+-
T Consensus       335 ~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~---~v~Ls~La  410 (638)
T KOG1126|consen  335 CREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD---EVALSYLA  410 (638)
T ss_pred             HHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh---hHHHHHHH
Confidence            34555555553332 122223334455555556666666666655554320  1134444444432221   11111122


Q ss_pred             HHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCC
Q 012804          136 QDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVP-ELVTYNILIKGLCKAGRLRTARWILKELGDSGHA  214 (456)
Q Consensus       136 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  214 (456)
                      +.+++.. +..+.+|-.+.++|.-+++.+.|++.|++..+.  .| ...+|+.+..-+.....+|.|...|+........
T Consensus       411 q~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~r  487 (638)
T KOG1126|consen  411 QDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPR  487 (638)
T ss_pred             HHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCch
Confidence            2233322 444556666666666666666666666665554  22 4455555555555556666666666555442211


Q ss_pred             CCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHH
Q 012804          215 PNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLI  294 (456)
Q Consensus       215 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  294 (456)
                       ....|..+...|.+.++++.|+-.|+.+.+.+ |.+......+...+-+.|+.++|+.+++++...+.. |+..--..+
T Consensus       488 -hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~  564 (638)
T KOG1126|consen  488 -HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRA  564 (638)
T ss_pred             -hhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHH
Confidence             33334445555666666666666666666554 444445555555566666666666666666655433 333333444


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 012804          295 NLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKI  351 (456)
Q Consensus       295 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  351 (456)
                      ..+...+++++|+..++++++. ++-+...|..+...|.+.|+.+.|+.-|.-+.+.
T Consensus       565 ~il~~~~~~~eal~~LEeLk~~-vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~l  620 (638)
T KOG1126|consen  565 SILFSLGRYVEALQELEELKEL-VPQESSVFALLGKIYKRLGNTDLALLHFSWALDL  620 (638)
T ss_pred             HHHHhhcchHHHHHHHHHHHHh-CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcC
Confidence            5555566666666666666654 1223445555566666666666666666666554

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.64  E-value=1.3e-10  Score=101.96  Aligned_cols=437  Identities=11%  Similarity=0.035  Sum_probs=267.5

Q ss_pred             CCCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHH
Q 012804            2 FGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYN   81 (456)
Q Consensus         2 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   81 (456)
                      ++|.....|..++.. ...+++...+++.+.+++..+. ...+.....-.+...|+-++|........+.++ .+.++|.
T Consensus         3 l~~KE~~lF~~~lk~-yE~kQYkkgLK~~~~iL~k~~e-HgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~-~S~vCwH   79 (700)
T KOG1156|consen    3 LSPKENALFRRALKC-YETKQYKKGLKLIKQILKKFPE-HGESLAMKGLTLNCLGKKEEAYELVRLGLRNDL-KSHVCWH   79 (700)
T ss_pred             CChHHHHHHHHHHHH-HHHHHHHhHHHHHHHHHHhCCc-cchhHHhccchhhcccchHHHHHHHHHHhccCc-ccchhHH
Confidence            345556666666654 4678999999999999885443 556666666667778999999998888777543 4678898


Q ss_pred             HHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcC
Q 012804           82 SLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNR  161 (456)
Q Consensus        82 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  161 (456)
                      .+.-.+....++++|++.|......+.. |...+..+.-.-++.++++.....-..+.+.. +.....|..+..++.-.|
T Consensus        80 v~gl~~R~dK~Y~eaiKcy~nAl~~~~d-N~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g  157 (700)
T KOG1156|consen   80 VLGLLQRSDKKYDEAIKCYRNALKIEKD-NLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLG  157 (700)
T ss_pred             HHHHHHhhhhhHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHH
Confidence            8888888899999999999999987644 77788888777888888888888877777654 445667888888888999


Q ss_pred             ChHHHHHHHHHHHhCC-CCCcHHHHHHHH------HHHHHcCCHHHHHHHHHHHhhCCCCCCHHHH-HHHHHHHHhcCch
Q 012804          162 YTDNALRMFRGLQKHG-FVPELVTYNILI------KGLCKAGRLRTARWILKELGDSGHAPNAITY-TTIMKCCFRNRKY  233 (456)
Q Consensus       162 ~~~~a~~~~~~~~~~~-~~~~~~~~~~l~------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~  233 (456)
                      +...|..+++...+.. ..|+...+....      ......|..++|.+.+..-...  ..|...+ ..-...+.+.+++
T Consensus       158 ~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~l  235 (700)
T KOG1156|consen  158 EYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQL  235 (700)
T ss_pred             HHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhH
Confidence            9999999999887764 245665554432      3345678888888877665432  1233332 3345667888999


Q ss_pred             hHHHHHHHHHHHcCCCcChhhHH-HHHHHHHHcCChHHHH-HHHHHHHHCCCccCHHHHHHH-HHHHHhcCCHHHHHHHH
Q 012804          234 KLGLEILSAMKRKGYTFDGFGYC-TVIAAFVKIGRLKEAT-DYMEQMVTDGVQLDIVSYNTL-INLYCKEGKLEAAYLLL  310 (456)
Q Consensus       234 ~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~  310 (456)
                      ++|..++..++..  .||...|. .+..++.+..+..++. .+|....+. + |.......+ +.......-.+..-.++
T Consensus       236 EeA~~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~-y-~r~e~p~Rlplsvl~~eel~~~vdkyL  311 (700)
T KOG1156|consen  236 EEAVKVYRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEK-Y-PRHECPRRLPLSVLNGEELKEIVDKYL  311 (700)
T ss_pred             HhHHHHHHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc-C-cccccchhccHHHhCcchhHHHHHHHH
Confidence            9999999999987  44544444 4444443333333343 555555443 1 111111111 11111111223333445


Q ss_pred             HHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh----CC----------CCCCHHHH--HHHHHHHHhCCCHH
Q 012804          311 DEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNK----IG----------FDSNLEAY--NCIVDRLGKDGKID  374 (456)
Q Consensus       311 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~----------~~~~~~~~--~~l~~~~~~~g~~~  374 (456)
                      ..+.+.|+++-   +..+...|-.....+-..++...+..    .|          -+|....|  ..++..+-+.|+++
T Consensus       312 ~~~l~Kg~p~v---f~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~  388 (700)
T KOG1156|consen  312 RPLLSKGVPSV---FKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYE  388 (700)
T ss_pred             HHHhhcCCCch---hhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHH
Confidence            55555555432   22222222211111111111111110    00          13443333  33455566777777


Q ss_pred             HHHHHHHHhccCCh---hhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHh
Q 012804          375 HAINVFESMEVKDS---FTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       375 ~a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      .|...++.+....|   ..|..-++.+.+.|++++|...++++.+.+ .||..+-..-+.-..+++..++|.++..+..+
T Consensus       389 ~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr  467 (700)
T KOG1156|consen  389 VALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRANEIEEAEEVLSKFTR  467 (700)
T ss_pred             HHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHccccHHHHHHHHHhhh
Confidence            77777777766633   334444566677777777777777776554 23444444555555666777777777666655


Q ss_pred             cc
Q 012804          452 AK  453 (456)
Q Consensus       452 ~~  453 (456)
                      .+
T Consensus       468 ~~  469 (700)
T KOG1156|consen  468 EG  469 (700)
T ss_pred             cc
Confidence            44

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.64  E-value=1.4e-10  Score=101.66  Aligned_cols=430  Identities=14%  Similarity=0.101  Sum_probs=285.7

Q ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHH
Q 012804            8 RLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGA   87 (456)
Q Consensus         8 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   87 (456)
                      ++.....-.+...|+-++|.......++.++. +.+.|..+.-.+....++++|+..|......+ +.|...+..+.-.-
T Consensus        42 eslAmkGL~L~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ  119 (700)
T KOG1156|consen   42 ESLAMKGLTLNCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQ  119 (700)
T ss_pred             hhHHhccchhhcccchHHHHHHHHHHhccCcc-cchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHH
Confidence            34444444566779999999999999987764 88899999999999999999999999999875 44677787777777


Q ss_pred             HcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCC-CCCChhHHHHH------HHHHHhc
Q 012804           88 TRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGD-LTPCTATFNIM------LNGLCKN  160 (456)
Q Consensus        88 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l------~~~~~~~  160 (456)
                      ++.++++........+.+..+ .....|..+..++.-.|+...|..+++...+.. ..|+...+...      .....+.
T Consensus       120 ~QmRd~~~~~~tr~~LLql~~-~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~  198 (700)
T KOG1156|consen  120 IQMRDYEGYLETRNQLLQLRP-SQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEA  198 (700)
T ss_pred             HHHHhhhhHHHHHHHHHHhhh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHc
Confidence            788888888888777777532 255678888888899999999999999988764 24555555433      2345678


Q ss_pred             CChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH-HHHhcCchhHHH-H
Q 012804          161 RYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMK-CCFRNRKYKLGL-E  238 (456)
Q Consensus       161 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~-~  238 (456)
                      |..++|++.+...... +......-..-...+.+.+++++|..++..+...  .||...|...+. ++.+-.+.-++. .
T Consensus       199 g~~q~ale~L~~~e~~-i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~  275 (700)
T KOG1156|consen  199 GSLQKALEHLLDNEKQ-IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKA  275 (700)
T ss_pred             ccHHHHHHHHHhhhhH-HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHH
Confidence            8889998888766554 2222233344567788999999999999999885  456666555444 443233333333 5


Q ss_pred             HHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---
Q 012804          239 ILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEK---  315 (456)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---  315 (456)
                      +|....+.- +........-+.......-.+....++....+.|+++   ++..+...|-.-...+-..++.-.+..   
T Consensus       276 ly~~ls~~y-~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~  351 (700)
T KOG1156|consen  276 LYAILSEKY-PRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLS  351 (700)
T ss_pred             HHHHHhhcC-cccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcc
Confidence            555554431 1111111111111111222334455667777777654   333444333322222211111111111   


Q ss_pred             -cC----------CCcCHH--hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhCCCHHHHHHHHH
Q 012804          316 -QG----------FECDKY--THTILIDGLCKAGNIKGARLHLEYMNKIGFDSN-LEAYNCIVDRLGKDGKIDHAINVFE  381 (456)
Q Consensus       316 -~~----------~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~  381 (456)
                       .|          -+|...  ++-.+++.+-+.|+++.|..+++.++.+  .|+ .+.|..-.+.+...|++++|..+++
T Consensus       352 ~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~  429 (700)
T KOG1156|consen  352 GTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLD  429 (700)
T ss_pred             cccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHH
Confidence             11          134433  4456778889999999999999999876  555 5666666788999999999999999


Q ss_pred             HhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHH--------hHHH--HHHHHHccCChHHHHHHHHH
Q 012804          382 SMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKS--------AQKA--VVDGLRHSGCRREAKKIQSK  448 (456)
Q Consensus       382 ~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~--------~~~~--l~~~~~~~g~~~~A~~~~~~  448 (456)
                      ++.+.   |...-..-+.-..+..+.++|.++.-...+.|.  +..        .|-.  =+.+|.++|++-+|.+-|..
T Consensus       430 ea~elD~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~--~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~  507 (700)
T KOG1156|consen  430 EAQELDTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGF--GAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHE  507 (700)
T ss_pred             HHHhccchhHHHHHHHHHHHHHccccHHHHHHHHHhhhccc--chhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhh
Confidence            98887   333333567777889999999999988887764  211        1221  23578899999889888777


Q ss_pred             HHh
Q 012804          449 IRM  451 (456)
Q Consensus       449 ~~~  451 (456)
                      +.+
T Consensus       508 i~k  510 (700)
T KOG1156|consen  508 IEK  510 (700)
T ss_pred             HHH
Confidence            654

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.63  E-value=5.8e-10  Score=97.83  Aligned_cols=432  Identities=9%  Similarity=0.040  Sum_probs=289.9

Q ss_pred             hHHHHHHHHHHHhhCcHHHHHHHHHHHHhcC-CCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 012804            7 TRLLNICVCTFCKANRLEKAEAIIIDGIRLG-VLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIA   85 (456)
Q Consensus         7 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   85 (456)
                      +.+|...++.+.++|++..-...|++++..- +......|...+......+-.+.+..++++..+.    ++..-+-.+.
T Consensus       102 pRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie  177 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIE  177 (835)
T ss_pred             CHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHH
Confidence            5678888899999999999999999988753 2334558889999999999999999999999875    4445777888


Q ss_pred             HHHcCCChhHHHHHHHHHHHCC------CCCCHHhHHHHHHHHHhcCChh---HHHHHHHHHHhCCCCCC--hhHHHHHH
Q 012804           86 GATRNSLLSCSLDLLDEMLEMG------IPPDVWSYNSLMHCLFQLGKPD---EANRVFQDMICGDLTPC--TATFNIML  154 (456)
Q Consensus        86 ~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~--~~~~~~l~  154 (456)
                      .++..+++++|.+.+.......      .+.+...|..+....++.-+.-   ....++..+...  -+|  ...|.+|.
T Consensus       178 ~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLA  255 (835)
T KOG2047|consen  178 YLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLA  255 (835)
T ss_pred             HHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHH
Confidence            9999999999999998876531      2335566776666666654432   233344444332  233  35789999


Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcC----------------------CHHHHHHHHHHHhhCC
Q 012804          155 NGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAG----------------------RLRTARWILKELGDSG  212 (456)
Q Consensus       155 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------------~~~~a~~~~~~~~~~~  212 (456)
                      .-|.+.|.+++|.++|++....-  ....-|+.+.+.|..-.                      +++-....|+.+.+..
T Consensus       256 dYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr  333 (835)
T KOG2047|consen  256 DYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRR  333 (835)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhcc
Confidence            99999999999999999987652  24444555555543321                      1222223333333221


Q ss_pred             C-----------CCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCc------ChhhHHHHHHHHHHcCChHHHHHHH
Q 012804          213 H-----------APNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTF------DGFGYCTVIAAFVKIGRLKEATDYM  275 (456)
Q Consensus       213 ~-----------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~  275 (456)
                      .           +.+...|..-..  ...|+..+-...+.++.+.- .|      -...|..+...|-..|+++.|..+|
T Consensus       334 ~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~v-dP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvif  410 (835)
T KOG2047|consen  334 PLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKTV-DPKKAVGSPGTLWVEFAKLYENNGDLDDARVIF  410 (835)
T ss_pred             chHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHcc-CcccCCCChhhHHHHHHHHHHhcCcHHHHHHHH
Confidence            1           112223322222  23466677777777777552 22      2345777888899999999999999


Q ss_pred             HHHHHCCCccC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC----------Cc-------CHHhHHHHHHHHHhc
Q 012804          276 EQMVTDGVQLD---IVSYNTLINLYCKEGKLEAAYLLLDEMEKQGF----------EC-------DKYTHTILIDGLCKA  335 (456)
Q Consensus       276 ~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----------~~-------~~~~~~~l~~~~~~~  335 (456)
                      ++..+...+.-   ..+|..-...-.++.+++.|+++++......-          .|       +...|..++..-...
T Consensus       411 eka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~  490 (835)
T KOG2047|consen  411 EKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESL  490 (835)
T ss_pred             HHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHh
Confidence            99987644321   24455555555678889999999887753211          11       233566666666778


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC-----ChhhHHHHHHHHHc---cCChhHH
Q 012804          336 GNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK-----DSFTYSSMVHNLCK---AKRLPSA  407 (456)
Q Consensus       336 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~l~~~~~~---~~~~~~A  407 (456)
                      |-++....+++++++..+. ++.+.......+....-++++.+++++-+..     -...|+..+.-+.+   ....+.|
T Consensus       491 gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEra  569 (835)
T KOG2047|consen  491 GTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERA  569 (835)
T ss_pred             ccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHH
Confidence            8999999999999988644 4444445555666777899999999987776     33566666655543   4468899


Q ss_pred             HHHHHHHHHcCCCCCHH--hHHHHHHHHHccCChHHHHHHHHHHHh
Q 012804          408 SKLLLSCLKSGVRILKS--AQKAVVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       408 ~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      ..+|+++++ |.+|...  +|......-.+.|.-..|..++++...
T Consensus       570 RdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~  614 (835)
T KOG2047|consen  570 RDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS  614 (835)
T ss_pred             HHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            999999998 4555432  233333344557888888888888644

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

Probab=99.62  E-value=9.2e-12  Score=107.20  Aligned_cols=282  Identities=12%  Similarity=-0.015  Sum_probs=188.9

Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHH
Q 012804          144 TPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTI  223 (456)
Q Consensus       144 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  223 (456)
                      ..+......-..-+...+++.+..++.+.+.+. .++....+..-|.++...|+..+-..+=.++.+.- +-.+.+|-.+
T Consensus       241 ~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~-dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aV  318 (611)
T KOG1173|consen  241 AENLDLLAEKADRLYYGCRFKECLKITEELLEK-DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAV  318 (611)
T ss_pred             hhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhh-CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhH
Confidence            334444555556666777888888888877766 45566666666667777777766666666666543 3366777777


Q ss_pred             HHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCH
Q 012804          224 MKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKL  303 (456)
Q Consensus       224 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  303 (456)
                      .-.|...|+.++|.+.|.+....+ +.-...|-.+...|.-.|..++|+..+....+. ++-....+.-+..-|.+.++.
T Consensus       319 g~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~  396 (611)
T KOG1173|consen  319 GCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNL  396 (611)
T ss_pred             HHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccH
Confidence            777777788888888888777654 333456667777777778888888777766654 111222233455567777888


Q ss_pred             HHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC--C----CCCCHHHHHHHHHHHHhCCCHHHHH
Q 012804          304 EAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKI--G----FDSNLEAYNCIVDRLGKDGKIDHAI  377 (456)
Q Consensus       304 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~----~~~~~~~~~~l~~~~~~~g~~~~a~  377 (456)
                      +.|.+.|.+..... +.|+..++.+.-.....+.+.+|..+|+..+..  .    .+.-..+++.|+.+|.+.+.+++|+
T Consensus       397 kLAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI  475 (611)
T KOG1173|consen  397 KLAEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAI  475 (611)
T ss_pred             HHHHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHH
Confidence            88888887777652 336666777666666677788888888776522  0    0112345677777888888888888


Q ss_pred             HHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 012804          378 NVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDG  432 (456)
Q Consensus       378 ~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  432 (456)
                      ..+++....   +..++.+++-.|...|+++.|++.|.+.+  .+.|+..+...++..
T Consensus       476 ~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~~~~lL~~  531 (611)
T KOG1173|consen  476 DYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIFISELLKL  531 (611)
T ss_pred             HHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHHHHHHHHH
Confidence            888876654   77778888888888888888888888877  446666555555443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.60  E-value=2.7e-11  Score=98.37  Aligned_cols=402  Identities=11%  Similarity=0.081  Sum_probs=210.6

Q ss_pred             HHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCCh
Q 012804           14 VCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLL   93 (456)
Q Consensus        14 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   93 (456)
                      ++-+....++..|+.+++-....+-.-...+-.-+..++...|++++|...+..+.+.. .++...+..|..++.-.|.+
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y  107 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQY  107 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHH
Confidence            44555566666666666654433322111222223344456666666666666655432 33444444444444444555


Q ss_pred             hHHHHHHHHHHHCC-------------------------CCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChh
Q 012804           94 SCSLDLLDEMLEMG-------------------------IPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTA  148 (456)
Q Consensus        94 ~~a~~~~~~~~~~~-------------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  148 (456)
                      .+|..+-.+..+..                         +.....--.+|.......-.+.+|++++.+....  .|.-.
T Consensus       108 ~eA~~~~~ka~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~d--n~ey~  185 (557)
T KOG3785|consen  108 IEAKSIAEKAPKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDTLEDQLSLASVHYMRMHYQEAIDVYKRVLQD--NPEYI  185 (557)
T ss_pred             HHHHHHHhhCCCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhc--Chhhh
Confidence            55544433322100                         0001111223334434444567788888877754  33444


Q ss_pred             HHHH-HHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHh--------------hCCC
Q 012804          149 TFNI-MLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELG--------------DSGH  213 (456)
Q Consensus       149 ~~~~-l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--------------~~~~  213 (456)
                      ..|. +.-+|.+..-++-+.++++-..+. ++.+....|.......+.=.-..|.+-.+.+.              +.+.
T Consensus       186 alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNL  264 (557)
T KOG3785|consen  186 ALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCRHNL  264 (557)
T ss_pred             hhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHHHcCe
Confidence            4443 335666777777777777776665 34344444444333322111111111111111              1000


Q ss_pred             ------------CC-----CHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcC-------ChH
Q 012804          214 ------------AP-----NAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIG-------RLK  269 (456)
Q Consensus       214 ------------~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-------~~~  269 (456)
                                  -|     -+..-..++-.|.+.++..+|..+.+++.    |.++.-|-.-.-.+...|       ...
T Consensus       265 VvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~----PttP~EyilKgvv~aalGQe~gSreHlK  340 (557)
T KOG3785|consen  265 VVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLD----PTTPYEYILKGVVFAALGQETGSREHLK  340 (557)
T ss_pred             EEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcC----CCChHHHHHHHHHHHHhhhhcCcHHHHH
Confidence                        01     11222334445667788888777766554    333333322222223333       234


Q ss_pred             HHHHHHHHHHHCCCccCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 012804          270 EATDYMEQMVTDGVQLDIV-SYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYM  348 (456)
Q Consensus       270 ~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  348 (456)
                      -|...|+..-.++..-|.. --..+...+.-..++++++..++.+...- ..|......+.++.+..|++.+|+++|-++
T Consensus       341 iAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF-~NdD~Fn~N~AQAk~atgny~eaEelf~~i  419 (557)
T KOG3785|consen  341 IAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYF-TNDDDFNLNLAQAKLATGNYVEAEELFIRI  419 (557)
T ss_pred             HHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcchhhhHHHHHHHHhcChHHHHHHHhhh
Confidence            4555555544443222211 12344555556667888888888887652 334444446778888889999999998887


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC-Ch-hhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhH
Q 012804          349 NKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK-DS-FTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQ  426 (456)
Q Consensus       349 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  426 (456)
                      ....+..+..-...|..+|.++++++.|+.++-++..+ +. .....+...|.+.+++=-|.+.|+.+...  .|++..|
T Consensus       420 s~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~l--DP~pEnW  497 (557)
T KOG3785|consen  420 SGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEIL--DPTPENW  497 (557)
T ss_pred             cChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHcc--CCCcccc
Confidence            66554544444566777889999999999888877665 33 33444556777777777777777766544  3444433

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.60  E-value=2.9e-10  Score=98.73  Aligned_cols=415  Identities=13%  Similarity=0.014  Sum_probs=234.9

Q ss_pred             HHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCC
Q 012804           13 CVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSL   92 (456)
Q Consensus        13 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   92 (456)
                      =++.+...|++++|++....++..++ -+...+..-+-++++.++|++|+.+.+.-...  ..+...+---.-+.-+.+.
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-DDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNK   94 (652)
T ss_pred             HHHHhccchHHHHHHHHHHHHHhcCC-CcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHccc
Confidence            35677888999999999999998763 46667888888899999999999665543211  1111111111223347899


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChh--HHHHHHHHHHhcCChHHHHHHH
Q 012804           93 LSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTA--TFNIMLNGLCKNRYTDNALRMF  170 (456)
Q Consensus        93 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~  170 (456)
                      .++|+..++-..+    .+..+...-...+.+.|++++|.++|+.+.+.+. ++..  .-..++.+-.    .-.+. +.
T Consensus        95 ~Dealk~~~~~~~----~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~-dd~d~~~r~nl~a~~a----~l~~~-~~  164 (652)
T KOG2376|consen   95 LDEALKTLKGLDR----LDDKLLELRAQVLYRLERYDEALDIYQHLAKNNS-DDQDEERRANLLAVAA----ALQVQ-LL  164 (652)
T ss_pred             HHHHHHHHhcccc----cchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-chHHHHHHHHHHHHHH----hhhHH-HH
Confidence            9999999882222    2344666677889999999999999999987652 2211  1111111100    00010 11


Q ss_pred             HHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC-------CCCCCHH-------HHHHHHHHHHhcCchhHH
Q 012804          171 RGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDS-------GHAPNAI-------TYTTIMKCCFRNRKYKLG  236 (456)
Q Consensus       171 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~-------~~~~l~~~~~~~~~~~~a  236 (456)
                      +..... ...+-..+......+...|++.+|+++++.....       +-.-+..       .-..+...+...|+..+|
T Consensus       165 q~v~~v-~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea  243 (652)
T KOG2376|consen  165 QSVPEV-PEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEA  243 (652)
T ss_pred             HhccCC-CcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHH
Confidence            111111 0001111222233455667777777776665211       0000000       111233344556777777


Q ss_pred             HHHHHHHHHcCCCcChhhHH----HHHHH---------------------------------------------HHHcCC
Q 012804          237 LEILSAMKRKGYTFDGFGYC----TVIAA---------------------------------------------FVKIGR  267 (456)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~~~----~l~~~---------------------------------------------~~~~~~  267 (456)
                      ..++...++.. ++|.....    .++..                                             ..-.+.
T Consensus       244 ~~iy~~~i~~~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk  322 (652)
T KOG2376|consen  244 SSIYVDIIKRN-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNK  322 (652)
T ss_pred             HHHHHHHHHhc-CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            77776666654 33321111    11100                                             000111


Q ss_pred             hHHHHHHHHHHHHCCCccCHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHH
Q 012804          268 LKEATDYMEQMVTDGVQLDIVSYNTLINLYCK--EGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHL  345 (456)
Q Consensus       268 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  345 (456)
                      .+.+.++.....  +..|. ..+..++....+  ...+..+.+++...-+....-+..+....++.....|+++.|..++
T Consensus       323 ~~q~r~~~a~lp--~~~p~-~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il  399 (652)
T KOG2376|consen  323 MDQVRELSASLP--GMSPE-SLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEIL  399 (652)
T ss_pred             HHHHHHHHHhCC--ccCch-HHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHH
Confidence            122222211111  11222 233333333222  2246677777777766533323456666777788999999999999


Q ss_pred             H--------HHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC----------ChhhHHHHHHHHHccCChhHH
Q 012804          346 E--------YMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK----------DSFTYSSMVHNLCKAKRLPSA  407 (456)
Q Consensus       346 ~--------~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----------~~~~~~~l~~~~~~~~~~~~A  407 (456)
                      .        .+.+.+..|  .+...+...+.+.++.+.|..++.++...          -...+..++..-.+.|+-++|
T Consensus       400 ~~~~~~~~ss~~~~~~~P--~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea  477 (652)
T KOG2376|consen  400 SLFLESWKSSILEAKHLP--GTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEA  477 (652)
T ss_pred             HHHhhhhhhhhhhhccCh--hHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHH
Confidence            9        555544444  45666777888888877787777776654          112333344444578999999


Q ss_pred             HHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHH
Q 012804          408 SKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKI  449 (456)
Q Consensus       408 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  449 (456)
                      ..+++++++.. ++|..+...++.+|++. +.+.|..+-+++
T Consensus       478 ~s~leel~k~n-~~d~~~l~~lV~a~~~~-d~eka~~l~k~L  517 (652)
T KOG2376|consen  478 SSLLEELVKFN-PNDTDLLVQLVTAYARL-DPEKAESLSKKL  517 (652)
T ss_pred             HHHHHHHHHhC-CchHHHHHHHHHHHHhc-CHHHHHHHhhcC
Confidence            99999999875 45888888899888765 456666554443

>PRK12370 invasion protein regulator; Provisional

Probab=99.59  E-value=7e-12  Score=116.35  Aligned_cols=269  Identities=9%  Similarity=-0.017  Sum_probs=186.4

Q ss_pred             CCCHHhHHHHHHHHHc-----cCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHH---------cCCChhHHHHHHHHHH
Q 012804           39 LPDVVTYNMLIDAYCQ-----FVSFDAGYTILNRMREAGISPDVVTYNSLIAGAT---------RNSLLSCSLDLLDEML  104 (456)
Q Consensus        39 ~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~  104 (456)
                      ..+...|...+.....     .+++++|.+.|++..+.. +.+...|..+..++.         ..+++++|...+++..
T Consensus       253 ~~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al  331 (553)
T PRK12370        253 LNSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKAT  331 (553)
T ss_pred             CCChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHH
Confidence            4466666555555322     234678999999988763 223455655554443         2345789999999998


Q ss_pred             HCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHH
Q 012804          105 EMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVT  184 (456)
Q Consensus       105 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  184 (456)
                      +.++. +...+..+...+...|++++|...|+++.+.+ +.+...+..+...+...|++++|+..+++..+.... +...
T Consensus       332 ~ldP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~  408 (553)
T PRK12370        332 ELDHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAA  408 (553)
T ss_pred             hcCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-Chhh
Confidence            87643 67788888888899999999999999998876 666778888889999999999999999999887322 3333


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHH
Q 012804          185 YNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVK  264 (456)
Q Consensus       185 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  264 (456)
                      +..++..+...|++++|...++++.....+-++..+..+..++...|+.++|...+.++.... +.+......+...+..
T Consensus       409 ~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~-~~~~~~~~~l~~~~~~  487 (553)
T PRK12370        409 GITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE-ITGLIAVNLLYAEYCQ  487 (553)
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc-chhHHHHHHHHHHHhc
Confidence            344455566788999999999888765433345566777888889999999999998876552 3334445555566666


Q ss_pred             cCChHHHHHHHHHHHHCC-CccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 012804          265 IGRLKEATDYMEQMVTDG-VQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQG  317 (456)
Q Consensus       265 ~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  317 (456)
                      .|  +.+...++.+.+.. ..+..  ...+...|.-.|+.+.+..+ +++.+.+
T Consensus       488 ~g--~~a~~~l~~ll~~~~~~~~~--~~~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        488 NS--ERALPTIREFLESEQRIDNN--PGLLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             cH--HHHHHHHHHHHHHhhHhhcC--chHHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            66  47777777766541 11111  12244556667887777666 7777653

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

Probab=99.58  E-value=2.2e-09  Score=89.29  Aligned_cols=184  Identities=14%  Similarity=0.093  Sum_probs=77.0

Q ss_pred             hcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHH
Q 012804          229 RNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYL  308 (456)
Q Consensus       229 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  308 (456)
                      ...++..|+.+.++.++.+ +-+...+-.-...+...+++++|.-.|+...... +-+..+|..|+.+|...|.+.+|.-
T Consensus       312 ~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~  389 (564)
T KOG1174|consen  312 DEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANA  389 (564)
T ss_pred             hhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHH
Confidence            3344444444444444333 2233333333344444445555444444444331 1244445555555555555554444


Q ss_pred             HHHHHHHcCCCcCHHhHHHHH-HHHH-hcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhCCCHHHHHHHHHHhcc
Q 012804          309 LLDEMEKQGFECDKYTHTILI-DGLC-KAGNIKGARLHLEYMNKIGFDSN-LEAYNCIVDRLGKDGKIDHAINVFESMEV  385 (456)
Q Consensus       309 ~~~~~~~~~~~~~~~~~~~l~-~~~~-~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  385 (456)
                      +-+...+. +..+..++..+. ..|. ...--++|.++++..++.  .|+ ......+...+...|...+++.++++...
T Consensus       390 ~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~  466 (564)
T KOG1174|consen  390 LANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLI  466 (564)
T ss_pred             HHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHHHHHHh
Confidence            44443332 122333333331 1111 111124444444444432  222 23334444444445555555555544433


Q ss_pred             C--ChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          386 K--DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       386 ~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      .  |....+.|+..+...+.+++|++.|..++..
T Consensus       467 ~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~  500 (564)
T KOG1174|consen  467 IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQ  500 (564)
T ss_pred             hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            3  4444444444444455555555555544433

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.57  E-value=6.6e-12  Score=104.24  Aligned_cols=201  Identities=14%  Similarity=0.032  Sum_probs=135.0

Q ss_pred             CHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 012804           41 DVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMH  120 (456)
Q Consensus        41 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  120 (456)
                      ....+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.... +...+..+..
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~  107 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPN-NGDVLNNYGT  107 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHH
Confidence            34566667777777777777777777776553 334556666777777777777777777777765432 4556666777


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCC-CCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHH
Q 012804          121 CLFQLGKPDEANRVFQDMICGDL-TPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLR  199 (456)
Q Consensus       121 ~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  199 (456)
                      .+...|++++|.+.+++...... +.....+..+..++...|++++|...+++..+.. +.+...+..+...+...|+++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  186 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYK  186 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHH
Confidence            77777777777777777765421 2234455666677777777777777777776652 234556667777777778888


Q ss_pred             HHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHH
Q 012804          200 TARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKR  245 (456)
Q Consensus       200 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  245 (456)
                      +|...+++.... .+.+...+..+...+...|+.+.|..+.+.+..
T Consensus       187 ~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       187 DARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            887777777665 233555556666777777777777777666654

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.

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

Probab=99.56  E-value=1.1e-11  Score=112.07  Aligned_cols=274  Identities=14%  Similarity=0.121  Sum_probs=169.5

Q ss_pred             HHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCC
Q 012804           29 IIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGI  108 (456)
Q Consensus        29 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  108 (456)
                      ++-.+...|+.|+..+|..+|.-|+..|+.+.|- +|..|.-...+.+...++.++.+....++.+.+.           
T Consensus        12 fla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------   79 (1088)
T KOG4318|consen   12 FLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------   79 (1088)
T ss_pred             HHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------
Confidence            4555666788888888888888888888888887 7877777666677777888887777777776665           


Q ss_pred             CCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHh-CCCCCcHHHHHH
Q 012804          109 PPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQK-HGFVPELVTYNI  187 (456)
Q Consensus       109 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~  187 (456)
                      .|.+.+|..|...|...||... .+..++           ....+...+...|.-.....++..+.- .+.-||..   .
T Consensus        80 ep~aDtyt~Ll~ayr~hGDli~-fe~veq-----------dLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~---n  144 (1088)
T KOG4318|consen   80 EPLADTYTNLLKAYRIHGDLIL-FEVVEQ-----------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAE---N  144 (1088)
T ss_pred             CCchhHHHHHHHHHHhccchHH-HHHHHH-----------HHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHH---H
Confidence            4677788888888888888655 222221           112223334444444444444433221 12223322   2


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCC
Q 012804          188 LIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGR  267 (456)
Q Consensus       188 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  267 (456)
                      .+......|-++.+++++..+....... +...  +++-+.....+  ..++........-.+++.++..++.+-...|+
T Consensus       145 ~illlv~eglwaqllkll~~~Pvsa~~~-p~~v--fLrqnv~~ntp--vekLl~~cksl~e~~~s~~l~a~l~~alaag~  219 (1088)
T KOG4318|consen  145 AILLLVLEGLWAQLLKLLAKVPVSAWNA-PFQV--FLRQNVVDNTP--VEKLLNMCKSLVEAPTSETLHAVLKRALAAGD  219 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHhhCCcccccc-hHHH--HHHHhccCCch--HHHHHHHHHHhhcCCChHHHHHHHHHHHhcCc
Confidence            3334455566666666665543321111 1111  23333322222  22222222222115777888888888888888


Q ss_pred             hHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCC
Q 012804          268 LKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGN  337 (456)
Q Consensus       268 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  337 (456)
                      .+.|..++..|.+.|++.+..-|..++-+   .++...+..++..|.+.|+.|+..|+...+..+...|.
T Consensus       220 ~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  220 VDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             hhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            88888888888888888777777777655   67777777788888888888888888777776666443

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

Probab=99.56  E-value=4.2e-10  Score=100.80  Aligned_cols=436  Identities=14%  Similarity=0.034  Sum_probs=245.1

Q ss_pred             HHHHHH-HHHHhhCcHHHHHHHHHHHHh----cCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHH
Q 012804            9 LLNICV-CTFCKANRLEKAEAIIIDGIR----LGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSL   83 (456)
Q Consensus         9 ~~~~l~-~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   83 (456)
                      .+..+| ..+....+.+++.-..-.+.+    .....+...|..+.-+....|++..+.+.|++....-+ .....|..+
T Consensus       285 ~Lllli~es~i~Re~~~d~ilslm~~~~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~-~~~e~w~~~  363 (799)
T KOG4162|consen  285 ILLLLIEESLIPRENIEDAILSLMLLLRKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSF-GEHERWYQL  363 (799)
T ss_pred             HHHHHHHhhccccccHHHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh-hhHHHHHHH
Confidence            333444 344555566666544333332    23445667777777777778888888877777664322 244556777


Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCCC-CHHhHHHHHHHHH-hcCChhHHHHHHHHHHhC--CC--CCChhHHHHHHHHH
Q 012804           84 IAGATRNSLLSCSLDLLDEMLEMGIPP-DVWSYNSLMHCLF-QLGKPDEANRVFQDMICG--DL--TPCTATFNIMLNGL  157 (456)
Q Consensus        84 ~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~l~~~~  157 (456)
                      ...+...|.-..|+.+++.-......| +...+...-..|. +.+..++++++-.++++.  +.  ......+..+.-+|
T Consensus       364 als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y  443 (799)
T KOG4162|consen  364 ALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAY  443 (799)
T ss_pred             HHHHHHhccchHHHHHHHhhcccccCCCcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHH
Confidence            777777777777777777665543223 3333333333333 335666666666655541  10  11223343333333


Q ss_pred             Hhc-----------CChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012804          158 CKN-----------RYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKC  226 (456)
Q Consensus       158 ~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  226 (456)
                      ...           ....++++.+++..+.+.. |+.....+.--|+..++.+.|.+...+..+.+..-+...|..+.-.
T Consensus       444 ~~~A~~a~~~seR~~~h~kslqale~av~~d~~-dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALv  522 (799)
T KOG4162|consen  444 GFQARQANLKSERDALHKKSLQALEEAVQFDPT-DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALV  522 (799)
T ss_pred             HhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC-CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHH
Confidence            321           1235677777777665322 3333333444466677788888887777776556677777777777


Q ss_pred             HHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCC------------------------
Q 012804          227 CFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDG------------------------  282 (456)
Q Consensus       227 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------------------------  282 (456)
                      +...+++..|+.+.+.....- +.|......-+..-...++.+++......++..-                        
T Consensus       523 lSa~kr~~~Al~vvd~al~E~-~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~l  601 (799)
T KOG4162|consen  523 LSAQKRLKEALDVVDAALEEF-GDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHL  601 (799)
T ss_pred             HhhhhhhHHHHHHHHHHHHHh-hhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhccccc
Confidence            777778888887777766541 1111111111222223455555554444433210                        


Q ss_pred             ----CccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc--C------HHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 012804          283 ----VQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFEC--D------KYTHTILIDGLCKAGNIKGARLHLEYMNK  350 (456)
Q Consensus       283 ----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  350 (456)
                          ..-.+.++..+.......+.  .+..-.. +......|  +      ...|......+.+.++.++|...+.++..
T Consensus       602 a~~q~~~a~s~sr~ls~l~a~~~~--~~~se~~-Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~  678 (799)
T KOG4162|consen  602 ALSQPTDAISTSRYLSSLVASQLK--SAGSELK-LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK  678 (799)
T ss_pred             CcccccccchhhHHHHHHHHhhhh--hcccccc-cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh
Confidence                00001111111111000000  0000000 11111111  1      12344455566777777888777777766


Q ss_pred             CCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHH--HHHHHHHcCCCCCHHh
Q 012804          351 IGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASK--LLLSCLKSGVRILKSA  425 (456)
Q Consensus       351 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~--~~~~~~~~~~~~~~~~  425 (456)
                      . .+.....|...+..+...|...+|.+.|..+...   ++.+..+++..+.+.|+..-|..  ++..+++.++. +...
T Consensus       679 ~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~-n~ea  756 (799)
T KOG4162|consen  679 I-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPL-NHEA  756 (799)
T ss_pred             c-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCC-CHHH
Confidence            5 2555667777777777888888888888776655   55667777888888887777776  88888877644 7888


Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhc
Q 012804          426 QKAVVDGLRHSGCRREAKKIQSKIRMA  452 (456)
Q Consensus       426 ~~~l~~~~~~~g~~~~A~~~~~~~~~~  452 (456)
                      |..++..+.+.|+.+.|...|.-..+.
T Consensus       757 W~~LG~v~k~~Gd~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  757 WYYLGEVFKKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHhh
Confidence            888888888888888888877766554

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

Probab=99.56  E-value=1.2e-12  Score=104.84  Aligned_cols=225  Identities=11%  Similarity=0.007  Sum_probs=110.4

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHc
Q 012804          186 NILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKI  265 (456)
Q Consensus       186 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  265 (456)
                      +.+.++|.+.|.+.+|.+.++.....  .|-+.||..|-+.|.+..+++.|+.++.+-.+.- |.+.....-+.+.+...
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~f-P~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSF-PFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcC-CchhhhhhhhHHHHHHH
Confidence            34455555555555555555544442  2334444445555555555555555555554442 33333334444445555


Q ss_pred             CChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHH
Q 012804          266 GRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHL  345 (456)
Q Consensus       266 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  345 (456)
                      ++.++|.++++...+.. +.++.....+...|.-.++++-|+..++++...|+. +...|..+.-+|.-.++++-++.-|
T Consensus       304 ~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             HhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHH
Confidence            55555555555555442 124444444444555555555555555555555543 4455555555555555555555555


Q ss_pred             HHHHhCCCCCC--HHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHH
Q 012804          346 EYMNKIGFDSN--LEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCL  415 (456)
Q Consensus       346 ~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  415 (456)
                      +++...--.|+  ..+|..+.......|++..|.+.|+-....   +...++.|...-.+.|+.++|..++..+.
T Consensus       382 ~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~  456 (478)
T KOG1129|consen  382 QRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAK  456 (478)
T ss_pred             HHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhh
Confidence            55443322222  344444544445555555555555544433   33445555544455555555555555444

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.56  E-value=1.6e-10  Score=94.09  Aligned_cols=185  Identities=14%  Similarity=0.113  Sum_probs=115.5

Q ss_pred             HHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCh
Q 012804           49 IDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKP  128 (456)
Q Consensus        49 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  128 (456)
                      +.-+....++..|+.+++.-...+-+....+-.-+..++...|++++|...+..+.... .++...+..|.-++.-.|.+
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y  107 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQY  107 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHH
Confidence            44455678999999999887654433233344446677889999999999999888753 45666777788888888999


Q ss_pred             hHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 012804          129 DEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKEL  208 (456)
Q Consensus       129 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  208 (456)
                      .+|..+-....     .++-.-..|.....+.++-++...+-+.+.+.     ...--+|.......-.+++|++++.+.
T Consensus       108 ~eA~~~~~ka~-----k~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrv  177 (557)
T KOG3785|consen  108 IEAKSIAEKAP-----KTPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRV  177 (557)
T ss_pred             HHHHHHHhhCC-----CChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            99988866543     22333344445555666666666555555432     122233444444445677777777777


Q ss_pred             hhCCCCCCHHHHHHHH-HHHHhcCchhHHHHHHHHHHHc
Q 012804          209 GDSGHAPNAITYTTIM-KCCFRNRKYKLGLEILSAMKRK  246 (456)
Q Consensus       209 ~~~~~~~~~~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~  246 (456)
                      ...+  |.....+..+ -+|.+..=++.+.+++....+.
T Consensus       178 L~dn--~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q  214 (557)
T KOG3785|consen  178 LQDN--PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ  214 (557)
T ss_pred             HhcC--hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh
Confidence            6532  3444444333 3444555556666666666554

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

Probab=99.55  E-value=4.6e-12  Score=114.57  Aligned_cols=275  Identities=16%  Similarity=0.154  Sum_probs=193.8

Q ss_pred             HHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 012804           63 TILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGD  142 (456)
Q Consensus        63 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  142 (456)
                      .++..+...|+.|+..||..+|.-||..|+.+.|- +|.-|.-...+.+...++.++......++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            35666778889999999999999999999999888 8888888888888888999988888888877665          


Q ss_pred             CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhh-CCCCCCHHHHH
Q 012804          143 LTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGD-SGHAPNAITYT  221 (456)
Q Consensus       143 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~  221 (456)
                       .|.+.+|..+..+|...||...    |+...+        ....+...+...|.......++..+.- .+..||..+. 
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~----fe~veq--------dLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~-  145 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLIL----FEVVEQ--------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENA-  145 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHH----HHHHHH--------HHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHH-
Confidence             6778899999999999998876    322222        122234445555655555555544322 2233444433 


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcC
Q 012804          222 TIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEG  301 (456)
Q Consensus       222 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  301 (456)
                        +......|-++.+++++..+.... ...+...  +++-+..  ...-.+++........-.|++.+|..++.+-...|
T Consensus       146 --illlv~eglwaqllkll~~~Pvsa-~~~p~~v--fLrqnv~--~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag  218 (1088)
T KOG4318|consen  146 --ILLLVLEGLWAQLLKLLAKVPVSA-WNAPFQV--FLRQNVV--DNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAG  218 (1088)
T ss_pred             --HHHHHHHHHHHHHHHHHhhCCccc-ccchHHH--HHHHhcc--CCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcC
Confidence              233344566666666665544321 1111111  2333322  22333444444433322589999999999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC
Q 012804          302 KLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGK  372 (456)
Q Consensus       302 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  372 (456)
                      +.+.|..++.+|.+.|++.+.+-|..|+-+   .++...++.+++.|...|+.|+.+++...+..+...|.
T Consensus       219 ~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  219 DVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             chhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            999999999999999999999988888755   88889999999999999999999999888777766444

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.55  E-value=9.3e-12  Score=103.34  Aligned_cols=198  Identities=13%  Similarity=0.043  Sum_probs=147.3

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHH
Q 012804          252 GFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDG  331 (456)
Q Consensus       252 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  331 (456)
                      ...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+... .+...+..+...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~~~~  108 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNP-NNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHH
Confidence            4455566677777788888888887777653 22566677777778888888888888887776532 245566777777


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHH
Q 012804          332 LCKAGNIKGARLHLEYMNKIGF-DSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSA  407 (456)
Q Consensus       332 ~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A  407 (456)
                      +...|++++|...++.+..... +.....+..+..++...|++++|.+.+++....   +...+..++..+...|++++|
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHH
Confidence            7888888888888888776421 223456667777888888888888888877665   456777888888899999999


Q ss_pred             HHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhc
Q 012804          408 SKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMA  452 (456)
Q Consensus       408 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  452 (456)
                      ...++++.+. .+.+...+..++..+...|+.++|..+.+.+...
T Consensus       189 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       189 RAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            9999998876 3446677777888888899999999988877654

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.

>PRK12370 invasion protein regulator; Provisional

Probab=99.55  E-value=9.9e-12  Score=115.35  Aligned_cols=264  Identities=11%  Similarity=-0.013  Sum_probs=186.6

Q ss_pred             cHHHHHHHHHHHHH-----cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHH---------hcCchhHHHHHHHHHHHc
Q 012804          181 ELVTYNILIKGLCK-----AGRLRTARWILKELGDSGHAPNAITYTTIMKCCF---------RNRKYKLGLEILSAMKRK  246 (456)
Q Consensus       181 ~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~~  246 (456)
                      +...|...+.+...     .+.+++|...|++..+..+. +...+..+..++.         ..+++++|...++++.+.
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ldP~-~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~l  333 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMSPN-SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATEL  333 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhc
Confidence            44555555444211     23467899999998875433 4455555555443         234578999999999988


Q ss_pred             CCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHH
Q 012804          247 GYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHT  326 (456)
Q Consensus       247 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  326 (456)
                      + +.+...+..+...+...|++++|...+++.++.++. +...+..+...+...|++++|...+++..+.+.. +...+.
T Consensus       334 d-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~  410 (553)
T PRK12370        334 D-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGI  410 (553)
T ss_pred             C-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHH
Confidence            6 667788888888889999999999999999987543 6777888899999999999999999999886433 223333


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCC
Q 012804          327 ILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKR  403 (456)
Q Consensus       327 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~  403 (456)
                      .++..+...|++++|...++++.....+.+...+..+..++...|+.++|...+.++...   +....+.+...|...| 
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            444456678999999999999876532334566777888899999999999999987765   3344555666667777 


Q ss_pred             hhHHHHHHHHHHHc-CCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhcc
Q 012804          404 LPSASKLLLSCLKS-GVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAK  453 (456)
Q Consensus       404 ~~~A~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  453 (456)
                       ++|...++++.+. .-.+....+  ....+.-.|+.+.+..+ +++.+.+
T Consensus       490 -~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        490 -ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             -HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhccc
Confidence             4788877777654 222332333  34445556777777666 7666543

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

Probab=99.55  E-value=1.5e-12  Score=104.30  Aligned_cols=233  Identities=12%  Similarity=0.005  Sum_probs=187.3

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHH
Q 012804          216 NAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLIN  295 (456)
Q Consensus       216 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  295 (456)
                      |..--..+.++|.+.|-+.+|.+.++..++.  .|.+.+|..+-..|.+..+++.|..++.+-++. .+.++.....+.+
T Consensus       222 dwwWk~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~AR  298 (478)
T KOG1129|consen  222 DWWWKQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQAR  298 (478)
T ss_pred             hHHHHHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHH
Confidence            3333456778889999999999988888876  566778888888999999999999999888876 4446666667778


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHH
Q 012804          296 LYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDH  375 (456)
Q Consensus       296 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  375 (456)
                      .+-..++.++|.++++...+.. ..+.+....+...|.-.++++-|..++++++..| ..+.+.|..+.-+|.-.+.+|-
T Consensus       299 i~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG-~~speLf~NigLCC~yaqQ~D~  376 (478)
T KOG1129|consen  299 IHEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMG-AQSPELFCNIGLCCLYAQQIDL  376 (478)
T ss_pred             HHHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhc-CCChHHHhhHHHHHHhhcchhh
Confidence            8888899999999999888763 3366677777778888889999999999999888 4567888888888888999999


Q ss_pred             HHHHHHHhccC------ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHH
Q 012804          376 AINVFESMEVK------DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKI  449 (456)
Q Consensus       376 a~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  449 (456)
                      ++.-|+++...      -..+|..+.......|++.-|.+.|+-++..+.. +...++.+.-.-.+.|+.++|+.+++..
T Consensus       377 ~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNLavL~~r~G~i~~Arsll~~A  455 (478)
T KOG1129|consen  377 VLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNLAVLAARSGDILGARSLLNAA  455 (478)
T ss_pred             hHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhHHHHHhhcCchHHHHHHHHHh
Confidence            98888877654      4567888888888899999999999888877544 6788888888888899999999988877


Q ss_pred             Hhccc
Q 012804          450 RMAKI  454 (456)
Q Consensus       450 ~~~~~  454 (456)
                      ....+
T Consensus       456 ~s~~P  460 (478)
T KOG1129|consen  456 KSVMP  460 (478)
T ss_pred             hhhCc
Confidence            65443

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

Probab=99.53  E-value=2.4e-09  Score=89.09  Aligned_cols=268  Identities=10%  Similarity=-0.043  Sum_probs=114.7

Q ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHH
Q 012804          179 VPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTV  258 (456)
Q Consensus       179 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  258 (456)
                      +.|......+...+...|+.++|...|++....++. +........-.+.+.|+.+....+...+.... .-+...|-.-
T Consensus       229 r~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy-~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~  306 (564)
T KOG1174|consen  229 RCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPD-NVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVH  306 (564)
T ss_pred             CccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChh-hhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhh
Confidence            334444444555555555555555555544332110 11111112222334444444444444444321 1111112222


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCH
Q 012804          259 IAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNI  338 (456)
Q Consensus       259 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  338 (456)
                      +.......++..|..+-++.++.+.. +...+..-...+...|++++|.-.|+...... +-+..+|..|+..|...|.+
T Consensus       307 ~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~  384 (564)
T KOG1174|consen  307 AQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRF  384 (564)
T ss_pred             hhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchH
Confidence            22233344555555555555443222 33333333344445555555555555544431 12444555555555555555


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHH-HHHH-hCCCHHHHHHHHHHhccCC---hhhHHHHHHHHHccCChhHHHHHHHH
Q 012804          339 KGARLHLEYMNKIGFDSNLEAYNCIV-DRLG-KDGKIDHAINVFESMEVKD---SFTYSSMVHNLCKAKRLPSASKLLLS  413 (456)
Q Consensus       339 ~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~g~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~  413 (456)
                      .+|...-+...+. ++.+..+...+. ..+. ...--++|.+++++....+   ......+...+...|....++.++++
T Consensus       385 kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~  463 (564)
T KOG1174|consen  385 KEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEK  463 (564)
T ss_pred             HHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHH
Confidence            5555544444332 233444443332 2221 1222344555555444432   22333444445555555555555555


Q ss_pred             HHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhcc
Q 012804          414 CLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAK  453 (456)
Q Consensus       414 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  453 (456)
                      .+..  .||....+.+++.+...+.+++|...|....+.+
T Consensus       464 ~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~d  501 (564)
T KOG1174|consen  464 HLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQD  501 (564)
T ss_pred             HHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            5432  3455555555555555555555555555544443

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.52  E-value=1.5e-08  Score=89.25  Aligned_cols=363  Identities=11%  Similarity=0.075  Sum_probs=198.4

Q ss_pred             hHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCC----------------------hhHHHHHH
Q 012804           78 VTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGK----------------------PDEANRVF  135 (456)
Q Consensus        78 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------------------~~~a~~~~  135 (456)
                      ..|++|...|.+.|.+++|.++|++....-  .++.-|..+.+.|+....                      ++-...-|
T Consensus       249 ~Lw~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~  326 (835)
T KOG2047|consen  249 FLWCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARF  326 (835)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHH
Confidence            346777777788888888888877776632  233344445554443211                      12222233


Q ss_pred             HHHHhCC-----------CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCc------HHHHHHHHHHHHHcCCH
Q 012804          136 QDMICGD-----------LTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPE------LVTYNILIKGLCKAGRL  198 (456)
Q Consensus       136 ~~~~~~~-----------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~  198 (456)
                      +.+....           -+.++..|..-  .-...|+..+....+.+..+. +.|.      ...|..+.+.|-..|++
T Consensus       327 e~lm~rr~~~lNsVlLRQn~~nV~eW~kR--V~l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l  403 (835)
T KOG2047|consen  327 ESLMNRRPLLLNSVLLRQNPHNVEEWHKR--VKLYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDL  403 (835)
T ss_pred             HHHHhccchHHHHHHHhcCCccHHHHHhh--hhhhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcH
Confidence            3333221           01122222222  222345566666667666554 2222      24567778888888888


Q ss_pred             HHHHHHHHHHhhCCCCCC---HHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCC-----------c------ChhhHHHH
Q 012804          199 RTARWILKELGDSGHAPN---AITYTTIMKCCFRNRKYKLGLEILSAMKRKGYT-----------F------DGFGYCTV  258 (456)
Q Consensus       199 ~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----------~------~~~~~~~l  258 (456)
                      +.|..+|++..+...+.-   ..+|..-...-.+..+++.|+++.++.....-.           +      +...|...
T Consensus       404 ~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y  483 (835)
T KOG2047|consen  404 DDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMY  483 (835)
T ss_pred             HHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHH
Confidence            888888888776543321   233444445555677788888877776532111           1      22334445


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCH-HhHHHHHHHHHh---
Q 012804          259 IAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDK-YTHTILIDGLCK---  334 (456)
Q Consensus       259 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~---  334 (456)
                      +...-..|-++....+++.+++..+. ++.........+-.+.-++++.+++++-+..-..|+. ..|+..+..+.+   
T Consensus       484 ~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~ryg  562 (835)
T KOG2047|consen  484 ADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYG  562 (835)
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhc
Confidence            55555667888888888888876554 3433333333444566677888888776654334443 345555544432   


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHH--HHHHhCCCHHHHHHHHHHhccC-----ChhhHHHHHHHHHccCChhHH
Q 012804          335 AGNIKGARLHLEYMNKIGFDSNLEAYNCIV--DRLGKDGKIDHAINVFESMEVK-----DSFTYSSMVHNLCKAKRLPSA  407 (456)
Q Consensus       335 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~A  407 (456)
                      ....+.|..+|++.++ +.+|...-+..|+  ..-.+-|-...|+++++++...     ....|+..|.--...=-+...
T Consensus       563 g~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~v~~a~~l~myni~I~kaae~yGv~~T  641 (835)
T KOG2047|consen  563 GTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEIYGVPRT  641 (835)
T ss_pred             CCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCccc
Confidence            2357889999999888 5555432222222  2223457788888888887655     233455444433332233444


Q ss_pred             HHHHHHHHHcCCCCCHHhH---HHHHHHHHccCChHHHHHHHHHH
Q 012804          408 SKLLLSCLKSGVRILKSAQ---KAVVDGLRHSGCRREAKKIQSKI  449 (456)
Q Consensus       408 ~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~g~~~~A~~~~~~~  449 (456)
                      ..+|+++++.  -|+...-   ......-.+.|..+.|+.++.--
T Consensus       642 R~iYekaIe~--Lp~~~~r~mclrFAdlEtklGEidRARaIya~~  684 (835)
T KOG2047|consen  642 REIYEKAIES--LPDSKAREMCLRFADLETKLGEIDRARAIYAHG  684 (835)
T ss_pred             HHHHHHHHHh--CChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhh
Confidence            5566666554  2233221   12334445566666666665443

>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=99.51  E-value=7.2e-10  Score=99.59  Aligned_cols=260  Identities=12%  Similarity=0.070  Sum_probs=127.5

Q ss_pred             HHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhc--
Q 012804           48 LIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQL--  125 (456)
Q Consensus        48 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--  125 (456)
                      ....+...|++++|++.++.-... +.............+.+.|+.++|..++..++++++. |..-|..+..+..-.  
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPd-n~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPD-NYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHhhhcc
Confidence            345556778888888777665443 2333445566677777778888888888888777632 343444444444222  


Q ss_pred             ---CChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCh-HHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHH
Q 012804          126 ---GKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYT-DNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTA  201 (456)
Q Consensus       126 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  201 (456)
                         .+.+...++|+++...-  |.......+.-.+.....+ ..+..++..+...|+|   .+|+.+-..|.......-.
T Consensus        88 ~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i  162 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAII  162 (517)
T ss_pred             cccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHH
Confidence               24566666777665543  3222222222222221222 2344555556666654   2344444444444444434


Q ss_pred             HHHHHHHhhC----C----------CCCCH--HHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHc
Q 012804          202 RWILKELGDS----G----------HAPNA--ITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKI  265 (456)
Q Consensus       202 ~~~~~~~~~~----~----------~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  265 (456)
                      ..++......    +          -+|+.  .++..+...|...|++++|+++++..++.. |..+..|..-...+-+.
T Consensus       163 ~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht-Pt~~ely~~KarilKh~  241 (517)
T PF12569_consen  163 ESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT-PTLVELYMTKARILKHA  241 (517)
T ss_pred             HHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHC
Confidence            4444333221    0          01222  122333444445555555555555555442 22244444444555555


Q ss_pred             CChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 012804          266 GRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQ  316 (456)
Q Consensus       266 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  316 (456)
                      |++.+|.+.++.....+.. |...-+..+..+.+.|+.++|.+++....+.
T Consensus       242 G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~  291 (517)
T PF12569_consen  242 GDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTRE  291 (517)
T ss_pred             CCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCC
Confidence            5555555555555544332 4444444444455555555555555554443

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 [], [].

>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=99.50  E-value=3.2e-10  Score=101.81  Aligned_cols=288  Identities=18%  Similarity=0.134  Sum_probs=148.4

Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHh-----c
Q 012804          156 GLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFR-----N  230 (456)
Q Consensus       156 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~  230 (456)
                      .+...|++++|++.++.-... +.............+.+.|+.++|..++..+...++. +..-|..+..+...     .
T Consensus        13 il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPd-n~~Yy~~L~~~~g~~~~~~~   90 (517)
T PF12569_consen   13 ILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPD-NYDYYRGLEEALGLQLQLSD   90 (517)
T ss_pred             HHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHhhhccccc
Confidence            344455555555555443333 2223333444455555555555555555555554321 22222333333211     1


Q ss_pred             CchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCCh-HHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHH
Q 012804          231 RKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRL-KEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLL  309 (456)
Q Consensus       231 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  309 (456)
                      .+.+....+++.+...-  |.......+.-.+.....+ ..+..++..+...|+++   +|+.+-..|.......-...+
T Consensus        91 ~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l  165 (517)
T PF12569_consen   91 EDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESL  165 (517)
T ss_pred             ccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHH
Confidence            13344455555554432  2211111111111111112 12334445555555432   344444444433333333333


Q ss_pred             HHHHHHc----C----------CCcCH--HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCH
Q 012804          310 LDEMEKQ----G----------FECDK--YTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKI  373 (456)
Q Consensus       310 ~~~~~~~----~----------~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  373 (456)
                      +......    +          -.|+.  .++..+.+.|...|++++|..+++..+... |..++.|..-+..+-+.|++
T Consensus       166 ~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht-Pt~~ely~~KarilKh~G~~  244 (517)
T PF12569_consen  166 VEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT-PTLVELYMTKARILKHAGDL  244 (517)
T ss_pred             HHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHCCCH
Confidence            3333211    0          12232  234555666777788888888888777762 33367777777777788888


Q ss_pred             HHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHH------hH--HHHHHHHHccCChHHH
Q 012804          374 DHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKS------AQ--KAVVDGLRHSGCRREA  442 (456)
Q Consensus       374 ~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~------~~--~~l~~~~~~~g~~~~A  442 (456)
                      .+|.+.++.+...   |...-+..+..+.+.|+.++|.+.+......+..|...      .|  ...+.+|.+.|++..|
T Consensus       245 ~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~A  324 (517)
T PF12569_consen  245 KEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLA  324 (517)
T ss_pred             HHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence            8888877777666   55556666777777888888888777776554322211      11  2345678888888888


Q ss_pred             HHHHHHHHh
Q 012804          443 KKIQSKIRM  451 (456)
Q Consensus       443 ~~~~~~~~~  451 (456)
                      ++.|..+.+
T Consensus       325 Lk~~~~v~k  333 (517)
T PF12569_consen  325 LKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHH
Confidence            877766654

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 [], [].

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.48  E-value=3.6e-11  Score=106.45  Aligned_cols=236  Identities=16%  Similarity=0.123  Sum_probs=164.5

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHHc-----C-CCcC-hhhHHHHHHHHHHcCChHHHHHHHHHHHHC-----CC-
Q 012804          217 AITYTTIMKCCFRNRKYKLGLEILSAMKRK-----G-YTFD-GFGYCTVIAAFVKIGRLKEATDYMEQMVTD-----GV-  283 (456)
Q Consensus       217 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-  283 (456)
                      ..+...+...|...|+++.|..+++...+.     | ..|. ....+.+...|...+++.+|..+|+++...     |. 
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            344455666777777777777777666543     1 0122 223334667788888888888888888763     11 


Q ss_pred             -ccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-----CC-CcCH-HhHHHHHHHHHhcCCHHHHHHHHHHHHhC---C
Q 012804          284 -QLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQ-----GF-ECDK-YTHTILIDGLCKAGNIKGARLHLEYMNKI---G  352 (456)
Q Consensus       284 -~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~  352 (456)
                       +--..+++.|..+|.+.|++++|...+++..+.     +. .|.. ..++.+...|...+++++|..+++...+.   -
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             112356677778889999998888887776431     11 1222 24566777788889999999888876543   1


Q ss_pred             CCC----CHHHHHHHHHHHHhCCCHHHHHHHHHHhccC-----------ChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          353 FDS----NLEAYNCIVDRLGKDGKIDHAINVFESMEVK-----------DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       353 ~~~----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      +.+    -..++..+...|...|++++|.++++++...           ....++.+...|.+.+++.+|.++|.+....
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            112    2467888999999999999999999988765           2345778888999999999999888876432


Q ss_pred             ----CC--CCCHHhHHHHHHHHHccCChHHHHHHHHHHHhc
Q 012804          418 ----GV--RILKSAQKAVVDGLRHSGCRREAKKIQSKIRMA  452 (456)
Q Consensus       418 ----~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  452 (456)
                          |+  +....+|..|+.+|...|++++|.++.+.+.+.
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~~  479 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLNA  479 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence                32  122357888999999999999999998888754

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.45  E-value=1.4e-09  Score=93.59  Aligned_cols=399  Identities=16%  Similarity=0.072  Sum_probs=241.6

Q ss_pred             HHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCC-HhHHHHHHHHHHcCCC
Q 012804           14 VCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPD-VVTYNSLIAGATRNSL   92 (456)
Q Consensus        14 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~   92 (456)
                      -++.+..|+++.|+..|.+.+...+. |...|..-..+|...|++++|++=-.+-.+.  .|+ +..|.....++.-.|+
T Consensus         9 gnaa~s~~d~~~ai~~~t~ai~l~p~-nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~   85 (539)
T KOG0548|consen    9 GNAAFSSGDFETAIRLFTEAIMLSPT-NHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGD   85 (539)
T ss_pred             HHhhcccccHHHHHHHHHHHHccCCC-ccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhccc
Confidence            35677899999999999999998865 8889999999999999999998776666654  455 5678999999999999


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHH------HHHHhC---CCCCChhHHHHHHHHHHhc---
Q 012804           93 LSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVF------QDMICG---DLTPCTATFNIMLNGLCKN---  160 (456)
Q Consensus        93 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~------~~~~~~---~~~~~~~~~~~l~~~~~~~---  160 (456)
                      +++|+..|.+-++.... +...+..+..++...  . .+.+.|      ..+...   ........|..++..+-+.   
T Consensus        86 ~~eA~~ay~~GL~~d~~-n~~L~~gl~~a~~~~--~-~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~  161 (539)
T KOG0548|consen   86 YEEAILAYSEGLEKDPS-NKQLKTGLAQAYLED--Y-AADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTS  161 (539)
T ss_pred             HHHHHHHHHHHhhcCCc-hHHHHHhHHHhhhHH--H-HhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHh
Confidence            99999999998886433 566666676666111  0 001111      111000   0000111222222211110   


Q ss_pred             -------CChHHHHHHHHHHH-----hC-------CCCC----------------------cHHHHHHHHHHHHHcCCHH
Q 012804          161 -------RYTDNALRMFRGLQ-----KH-------GFVP----------------------ELVTYNILIKGLCKAGRLR  199 (456)
Q Consensus       161 -------~~~~~a~~~~~~~~-----~~-------~~~~----------------------~~~~~~~l~~~~~~~~~~~  199 (456)
                             .....+...+....     ..       +..|                      -..-...+.++..+..++.
T Consensus       162 l~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~  241 (539)
T KOG0548|consen  162 LKLYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFE  241 (539)
T ss_pred             hhcccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHH
Confidence                   00111111110000     00       0011                      0112344566666677777


Q ss_pred             HHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHH-------HHHHHHHcCChHHHH
Q 012804          200 TARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCT-------VIAAFVKIGRLKEAT  272 (456)
Q Consensus       200 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------l~~~~~~~~~~~~a~  272 (456)
                      .+.+.+.......  -+..-++....+|...|.+..+........+.| .....-++.       +..++.+.++.+.++
T Consensus       242 ~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~g-re~rad~klIak~~~r~g~a~~k~~~~~~ai  318 (539)
T KOG0548|consen  242 TAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVG-RELRADYKLIAKALARLGNAYTKREDYEGAI  318 (539)
T ss_pred             HHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHh-HHHHHHHHHHHHHHHHhhhhhhhHHhHHHHH
Confidence            7777777766643  244445566667777777777766666655554 212222222       333555566777777


Q ss_pred             HHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 012804          273 DYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIG  352 (456)
Q Consensus       273 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  352 (456)
                      ..|++.+.....|+.         ..+....+++........-.+... ..-...-...+.+.|++..|+..+.++++..
T Consensus       319 ~~~~kaLte~Rt~~~---------ls~lk~~Ek~~k~~e~~a~~~pe~-A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~  388 (539)
T KOG0548|consen  319 KYYQKALTEHRTPDL---------LSKLKEAEKALKEAERKAYINPEK-AEEEREKGNEAFKKGDYPEAVKHYTEAIKRD  388 (539)
T ss_pred             HHHHHHhhhhcCHHH---------HHHHHHHHHHHHHHHHHHhhChhH-HHHHHHHHHHHHhccCHHHHHHHHHHHHhcC
Confidence            777776654333322         123334444444444443322221 1122222556778899999999999988875


Q ss_pred             CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCCh---hhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHH
Q 012804          353 FDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDS---FTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAV  429 (456)
Q Consensus       353 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l  429 (456)
                       |.|...|..-.-+|.+.|.+..|++-.+..++.++   ..|..-+.++....++++|.+.|++.++.++. +......+
T Consensus       389 -P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp~-~~e~~~~~  466 (539)
T KOG0548|consen  389 -PEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELDPS-NAEAIDGY  466 (539)
T ss_pred             -CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCch-hHHHHHHH
Confidence             77788898888999999999999888887777643   45555566777788899999999999877532 44455555


Q ss_pred             HHHHH
Q 012804          430 VDGLR  434 (456)
Q Consensus       430 ~~~~~  434 (456)
                      ..+..
T Consensus       467 ~rc~~  471 (539)
T KOG0548|consen  467 RRCVE  471 (539)
T ss_pred             HHHHH
Confidence            55544

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.44  E-value=3.3e-10  Score=100.50  Aligned_cols=236  Identities=15%  Similarity=0.095  Sum_probs=123.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhC-----C-CCCcHHH-HHHHHHHHHHcCCHHHHHHHHHHHhhC-----C--C
Q 012804          148 ATFNIMLNGLCKNRYTDNALRMFRGLQKH-----G-FVPELVT-YNILIKGLCKAGRLRTARWILKELGDS-----G--H  213 (456)
Q Consensus       148 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~  213 (456)
                      .+...+...|...|+++.|+.+++...+.     | ..|...+ .+.+...|...+++++|..+|+.+...     |  .
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            33344555555555555555555544332     1 1122222 233556667777777777777665431     1  1


Q ss_pred             CCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcC------CCcC-hhhHHHHHHHHHHcCChHHHHHHHHHHHHC---CC
Q 012804          214 APNAITYTTIMKCCFRNRKYKLGLEILSAMKRKG------YTFD-GFGYCTVIAAFVKIGRLKEATDYMEQMVTD---GV  283 (456)
Q Consensus       214 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~  283 (456)
                      +.-..++..|..+|.+.|++++|...++++.+.-      ..+. ...++.+...+...+++++|..+++...+.   -+
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence            1123445566667777777777776666554321      0111 123444555566666777777666655432   01


Q ss_pred             cc----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CC--Cc-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-
Q 012804          284 QL----DIVSYNTLINLYCKEGKLEAAYLLLDEMEKQ----GF--EC-DKYTHTILIDGLCKAGNIKGARLHLEYMNKI-  351 (456)
Q Consensus       284 ~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  351 (456)
                      .+    -..+++.+...|...|++++|.++++.+...    +.  .+ ....++.+...|.+.+.+++|.++|.+.... 
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence            11    2345666677777777777777777665432    11  11 1334566666666666666666666654321 


Q ss_pred             ---C--CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHh
Q 012804          352 ---G--FDSNLEAYNCIVDRLGKDGKIDHAINVFESM  383 (456)
Q Consensus       352 ---~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  383 (456)
                         |  .+....+|..|+..|...|+++.|.++.+.+
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~  476 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKV  476 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence               1  1122345555555666666666665555543

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

Probab=99.43  E-value=7e-10  Score=85.00  Aligned_cols=197  Identities=10%  Similarity=-0.006  Sum_probs=108.1

Q ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHc
Q 012804           10 LNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATR   89 (456)
Q Consensus        10 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   89 (456)
                      ...|.-.|.+.|++..|..-++++++.++. +..+|..+...|.+.|..+.|.+.|++..+.. +.+....|.....+|.
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~  115 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHh
Confidence            334445566666666666666666665532 44556666666666666666666666665542 2234455555555666


Q ss_pred             CCChhHHHHHHHHHHHCC-CCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHH
Q 012804           90 NSLLSCSLDLLDEMLEMG-IPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALR  168 (456)
Q Consensus        90 ~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  168 (456)
                      .|++++|...|++....- ...-..+|..+.-+..+.|+++.|...|++.+... +....+...+.....+.|++-.|..
T Consensus       116 qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar~  194 (250)
T COG3063         116 QGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPARL  194 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHHH
Confidence            666666666666655431 11123455555555666666666666666655544 3334445555555556666666666


Q ss_pred             HHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 012804          169 MFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGD  210 (456)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  210 (456)
                      .++.....+. ++..+.-..|+.-...|+.+.+.++=.++..
T Consensus       195 ~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         195 YLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            6655555533 4555555555555555555555554444433

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.41  E-value=3e-10  Score=96.58  Aligned_cols=225  Identities=13%  Similarity=-0.050  Sum_probs=157.2

Q ss_pred             HHcCCHHHHHHHHHHHhhCCC-CC--CHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChH
Q 012804          193 CKAGRLRTARWILKELGDSGH-AP--NAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLK  269 (456)
Q Consensus       193 ~~~~~~~~a~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  269 (456)
                      ...+..+.++.-+.++..... .|  ....|..+...+...|+.+.|...|++..+.. +.+...+..+...+...|+++
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            344667778888888775322 22  23457777788889999999999999999886 667888999999999999999


Q ss_pred             HHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012804          270 EATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMN  349 (456)
Q Consensus       270 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  349 (456)
                      +|...|+..++..+. +...+..+..++...|++++|.+.++...+..  |+..........+...++.++|...+....
T Consensus       116 ~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~  192 (296)
T PRK11189        116 AAYEAFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRY  192 (296)
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            999999999886443 56778888888899999999999999988763  333211222222345678999999997755


Q ss_pred             hCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhc---cC-------ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCC
Q 012804          350 KIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESME---VK-------DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGV  419 (456)
Q Consensus       350 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~-------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  419 (456)
                      ... +|+...+ .+  .....|+...+ +.+..+.   ..       ...+|..++..+.+.|++++|+..|+++++.++
T Consensus       193 ~~~-~~~~~~~-~~--~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        193 EKL-DKEQWGW-NI--VEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             hhC-CccccHH-HH--HHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            432 3332222 22  23335555433 2333332   21       346788999999999999999999999987753


Q ss_pred             CCCHHhHH
Q 012804          420 RILKSAQK  427 (456)
Q Consensus       420 ~~~~~~~~  427 (456)
                      . |..-+.
T Consensus       268 ~-~~~e~~  274 (296)
T PRK11189        268 Y-NFVEHR  274 (296)
T ss_pred             c-hHHHHH
Confidence            3 444333

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.40  E-value=1.1e-09  Score=93.11  Aligned_cols=222  Identities=13%  Similarity=-0.002  Sum_probs=149.6

Q ss_pred             HhcCChHHHHHHHHHHHhCC-CCCc--HHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchh
Q 012804          158 CKNRYTDNALRMFRGLQKHG-FVPE--LVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYK  234 (456)
Q Consensus       158 ~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  234 (456)
                      ...+..+.++.-+.++.... ..|+  ...|..+...+...|++++|...|.+..+..+. +...|..+...+...|+++
T Consensus        37 ~~~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~~~~~g~~~  115 (296)
T PRK11189         37 QPTLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPD-MADAYNYLGIYLTQAGNFD  115 (296)
T ss_pred             CCchHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCCHH
Confidence            34466677888887777542 1222  355777777888889999999999888876543 6788888888889999999


Q ss_pred             HHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012804          235 LGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEME  314 (456)
Q Consensus       235 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  314 (456)
                      .|...++...+.. +.+...+..+..++...|++++|...++...+.++. +. ........+...+++++|...+.+..
T Consensus       116 ~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~-~~-~~~~~~~l~~~~~~~~~A~~~l~~~~  192 (296)
T PRK11189        116 AAYEAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPN-DP-YRALWLYLAESKLDPKQAKENLKQRY  192 (296)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CH-HHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            9999999988775 555667777888888889999999999888876432 22 11222223345678889998887655


Q ss_pred             HcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CC-----CCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCCh
Q 012804          315 KQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKI-GF-----DSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDS  388 (456)
Q Consensus       315 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~-----~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  388 (456)
                      ... .|+... ..+  .....|+...+ ..+..+.+. ..     +.....|..++..+.+.|++++|+..|+++...++
T Consensus       193 ~~~-~~~~~~-~~~--~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        193 EKL-DKEQWG-WNI--VEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             hhC-CccccH-HHH--HHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            432 222221 222  23345555444 344444421 00     12245788888888999999999999998877654

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

Probab=99.38  E-value=2.3e-09  Score=82.22  Aligned_cols=197  Identities=15%  Similarity=0.056  Sum_probs=117.3

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHH
Q 012804          115 YNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCK  194 (456)
Q Consensus       115 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  194 (456)
                      ...|.-.|...|+...|..-+++.++.+ +.+..+|..+...|.+.|+.+.|.+.|++..+.. +.+..+.|.....+|.
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~  115 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHh
Confidence            3345556666666666666666666655 4555666666666666666666666666666552 2345556666666666


Q ss_pred             cCCHHHHHHHHHHHhhCCC-CCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHH
Q 012804          195 AGRLRTARWILKELGDSGH-APNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATD  273 (456)
Q Consensus       195 ~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  273 (456)
                      .|++++|...|++...... ..-..+|..+.-+..+.|+++.|...+++.++.. +-.+.....+.......|++..|..
T Consensus       116 qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar~  194 (250)
T COG3063         116 QGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPARL  194 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHHH
Confidence            6666666666666554321 1123455555556666666666666666666654 3344455555666666666666666


Q ss_pred             HHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012804          274 YMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEK  315 (456)
Q Consensus       274 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  315 (456)
                      +++.....+. ++..+....|+.-...|+.+.+.+.=..+..
T Consensus       195 ~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         195 YLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            6666655543 5666666666666666666666555555544

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

Probab=99.37  E-value=2.7e-08  Score=88.22  Aligned_cols=205  Identities=8%  Similarity=-0.069  Sum_probs=127.4

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCC-CCH-HhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHH
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVL-PDV-VTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTY   80 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   80 (456)
                      +|-.+-.|..+...+...|+.+.+...+....+.... ++. .........+...|++++|.+.+++..+.. +.+...+
T Consensus         2 dp~~~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~   80 (355)
T cd05804           2 DPDFALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLAL   80 (355)
T ss_pred             CCccHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHH
Confidence            3455666777777777788888877777776654332 122 122223344567788888888888887653 2333333


Q ss_pred             HH---HHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHH
Q 012804           81 NS---LIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGL  157 (456)
Q Consensus        81 ~~---l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  157 (456)
                      ..   ........+....+.+.++.... ..+........+...+...|++++|.+.+++..... +.+...+..+...+
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~  158 (355)
T cd05804          81 KLHLGAFGLGDFSGMRDHVARVLPLWAP-ENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVL  158 (355)
T ss_pred             HHhHHHHHhcccccCchhHHHHHhccCc-CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHH
Confidence            32   11111224445555555544111 112223344456667788888888888888888765 55566777778888


Q ss_pred             HhcCChHHHHHHHHHHHhCCC-CCcH--HHHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 012804          158 CKNRYTDNALRMFRGLQKHGF-VPEL--VTYNILIKGLCKAGRLRTARWILKELGD  210 (456)
Q Consensus       158 ~~~~~~~~a~~~~~~~~~~~~-~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~  210 (456)
                      ...|++++|...+++...... .|+.  ..|..+...+...|++++|..++++...
T Consensus       159 ~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~  214 (355)
T cd05804         159 EMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIA  214 (355)
T ss_pred             HHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence            888888888888888776422 1222  2344677778888888888888887654

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.

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

Probab=99.33  E-value=4.8e-08  Score=86.60  Aligned_cols=92  Identities=18%  Similarity=0.143  Sum_probs=50.7

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCc-cCH--HHHHHHHHHHH
Q 012804          222 TIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQ-LDI--VSYNTLINLYC  298 (456)
Q Consensus       222 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~--~~~~~l~~~~~  298 (456)
                      .+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++....... ++.  ..|..+...+.
T Consensus       119 ~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~  197 (355)
T cd05804         119 MLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYL  197 (355)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHH
Confidence            34445555666666666666666554 334445555555666666666666666665554211 111  22334555666


Q ss_pred             hcCCHHHHHHHHHHHH
Q 012804          299 KEGKLEAAYLLLDEME  314 (456)
Q Consensus       299 ~~~~~~~a~~~~~~~~  314 (456)
                      ..|++++|..++++..
T Consensus       198 ~~G~~~~A~~~~~~~~  213 (355)
T cd05804         198 ERGDYEAALAIYDTHI  213 (355)
T ss_pred             HCCCHHHHHHHHHHHh
Confidence            6666666666666654

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.

>PF13041 PPR_2: PPR repeat family

Probab=99.33  E-value=4.9e-12  Score=75.07  Aligned_cols=40  Identities=43%  Similarity=0.836  Sum_probs=14.2

Q ss_pred             HHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHH
Q 012804           45 YNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLI   84 (456)
Q Consensus        45 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   84 (456)
                      ||.+|.+|++.|++++|.++|++|.+.|+.||..||+.++
T Consensus         6 yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li   45 (50)
T PF13041_consen    6 YNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILI   45 (50)
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            3333333333333333333333333333333333333333

>PF13041 PPR_2: PPR repeat family

Probab=99.32  E-value=7.1e-12  Score=74.40  Aligned_cols=50  Identities=30%  Similarity=0.583  Sum_probs=48.5

Q ss_pred             CchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHc
Q 012804            5 LSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQ   54 (456)
Q Consensus         5 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~   54 (456)
                      ||+.+||.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++++|++
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            89999999999999999999999999999999999999999999999874

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.31  E-value=3.3e-08  Score=78.98  Aligned_cols=315  Identities=12%  Similarity=0.084  Sum_probs=179.6

Q ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHH-HHHHHH
Q 012804           10 LNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNS-LIAGAT   88 (456)
Q Consensus        10 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~~   88 (456)
                      +.+.+..+.+..++++|++++..-.+..++ +....+.+..+|....++..|-+.++++...  .|...-|.. -...+-
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 FTAVVYRLIRDARYADAIQLLGSELERSPR-SRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLY   89 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHH
Confidence            556666777888888888888887776643 6777788888888888888888888888765  455555543 245556


Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHH--hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHH
Q 012804           89 RNSLLSCSLDLLDEMLEMGIPPDVW--SYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNA  166 (456)
Q Consensus        89 ~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  166 (456)
                      +.+.+..|+.+...|.+.   ++..  +...-.......+++..+..++++....+   +..+.+.......+.|+++.|
T Consensus        90 ~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaA  163 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAA  163 (459)
T ss_pred             HhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHH
Confidence            777888888888777653   2221  11111222345677888888877776433   344444555556678888888


Q ss_pred             HHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHH----HHHHHHHHHhcCchhHHHHHHHH
Q 012804          167 LRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAIT----YTTIMKCCFRNRKYKLGLEILSA  242 (456)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~l~~~~~~~~~~~~a~~~~~~  242 (456)
                      .+-|....+-+--.....|+..+ ++.+.|+++.|+++..++.+.|+...+..    ....+.+ ...|+.   ..+...
T Consensus       164 vqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDv-rsvgNt---~~lh~S  238 (459)
T KOG4340|consen  164 VQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDV-RSVGNT---LVLHQS  238 (459)
T ss_pred             HHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCch-hcccch---HHHHHH
Confidence            88888877654333445666544 44566788888888888877776522110    0000000 000000   000000


Q ss_pred             HHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHC-CCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcC
Q 012804          243 MKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTD-GVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECD  321 (456)
Q Consensus       243 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  321 (456)
                             .-...++.-...+.+.++++.|.+.+-+|... ....|+.|...+.-. -..+++.+..+-+.-+...++ -.
T Consensus       239 -------al~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~nP-fP  309 (459)
T KOG4340|consen  239 -------ALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQNP-FP  309 (459)
T ss_pred             -------HHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcCC-CC
Confidence                   00112233333455667777777666666432 122344444433221 123344444444444444433 34


Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHH
Q 012804          322 KYTHTILIDGLCKAGNIKGARLHLEY  347 (456)
Q Consensus       322 ~~~~~~l~~~~~~~~~~~~a~~~~~~  347 (456)
                      ..||..++-.|++..-++.|..++.+
T Consensus       310 ~ETFANlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  310 PETFANLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             hHHHHHHHHHHhhhHHHhHHHHHHhh
Confidence            56677777677777666666666554

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=99.30  E-value=1.6e-10  Score=96.61  Aligned_cols=249  Identities=13%  Similarity=0.073  Sum_probs=153.8

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCch
Q 012804          154 LNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKY  233 (456)
Q Consensus       154 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  233 (456)
                      ++-+.-.|++..++.-.+ ........+......+.+++...|+++.+.   ..+.... .|.......+...+....+-
T Consensus         8 vrn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~   82 (290)
T PF04733_consen    8 VRNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDK   82 (290)
T ss_dssp             HHHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTH
T ss_pred             HHHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccch
Confidence            344556788888886665 322222223444556678888888877544   3333332 56666665555555443444


Q ss_pred             hHHHHHHHHHHHcCCCc-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012804          234 KLGLEILSAMKRKGYTF-DGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDE  312 (456)
Q Consensus       234 ~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  312 (456)
                      +.+..-++......... +..........+...|++++|.+++...      .+.......+..|.+.++++.|.+.++.
T Consensus        83 e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~  156 (290)
T PF04733_consen   83 ESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKN  156 (290)
T ss_dssp             HCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            45544444433332222 2222333334555678888888877643      3566777788888889999999999988


Q ss_pred             HHHcCCCcCHHhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC--
Q 012804          313 MEKQGFECDKYTHTILIDGLCK----AGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK--  386 (456)
Q Consensus       313 ~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--  386 (456)
                      |.+.  . +..+...+..++..    .+.+.+|..+|+++.+. ++++..+.+.+..+....|++++|.+++.++...  
T Consensus       157 ~~~~--~-eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~  232 (290)
T PF04733_consen  157 MQQI--D-EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDP  232 (290)
T ss_dssp             HHCC--S-CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-C
T ss_pred             HHhc--C-CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc
Confidence            8764  2 33455555555432    23578899999987765 5678888888888888888888888888887766  


Q ss_pred             -ChhhHHHHHHHHHccCCh-hHHHHHHHHHHHc
Q 012804          387 -DSFTYSSMVHNLCKAKRL-PSASKLLLSCLKS  417 (456)
Q Consensus       387 -~~~~~~~l~~~~~~~~~~-~~A~~~~~~~~~~  417 (456)
                       ++.+...++.+....|+. +.+.+.+.++...
T Consensus       233 ~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  233 NDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             CHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             CCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence             667777777777777777 5566777777655

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=99.29  E-value=3.7e-08  Score=88.73  Aligned_cols=403  Identities=11%  Similarity=0.008  Sum_probs=276.7

Q ss_pred             CchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCC-CHhHHHHH
Q 012804            5 LSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISP-DVVTYNSL   83 (456)
Q Consensus         5 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l   83 (456)
                      .|+.+|..+.-++...|+++.+-+.|++....-. -....|..+...+...|.-..|..+++.-......| ++..+-..
T Consensus       321 nd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~-~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lma  399 (799)
T KOG4162|consen  321 NDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSF-GEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLMA  399 (799)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh-hhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHHH
Confidence            5788999999999999999999999999987544 366789999999999999999999998876553234 34444433


Q ss_pred             HHHHH-cCCChhHHHHHHHHHHHC--C--CCCCHHhHHHHHHHHHhc-----------CChhHHHHHHHHHHhCCCCCCh
Q 012804           84 IAGAT-RNSLLSCSLDLLDEMLEM--G--IPPDVWSYNSLMHCLFQL-----------GKPDEANRVFQDMICGDLTPCT  147 (456)
Q Consensus        84 ~~~~~-~~~~~~~a~~~~~~~~~~--~--~~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~  147 (456)
                      -..|. +.+.+++++++-.++...  +  -......|..+.-+|...           ....++++.+++..+.+ +.|+
T Consensus       400 sklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d-~~dp  478 (799)
T KOG4162|consen  400 SKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD-PTDP  478 (799)
T ss_pred             HHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC-CCCc
Confidence            44444 557788888877777662  1  112334455555444432           23578899999998876 4455


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 012804          148 ATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCC  227 (456)
Q Consensus       148 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  227 (456)
                      .+...+.--|+..++.+.|.+..++..+.+-..+...|..+.-.+...+++.+|+.+.+.....-.. |......-+..-
T Consensus       479 ~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~-N~~l~~~~~~i~  557 (799)
T KOG4162|consen  479 LVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGD-NHVLMDGKIHIE  557 (799)
T ss_pred             hHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhh-hhhhchhhhhhh
Confidence            5555555667888999999999999999866678899999999999999999999999876553111 111111112222


Q ss_pred             HhcCchhHHHHHHHHHHHc---------------------CC------C-cChhhHHHHHHHHHHcC---ChHHHHHHHH
Q 012804          228 FRNRKYKLGLEILSAMKRK---------------------GY------T-FDGFGYCTVIAAFVKIG---RLKEATDYME  276 (456)
Q Consensus       228 ~~~~~~~~a~~~~~~~~~~---------------------~~------~-~~~~~~~~l~~~~~~~~---~~~~a~~~~~  276 (456)
                      ..-++.+++......+...                     +.      + ....++..+.......+   ..+..     
T Consensus       558 ~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~-----  632 (799)
T KOG4162|consen  558 LTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELK-----  632 (799)
T ss_pred             hhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccc-----
Confidence            2344444444433332211                     00      0 01111221111111000   00100     


Q ss_pred             HHHHCCCc--cC------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 012804          277 QMVTDGVQ--LD------IVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYM  348 (456)
Q Consensus       277 ~~~~~~~~--~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  348 (456)
                       +......  |+      ...|......+.+.+..++|...+.+..... +.....|......+...|..++|...|...
T Consensus       633 -Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~A  710 (799)
T KOG4162|consen  633 -LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVA  710 (799)
T ss_pred             -cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHH
Confidence             1111111  12      2345566677888999999998888887753 446778888888889999999999999999


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhCCCHHHHHH--HHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          349 NKIGFDSNLEAYNCIVDRLGKDGKIDHAIN--VFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       349 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~--~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      ...+ |.+.....++..++.+.|+..-|..  ++..+.+.   ++..|..++..+.+.|+.++|.+.|+.+.+..
T Consensus       711 l~ld-P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe  784 (799)
T KOG4162|consen  711 LALD-PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLE  784 (799)
T ss_pred             HhcC-CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhc
Confidence            8864 5567889999999999998777777  88888766   88999999999999999999999999998764

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.27  E-value=1.2e-07  Score=75.80  Aligned_cols=288  Identities=15%  Similarity=0.132  Sum_probs=176.0

Q ss_pred             CCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHH-HHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHH
Q 012804            4 KLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYN-MLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNS   82 (456)
Q Consensus         4 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   82 (456)
                      |.+....+.|.-.|....++..|...++++-...  |...-|. .-...+.+.+.+..|+.+...|...   |+...-..
T Consensus        41 p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~~~qYrlY~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~l  115 (459)
T KOG4340|consen   41 PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PELEQYRLYQAQSLYKACIYADALRVAFLLLDN---PALHSRVL  115 (459)
T ss_pred             ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHHHHHHHHHHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHH
Confidence            3366777888888999999999999999987764  3443333 2345566788999999999888753   33222222


Q ss_pred             HHHH--HHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhc
Q 012804           83 LIAG--ATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKN  160 (456)
Q Consensus        83 l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  160 (456)
                      -+.+  .-..+++..+..+.++....|   +..+.+...-...+.|+++.|.+-|+...+.+--.....|+..+ +..+.
T Consensus       116 qLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~  191 (459)
T KOG4340|consen  116 QLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSS  191 (459)
T ss_pred             HHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhh
Confidence            2222  335788888888888876533   56666667777789999999999999988754233355666554 55678


Q ss_pred             CChHHHHHHHHHHHhCCCCCcHHH----HHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHH
Q 012804          161 RYTDNALRMFRGLQKHGFVPELVT----YNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLG  236 (456)
Q Consensus       161 ~~~~~a~~~~~~~~~~~~~~~~~~----~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  236 (456)
                      ++++.|++...++.++|++..+..    -+..+.+ ...|+..   .    |..+   .-...++.-...+.+.++++.|
T Consensus       192 ~qyasALk~iSEIieRG~r~HPElgIGm~tegiDv-rsvgNt~---~----lh~S---al~eAfNLKaAIeyq~~n~eAA  260 (459)
T KOG4340|consen  192 RQYASALKHISEIIERGIRQHPELGIGMTTEGIDV-RSVGNTL---V----LHQS---ALVEAFNLKAAIEYQLRNYEAA  260 (459)
T ss_pred             hhHHHHHHHHHHHHHhhhhcCCccCccceeccCch-hcccchH---H----HHHH---HHHHHhhhhhhhhhhcccHHHH
Confidence            999999999999999987522210    0000000 0000000   0    0000   0012233333445667777777


Q ss_pred             HHHHHHHHHc-CCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 012804          237 LEILSAMKRK-GYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEM  313 (456)
Q Consensus       237 ~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  313 (456)
                      .+.+-.|... ....|+.+...+.-.- ..+++....+-+.-++..++ ....||..++-.||+..-++-|-.++.+-
T Consensus       261 ~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nP-fP~ETFANlLllyCKNeyf~lAADvLAEn  336 (459)
T KOG4340|consen  261 QEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNP-FPPETFANLLLLYCKNEYFDLAADVLAEN  336 (459)
T ss_pred             HHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCC-CChHHHHHHHHHHhhhHHHhHHHHHHhhC
Confidence            7776666532 2234555554433221 23445555555555555544 34567777777788777777777776543

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.27  E-value=8.6e-08  Score=82.93  Aligned_cols=388  Identities=17%  Similarity=0.120  Sum_probs=234.1

Q ss_pred             HHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCC-HHhHHHHHHHHHhcCC
Q 012804           49 IDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPD-VWSYNSLMHCLFQLGK  127 (456)
Q Consensus        49 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~  127 (456)
                      .++....|+++.|+..|....... ++|...|..-..+|...|++++|.+=-.+-++.  .|+ ...|.-...++.-.|+
T Consensus         9 gnaa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~   85 (539)
T KOG0548|consen    9 GNAAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGD   85 (539)
T ss_pred             HHhhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhccc
Confidence            456678899999999999998875 458888999999999999999998877666664  344 4568888888889999


Q ss_pred             hhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHH---HHHHHHHHhC---CCCCcHHHHHHHHHHHHHc------
Q 012804          128 PDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNA---LRMFRGLQKH---GFVPELVTYNILIKGLCKA------  195 (456)
Q Consensus       128 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a---~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~------  195 (456)
                      +++|+..|.+-++.. +.+...++.+..++.......+.   -.++..+...   ........|..++..+-+.      
T Consensus        86 ~~eA~~ay~~GL~~d-~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~  164 (539)
T KOG0548|consen   86 YEEAILAYSEGLEKD-PSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKL  164 (539)
T ss_pred             HHHHHHHHHHHhhcC-CchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhc
Confidence            999999999988775 66677778887777211000000   0111111100   0000112233333222111      


Q ss_pred             ----CCHHHHHHHHHHH-----hhC-------CCCC------------C----------HHHHHHHHHHHHhcCchhHHH
Q 012804          196 ----GRLRTARWILKEL-----GDS-------GHAP------------N----------AITYTTIMKCCFRNRKYKLGL  237 (456)
Q Consensus       196 ----~~~~~a~~~~~~~-----~~~-------~~~~------------~----------~~~~~~l~~~~~~~~~~~~a~  237 (456)
                          .++..+...+...     ...       +..|            +          ..-...+..+..+..+++.+.
T Consensus       165 ~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~  244 (539)
T KOG0548|consen  165 YLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAI  244 (539)
T ss_pred             ccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHH
Confidence                0111111111100     000       0011            0          011233455555666667777


Q ss_pred             HHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHH-------HHHHHHhcCCHHHHHHHH
Q 012804          238 EILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNT-------LINLYCKEGKLEAAYLLL  310 (456)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------l~~~~~~~~~~~~a~~~~  310 (456)
                      +-+....+..  -+..-++....+|...|.+..+...-.+..+.|.. ...-|+.       +..+|.+.++++.|+..|
T Consensus       245 q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~~~  321 (539)
T KOG0548|consen  245 QHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIKYY  321 (539)
T ss_pred             HHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHH
Confidence            7776666654  34444555556666666666666666555554332 1222222       233444556666666666


Q ss_pred             HHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhCCCHHHHHHHHHHhccC---
Q 012804          311 DEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSN-LEAYNCIVDRLGKDGKIDHAINVFESMEVK---  386 (456)
Q Consensus       311 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---  386 (456)
                      .+.......|+.         ..+....+++........-.  .|. ..-...-...+.+.|++..|++.+.+++..   
T Consensus       322 ~kaLte~Rt~~~---------ls~lk~~Ek~~k~~e~~a~~--~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~P~  390 (539)
T KOG0548|consen  322 QKALTEHRTPDL---------LSKLKEAEKALKEAERKAYI--NPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRDPE  390 (539)
T ss_pred             HHHhhhhcCHHH---------HHHHHHHHHHHHHHHHHHhh--ChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCc
Confidence            665443222211         12223334444444433322  222 222233366788999999999999998877   


Q ss_pred             ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhcccC
Q 012804          387 DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKIS  455 (456)
Q Consensus       387 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  455 (456)
                      |...|.....+|.+.|.+..|++-.+..++.++ +....|..-+.++....+++.|...|.+-.+.+++
T Consensus       391 Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p-~~~kgy~RKg~al~~mk~ydkAleay~eale~dp~  458 (539)
T KOG0548|consen  391 DARLYSNRAACYLKLGEYPEALKDAKKCIELDP-NFIKAYLRKGAALRAMKEYDKALEAYQEALELDPS  458 (539)
T ss_pred             hhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCc-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCch
Confidence            788999999999999999999999999987742 24556666677888888999999999888776543

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.26  E-value=8.3e-07  Score=77.88  Aligned_cols=393  Identities=15%  Similarity=0.077  Sum_probs=232.5

Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHH
Q 012804           44 TYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLF  123 (456)
Q Consensus        44 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  123 (456)
                      ..-+=++.+...|++++|.+...++...+ +.+...+..=+-+.++.+++++|+++.+.-...  ..+...+--=..+..
T Consensus        14 ~l~t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Y   90 (652)
T KOG2376|consen   14 ALLTDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEY   90 (652)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHH
Confidence            33445667788999999999999999875 556677777778889999999999665543211  111111122345667


Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCc-HHHHHHHHHHHHHcCCHHHHH
Q 012804          124 QLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPE-LVTYNILIKGLCKAGRLRTAR  202 (456)
Q Consensus       124 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~  202 (456)
                      +.+..++|+..++-..    +.+..+...-...+.+.+++++|+++|+.+.+.+.+.. ...-..++.+-    -...+.
T Consensus        91 rlnk~Dealk~~~~~~----~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~----a~l~~~  162 (652)
T KOG2376|consen   91 RLNKLDEALKTLKGLD----RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVA----AALQVQ  162 (652)
T ss_pred             HcccHHHHHHHHhccc----ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHH----HhhhHH
Confidence            8899999999988322    33344666667889999999999999999988754311 11111121111    111111


Q ss_pred             HHHHHHhhCCCCCCHHHHHH---HHHHHHhcCchhHHHHHHHHHHHcCC------CcC-h-------hhHHHHHHHHHHc
Q 012804          203 WILKELGDSGHAPNAITYTT---IMKCCFRNRKYKLGLEILSAMKRKGY------TFD-G-------FGYCTVIAAFVKI  265 (456)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~---l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~-~-------~~~~~l~~~~~~~  265 (456)
                       +   +......| ..+|..   ..-.+...|++.+|+++++...+.+.      ..+ .       ..-..+.-.+-..
T Consensus       163 -~---~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~  237 (652)
T KOG2376|consen  163 -L---LQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQ  237 (652)
T ss_pred             -H---HHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHh
Confidence             1   22222222 233333   34456788999999999998833210      001 0       1122344456678


Q ss_pred             CChHHHHHHHHHHHHCCCccCHHHH----HHHHHHHHhcC----------------CHHHHHHHH---------------
Q 012804          266 GRLKEATDYMEQMVTDGVQLDIVSY----NTLINLYCKEG----------------KLEAAYLLL---------------  310 (456)
Q Consensus       266 ~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~----------------~~~~a~~~~---------------  310 (456)
                      |+.++|..++..+++.+.. |....    |.++..-....                ..+.+...|               
T Consensus       238 Gqt~ea~~iy~~~i~~~~~-D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL  316 (652)
T KOG2376|consen  238 GQTAEASSIYVDIIKRNPA-DEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALL  316 (652)
T ss_pred             cchHHHHHHHHHHHHhcCC-CchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999887432 32111    11111000000                000000000               


Q ss_pred             ----------HHHHH-c-CCCcCHHhHHHHHHHHH--hcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhCCCHHH
Q 012804          311 ----------DEMEK-Q-GFECDKYTHTILIDGLC--KAGNIKGARLHLEYMNKIGFDSN-LEAYNCIVDRLGKDGKIDH  375 (456)
Q Consensus       311 ----------~~~~~-~-~~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~  375 (456)
                                ++... . +..| ...+..++..+.  +...+..+..++....+.. +.+ ..+.-..+......|+++.
T Consensus       317 ~l~tnk~~q~r~~~a~lp~~~p-~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~-p~~s~~v~L~~aQl~is~gn~~~  394 (652)
T KOG2376|consen  317 ALFTNKMDQVRELSASLPGMSP-ESLFPILLQEATKVREKKHKKAIELLLQFADGH-PEKSKVVLLLRAQLKISQGNPEV  394 (652)
T ss_pred             HHHhhhHHHHHHHHHhCCccCc-hHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccC-CchhHHHHHHHHHHHHhcCCHHH
Confidence                      00011 1 1111 233444444332  2224567777777766542 333 4555666677889999999


Q ss_pred             HHHHHH--------HhccC--ChhhHHHHHHHHHccCChhHHHHHHHHHHHc--CCCCCH----HhHHHHHHHHHccCCh
Q 012804          376 AINVFE--------SMEVK--DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS--GVRILK----SAQKAVVDGLRHSGCR  439 (456)
Q Consensus       376 a~~~~~--------~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~----~~~~~l~~~~~~~g~~  439 (456)
                      |.+++.        .+.+.  .+.+...++..+.+.++.+.|..++.+++..  .-.+..    .++...+..-.+.|+-
T Consensus       395 A~~il~~~~~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~  474 (652)
T KOG2376|consen  395 ALEILSLFLESWKSSILEAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNE  474 (652)
T ss_pred             HHHHHHHHhhhhhhhhhhhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCch
Confidence            999998        33322  6777888888888988888888888877543  111222    3344444555667999


Q ss_pred             HHHHHHHHHHHhcccC
Q 012804          440 REAKKIQSKIRMAKIS  455 (456)
Q Consensus       440 ~~A~~~~~~~~~~~~~  455 (456)
                      ++|...++++.+-+++
T Consensus       475 ~ea~s~leel~k~n~~  490 (652)
T KOG2376|consen  475 EEASSLLEELVKFNPN  490 (652)
T ss_pred             HHHHHHHHHHHHhCCc
Confidence            9999999999886543

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

Probab=99.25  E-value=4.6e-07  Score=74.09  Aligned_cols=316  Identities=12%  Similarity=-0.001  Sum_probs=157.1

Q ss_pred             hHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHH-HHHHH
Q 012804            7 TRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTY-NSLIA   85 (456)
Q Consensus         7 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~   85 (456)
                      +.-...+...+..+|++.+|+.-|..+++.++. +-.++..-...|...|+...|+.=+....+.  +||-..- -.-..
T Consensus        38 vekhlElGk~lla~~Q~sDALt~yHaAve~dp~-~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~  114 (504)
T KOG0624|consen   38 VEKHLELGKELLARGQLSDALTHYHAAVEGDPN-NYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGV  114 (504)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCch-hHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhch
Confidence            333344445555555555555555555543321 2223333334445555555555555555543  3442211 11123


Q ss_pred             HHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHH
Q 012804           86 GATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDN  165 (456)
Q Consensus        86 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  165 (456)
                      .+.++|.++.|..-|+..++....  ..+   ...++.+.-..++-                ......+..+...|+...
T Consensus       115 vllK~Gele~A~~DF~~vl~~~~s--~~~---~~eaqskl~~~~e~----------------~~l~~ql~s~~~~GD~~~  173 (504)
T KOG0624|consen  115 VLLKQGELEQAEADFDQVLQHEPS--NGL---VLEAQSKLALIQEH----------------WVLVQQLKSASGSGDCQN  173 (504)
T ss_pred             hhhhcccHHHHHHHHHHHHhcCCC--cch---hHHHHHHHHhHHHH----------------HHHHHHHHHHhcCCchhh
Confidence            344555555555555555544311  100   00000000000000                011122334445566666


Q ss_pred             HHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHH
Q 012804          166 ALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKR  245 (456)
Q Consensus       166 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  245 (456)
                      |+..+..+.+. .+-+...+..-..+|...|.+..|+.-++...+.... +..++..+-..+...|+.+.++...++.++
T Consensus       174 ai~~i~~llEi-~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~sL~~iRECLK  251 (504)
T KOG0624|consen  174 AIEMITHLLEI-QPWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENSLKEIRECLK  251 (504)
T ss_pred             HHHHHHHHHhc-CcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHHHHHHHHHHc
Confidence            66666666665 2335555555566666666666666655555443222 444444455556666666666666666665


Q ss_pred             cCCCcChhh----HHHH---------HHHHHHcCChHHHHHHHHHHHHCCCccC---HHHHHHHHHHHHhcCCHHHHHHH
Q 012804          246 KGYTFDGFG----YCTV---------IAAFVKIGRLKEATDYMEQMVTDGVQLD---IVSYNTLINLYCKEGKLEAAYLL  309 (456)
Q Consensus       246 ~~~~~~~~~----~~~l---------~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~  309 (456)
                      .+  ||...    |..+         +......++|-++....+...+..+...   ...+..+..++...|++.+|++.
T Consensus       252 ld--pdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqq  329 (504)
T KOG0624|consen  252 LD--PDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQ  329 (504)
T ss_pred             cC--cchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHH
Confidence            42  22211    1100         1122344566666666666665533211   22344555566667777777777


Q ss_pred             HHHHHHcCCCc-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 012804          310 LDEMEKQGFEC-DKYTHTILIDGLCKAGNIKGARLHLEYMNKIG  352 (456)
Q Consensus       310 ~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  352 (456)
                      ..+..+.  .| |..++..-..+|.-...++.|+.-|+.+.+.+
T Consensus       330 C~evL~~--d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  330 CKEVLDI--DPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             HHHHHhc--CchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC
Confidence            7777664  33 36677777777777777777777777777653

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.24  E-value=6.6e-07  Score=81.61  Aligned_cols=418  Identities=10%  Similarity=0.042  Sum_probs=210.5

Q ss_pred             hHHHHHHHHHHHhhCcHHHHHHHHHHHHhc--------CC-CCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCH
Q 012804            7 TRLLNICVCTFCKANRLEKAEAIIIDGIRL--------GV-LPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDV   77 (456)
Q Consensus         7 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   77 (456)
                      -.+|..+...|.+.++.+-|.-.+-.|...        .. .++ ..-..+.......|-.++|..+|.+-++       
T Consensus       757 ~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR-------  828 (1416)
T KOG3617|consen  757 DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKR-------  828 (1416)
T ss_pred             hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH-------
Confidence            356777777777776666665554444311        00 111 1112233333456667777777766654       


Q ss_pred             hHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHH----------hCC-----
Q 012804           78 VTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMI----------CGD-----  142 (456)
Q Consensus        78 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----------~~~-----  142 (456)
                        |..|=..|...|.|++|.++-+.=-+  +. -..||.....-+-..+|.+.|++.|++..          ...     
T Consensus       829 --~DLlNKlyQs~g~w~eA~eiAE~~DR--iH-Lr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e  903 (1416)
T KOG3617|consen  829 --YDLLNKLYQSQGMWSEAFEIAETKDR--IH-LRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIE  903 (1416)
T ss_pred             --HHHHHHHHHhcccHHHHHHHHhhccc--ee-hhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHH
Confidence              34455566677888888776654222  21 23456666666677778888887776432          111     


Q ss_pred             ----CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhC----------C----------CCCcHHHHHHHHHHHHHcCCH
Q 012804          143 ----LTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKH----------G----------FVPELVTYNILIKGLCKAGRL  198 (456)
Q Consensus       143 ----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----------~----------~~~~~~~~~~l~~~~~~~~~~  198 (456)
                          -..|...|......+-..|+.+.|+.+|....+.          |          -..|......+.+.|-..|++
T Consensus       904 ~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D~fs~VrI~C~qGk~~kAa~iA~esgd~AAcYhlaR~YEn~g~v  983 (1416)
T KOG3617|consen  904 QYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKDYFSMVRIKCIQGKTDKAARIAEESGDKAACYHLARMYENDGDV  983 (1416)
T ss_pred             HHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhhhhhheeeEeeccCchHHHHHHHhcccHHHHHHHHHHhhhhHHH
Confidence                0123344455555555677777777777665432          0          012333444455556666666


Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHHHHHHh-------------c--CchhHHHHHHHHHHHcCCCcChhhHHHHHHHHH
Q 012804          199 RTARWILKELGDSGHAPNAITYTTIMKCCFR-------------N--RKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFV  263 (456)
Q Consensus       199 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------------~--~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  263 (456)
                      .+|...|.+...         +...|+.|-.             .  .+.-.|..+|++.-   .     -+......|-
T Consensus       984 ~~Av~FfTrAqa---------fsnAIRlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~g---~-----~~~~AVmLYH 1046 (1416)
T KOG3617|consen  984 VKAVKFFTRAQA---------FSNAIRLCKENDMKDRLANLALMSGGSDLVSAARYYEELG---G-----YAHKAVMLYH 1046 (1416)
T ss_pred             HHHHHHHHHHHH---------HHHHHHHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHcc---h-----hhhHHHHHHH
Confidence            666655554432         1111111111             1  11111222222111   0     0112233455


Q ss_pred             HcCChHHHHHHHH--------HHHHC--CCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----------cC------
Q 012804          264 KIGRLKEATDYME--------QMVTD--GVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEK----------QG------  317 (456)
Q Consensus       264 ~~~~~~~a~~~~~--------~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----------~~------  317 (456)
                      +.|.+.+|.++-=        +++..  ....|+...+....-++...++++|..++-..++          +|      
T Consensus      1047 kAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~~~~AlqlC~~~nv~vtee 1126 (1416)
T KOG3617|consen 1047 KAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLAREFSGALQLCKNRNVRVTEE 1126 (1416)
T ss_pred             hhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhHH
Confidence            5565555554321        11111  2334566666666666666667766665533211          11      


Q ss_pred             ----------CCcCH----HhHHHHHHHHHhcCCHHHHHHHHHHH----------HhCC---------------------
Q 012804          318 ----------FECDK----YTHTILIDGLCKAGNIKGARLHLEYM----------NKIG---------------------  352 (456)
Q Consensus       318 ----------~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~----------~~~~---------------------  352 (456)
                                -.|+.    ..+..+...|.++|.+..|-+-|.++          ++.|                     
T Consensus      1127 ~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~AtKKfTQAGdKl~AMraLLKSGdt~KI~FFAn~sRqkEiYImA 1206 (1416)
T KOG3617|consen 1127 FAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAATKKFTQAGDKLSAMRALLKSGDTQKIRFFANTSRQKEIYIMA 1206 (1416)
T ss_pred             HHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHHHHHhhhhhHHHHHHHHHhcCCcceEEEEeeccccceeeeeh
Confidence                      11222    34566677788888877665544332          2222                     


Q ss_pred             --------CCCCHHHHHHHHHHHHhC----------------------------CCHHHHHHHHHHhccC--ChhhHHHH
Q 012804          353 --------FDSNLEAYNCIVDRLGKD----------------------------GKIDHAINVFESMEVK--DSFTYSSM  394 (456)
Q Consensus       353 --------~~~~~~~~~~l~~~~~~~----------------------------g~~~~a~~~~~~~~~~--~~~~~~~l  394 (456)
                              +..++.+...++..|.+.                            |-.++|.+.+.++..+  ....++.|
T Consensus      1207 ANyLQtlDWq~~pq~mK~I~tFYTKgqafd~LanFY~~cAqiEiee~q~ydKa~gAl~eA~kCl~ka~~k~~~~t~l~~L 1286 (1416)
T KOG3617|consen 1207 ANYLQTLDWQDNPQTMKDIETFYTKGQAFDHLANFYKSCAQIEIEELQTYDKAMGALEEAAKCLLKAEQKNMSTTGLDAL 1286 (1416)
T ss_pred             hhhhhhcccccChHHHhhhHhhhhcchhHHHHHHHHHHHHHhhHHHHhhhhHHhHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence                    223333333333222221                            3344444555554443  11222222


Q ss_pred             HH------HHH-----ccCChhHHHHHHHHHHHcCCCCC----HHhHHHHHHHHHccCChHHHHHHHHHHHhccc
Q 012804          395 VH------NLC-----KAKRLPSASKLLLSCLKSGVRIL----KSAQKAVVDGLRHSGCRREAKKIQSKIRMAKI  454 (456)
Q Consensus       395 ~~------~~~-----~~~~~~~A~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  454 (456)
                      -.      +..     -..+..+.++-.+.+++...-||    ...+..++..+....++..|.+.+++++..-+
T Consensus      1287 q~~~a~vk~~l~~~q~~~eD~~~~i~qc~~lleep~ld~~Ir~~~~~a~lie~~v~~k~y~~AyRal~el~~k~p 1361 (1416)
T KOG3617|consen 1287 QEDLAKVKVQLRKLQIMKEDAADGIRQCTTLLEEPILDDIIRCTRLFALLIEDHVSRKNYKPAYRALTELQKKVP 1361 (1416)
T ss_pred             HHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhCcCCCCcchhHHHHHHHHHHHHhhhhccHHHHHHHHHhhcCC
Confidence            11      111     12355566666666666543333    45778889999999999999999999987654

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.24  E-value=2.8e-07  Score=92.51  Aligned_cols=333  Identities=13%  Similarity=0.008  Sum_probs=206.3

Q ss_pred             HHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCC------CCC--hhHHHHHHHHH
Q 012804           86 GATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDL------TPC--TATFNIMLNGL  157 (456)
Q Consensus        86 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~--~~~~~~l~~~~  157 (456)
                      .....|++..+..+++.+.......+..........+...|+++++...+......--      .+.  ......+...+
T Consensus       383 ~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~  462 (903)
T PRK04841        383 SLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVA  462 (903)
T ss_pred             HHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHH
Confidence            3445677777666666542211111222333445556778999999988887654210      111  12222333556


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCc----HHHHHHHHHHHHHcCCHHHHHHHHHHHhhC----CC-CCCHHHHHHHHHHHH
Q 012804          158 CKNRYTDNALRMFRGLQKHGFVPE----LVTYNILIKGLCKAGRLRTARWILKELGDS----GH-APNAITYTTIMKCCF  228 (456)
Q Consensus       158 ~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~  228 (456)
                      ...|++++|...++.....-...+    ....+.+...+...|++++|...+.+....    +. .....+...+...+.
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            678999999999988766311112    123455666778899999999988877542    11 111234455667788


Q ss_pred             hcCchhHHHHHHHHHHHc----CCCc---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHC----CCccCHHHHHHHHHHH
Q 012804          229 RNRKYKLGLEILSAMKRK----GYTF---DGFGYCTVIAAFVKIGRLKEATDYMEQMVTD----GVQLDIVSYNTLINLY  297 (456)
Q Consensus       229 ~~~~~~~a~~~~~~~~~~----~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~  297 (456)
                      ..|+++.|...+++....    +...   ....+..+...+...|++++|...+.+....    +.......+..+...+
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            899999999988877643    2111   1223344555677789999999988877653    1111233445566778


Q ss_pred             HhcCCHHHHHHHHHHHHHcC--CCcCHH--hH--HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHH
Q 012804          298 CKEGKLEAAYLLLDEMEKQG--FECDKY--TH--TILIDGLCKAGNIKGARLHLEYMNKIGFDSN---LEAYNCIVDRLG  368 (456)
Q Consensus       298 ~~~~~~~~a~~~~~~~~~~~--~~~~~~--~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~  368 (456)
                      ...|+++.|...+.......  ......  ..  ...+..+...|+.+.|..++...........   ...+..+..++.
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~  702 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQI  702 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHH
Confidence            88999999999888875421  111110  10  1112334557888999888777554211111   111345667788


Q ss_pred             hCCCHHHHHHHHHHhccC---------ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          369 KDGKIDHAINVFESMEVK---------DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       369 ~~g~~~~a~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      ..|+.++|...++++...         ...+...+..++.+.|+.++|...+.++++..
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            899999999999887653         22356667788889999999999999998764

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.21  E-value=1.6e-07  Score=85.47  Aligned_cols=343  Identities=14%  Similarity=0.062  Sum_probs=192.7

Q ss_pred             HHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhC-C--------CCCCHhHHHHHHHH
Q 012804           16 TFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREA-G--------ISPDVVTYNSLIAG   86 (456)
Q Consensus        16 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~--------~~~~~~~~~~l~~~   86 (456)
                      .|...|+.+.|.+-.+-+.      +...|..+..+|.+..+.+-|.-.+-.|... |        -.|+ .+=......
T Consensus       737 fyvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvL  809 (1416)
T KOG3617|consen  737 FYVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVL  809 (1416)
T ss_pred             EEEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHH
Confidence            4667899999998877652      5578999999999998888876665555421 1        1122 111222333


Q ss_pred             HHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHH
Q 012804           87 ATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNA  166 (456)
Q Consensus        87 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  166 (456)
                      ....|.+++|..+|++-++         |..|=..|...|.+++|.++-+.=-...+   ..||......+-..++.+.|
T Consensus       810 AieLgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~A  877 (1416)
T KOG3617|consen  810 AIELGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAA  877 (1416)
T ss_pred             HHHHhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHH
Confidence            5578899999999988776         34455678889999999998765332222   34566666666777888888


Q ss_pred             HHHHHHHHhCC-------------------CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC----------C-----
Q 012804          167 LRMFRGLQKHG-------------------FVPELVTYNILIKGLCKAGRLRTARWILKELGDS----------G-----  212 (456)
Q Consensus       167 ~~~~~~~~~~~-------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----------~-----  212 (456)
                      ++.|++...+.                   -..+...|......+-..|+.+.|+.+|......          |     
T Consensus       878 leyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D~fs~VrI~C~qGk~~kA  957 (1416)
T KOG3617|consen  878 LEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKDYFSMVRIKCIQGKTDKA  957 (1416)
T ss_pred             HHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhhhhhheeeEeeccCchHH
Confidence            88877542210                   1123444555555556677888877777665431          0     


Q ss_pred             -----CCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcC--CC--cChhhHHHHHHHHHHcC--ChHHHHHHHHHHHHC
Q 012804          213 -----HAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKG--YT--FDGFGYCTVIAAFVKIG--RLKEATDYMEQMVTD  281 (456)
Q Consensus       213 -----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~--~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~  281 (456)
                           -.-|......+.+.|...|++.+|..+|.++....  +.  .....-..+...+...|  +.-.|-++|++.-- 
T Consensus       958 a~iA~esgd~AAcYhlaR~YEn~g~v~~Av~FfTrAqafsnAIRlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~g~- 1036 (1416)
T KOG3617|consen  958 ARIAEESGDKAACYHLARMYENDGDVVKAVKFFTRAQAFSNAIRLCKENDMKDRLANLALMSGGSDLVSAARYYEELGG- 1036 (1416)
T ss_pred             HHHHHhcccHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHcch-
Confidence                 01233334445555666666666666655543210  00  00000001111111111  22222233332210 


Q ss_pred             CCccCHHHHHHHHHHHHhcCCHHHHHHHHHH--------HHH--cCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 012804          282 GVQLDIVSYNTLINLYCKEGKLEAAYLLLDE--------MEK--QGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKI  351 (456)
Q Consensus       282 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~--------~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  351 (456)
                             -+...+..|-+.|.+.+|+++.-+        ++.  .....|+...+.-..-+....++++|..++-...+.
T Consensus      1037 -------~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~~ 1109 (1416)
T KOG3617|consen 1037 -------YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLAREF 1109 (1416)
T ss_pred             -------hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence                   122334456677777777665322        122  222345666666666666666777766555433211


Q ss_pred             ----------CC----------------CCC----HHHHHHHHHHHHhCCCHHHHHHHHHHhcc
Q 012804          352 ----------GF----------------DSN----LEAYNCIVDRLGKDGKIDHAINVFESMEV  385 (456)
Q Consensus       352 ----------~~----------------~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  385 (456)
                                ++                .|+    ..++..+...|.++|.+..|-+-|.++-.
T Consensus      1110 ~~AlqlC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~AtKKfTQAGd 1173 (1416)
T KOG3617|consen 1110 SGALQLCKNRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAATKKFTQAGD 1173 (1416)
T ss_pred             HHHHHHHhcCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHHHHHhhhhh
Confidence                      11                122    23566777888899998888887766543

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

Probab=99.20  E-value=7.1e-07  Score=73.02  Aligned_cols=311  Identities=13%  Similarity=0.053  Sum_probs=171.6

Q ss_pred             HhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHH---HHHHHhcCChhHHHHHHHHHHhCCCCCChhH-HHH
Q 012804           77 VVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSL---MHCLFQLGKPDEANRVFQDMICGDLTPCTAT-FNI  152 (456)
Q Consensus        77 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l---~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~  152 (456)
                      +.-..-+...+...|++..|+.-|...++-    |+..|.++   ...|...|+-.-|+.=+.+.++.  +||-.. -..
T Consensus        38 vekhlElGk~lla~~Q~sDALt~yHaAve~----dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQ  111 (504)
T KOG0624|consen   38 VEKHLELGKELLARGQLSDALTHYHAAVEG----DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQ  111 (504)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHcC----CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHH
Confidence            333444556666677777777777766653    33333333   34566677777777777766654  444221 111


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCc
Q 012804          153 MLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRK  232 (456)
Q Consensus       153 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  232 (456)
                      -...+.+.|.+++|..=|+.+.++.  |+..+-   ..++.+.-..++-                ......+..+...|+
T Consensus       112 Rg~vllK~Gele~A~~DF~~vl~~~--~s~~~~---~eaqskl~~~~e~----------------~~l~~ql~s~~~~GD  170 (504)
T KOG0624|consen  112 RGVVLLKQGELEQAEADFDQVLQHE--PSNGLV---LEAQSKLALIQEH----------------WVLVQQLKSASGSGD  170 (504)
T ss_pred             hchhhhhcccHHHHHHHHHHHHhcC--CCcchh---HHHHHHHHhHHHH----------------HHHHHHHHHHhcCCc
Confidence            2245566777777777777766652  221110   0111110000000                011122334455667


Q ss_pred             hhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012804          233 YKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDE  312 (456)
Q Consensus       233 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  312 (456)
                      ...++.....+++.. +.+...+..-..+|...|++..|+.-+....+..-. +...+-.+-..+...|+.+.++...++
T Consensus       171 ~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~sL~~iRE  248 (504)
T KOG0624|consen  171 CQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENSLKEIRE  248 (504)
T ss_pred             hhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            777777777777664 556666666677777777777777666665554322 445555566666677777777776666


Q ss_pred             HHHcCCCcCHHh----HHH---HHH------HHHhcCCHHHHHHHHHHHHhCCCC---CCHHHHHHHHHHHHhCCCHHHH
Q 012804          313 MEKQGFECDKYT----HTI---LID------GLCKAGNIKGARLHLEYMNKIGFD---SNLEAYNCIVDRLGKDGKIDHA  376 (456)
Q Consensus       313 ~~~~~~~~~~~~----~~~---l~~------~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a  376 (456)
                      ..+.  .||...    |..   +..      .....++|.++....+...+....   .....+..+-.++...|++.+|
T Consensus       249 CLKl--dpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eA  326 (504)
T KOG0624|consen  249 CLKL--DPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEA  326 (504)
T ss_pred             HHcc--CcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHH
Confidence            6654  343321    111   111      123445566666666665554211   1123344455566677777777


Q ss_pred             HHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          377 INVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       377 ~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      ++...++...   |..++---..+|.-...++.|+.-|+++.+.+
T Consensus       327 iqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  327 IQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             HHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC
Confidence            7777776665   45566666677777777777777777776553

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.20  E-value=5.8e-07  Score=90.22  Aligned_cols=332  Identities=8%  Similarity=-0.013  Sum_probs=213.0

Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC------CCc--HHHHHHHHHHH
Q 012804          121 CLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGF------VPE--LVTYNILIKGL  192 (456)
Q Consensus       121 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~--~~~~~~l~~~~  192 (456)
                      .....|+++.+...++.+.......+..........+...|+++++..++......--      .+.  ......+...+
T Consensus       383 ~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~  462 (903)
T PRK04841        383 SLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVA  462 (903)
T ss_pred             HHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHH
Confidence            3445677777777766552211112222334445566778999999999987754310      111  11222334556


Q ss_pred             HHcCCHHHHHHHHHHHhhCCCCCCH----HHHHHHHHHHHhcCchhHHHHHHHHHHHcCC---Cc--ChhhHHHHHHHHH
Q 012804          193 CKAGRLRTARWILKELGDSGHAPNA----ITYTTIMKCCFRNRKYKLGLEILSAMKRKGY---TF--DGFGYCTVIAAFV  263 (456)
Q Consensus       193 ~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~  263 (456)
                      ...|++++|...++.........+.    .....+...+...|+++.|...+.+......   .+  .......+...+.
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            7899999999999987653222122    2345556667889999999999988875311   11  1234455666788


Q ss_pred             HcCChHHHHHHHHHHHHC----CCc--c-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCc--CHHhHHHHHHHH
Q 012804          264 KIGRLKEATDYMEQMVTD----GVQ--L-DIVSYNTLINLYCKEGKLEAAYLLLDEMEKQ--GFEC--DKYTHTILIDGL  332 (456)
Q Consensus       264 ~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~--~~~~~~~l~~~~  332 (456)
                      ..|++++|...+++....    +..  + ....+..+...+...|++++|...+.+....  ...+  ....+..+...+
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            899999999998877653    211  1 2233445566777889999999999887542  1112  233445566678


Q ss_pred             HhcCCHHHHHHHHHHHHhCC--CCCCHH--HH--HHHHHHHHhCCCHHHHHHHHHHhccC---Ch----hhHHHHHHHHH
Q 012804          333 CKAGNIKGARLHLEYMNKIG--FDSNLE--AY--NCIVDRLGKDGKIDHAINVFESMEVK---DS----FTYSSMVHNLC  399 (456)
Q Consensus       333 ~~~~~~~~a~~~~~~~~~~~--~~~~~~--~~--~~l~~~~~~~g~~~~a~~~~~~~~~~---~~----~~~~~l~~~~~  399 (456)
                      ...|++++|...++.+....  ......  ..  ...+..+...|+.+.|.+.+......   ..    ..+..+..++.
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~  702 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQI  702 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHH
Confidence            88999999999998875431  111111  10  11224455689999999998776544   11    11456777888


Q ss_pred             ccCChhHHHHHHHHHHHc----CCCCC-HHhHHHHHHHHHccCChHHHHHHHHHHHhc
Q 012804          400 KAKRLPSASKLLLSCLKS----GVRIL-KSAQKAVVDGLRHSGCRREAKKIQSKIRMA  452 (456)
Q Consensus       400 ~~~~~~~A~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  452 (456)
                      ..|++++|...++++...    |..++ ..++..++.++.+.|+.++|...+.+..+.
T Consensus       703 ~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        703 LLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999998754    22222 245667788999999999999999887654

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.17  E-value=6.7e-07  Score=83.20  Aligned_cols=433  Identities=11%  Similarity=0.011  Sum_probs=227.9

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCC-CCHhHHHHHH
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGIS-PDVVTYNSLI   84 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~   84 (456)
                      =...|..|...|+...+...|.+.|+.+.+.+.. +..........|++..+++.|..+.-...+.... .-...|....
T Consensus       491 ~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDat-daeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG  569 (1238)
T KOG1127|consen  491 LAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDAT-DAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRG  569 (1238)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCch-hhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhcc
Confidence            3456777788888777888888888888877643 6777788888888888888888773333222100 0011222334


Q ss_pred             HHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChH
Q 012804           85 AGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTD  164 (456)
Q Consensus        85 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  164 (456)
                      -.|...++...++.-|+...+..+. |...|..++.+|.++|++..|.++|.+..... |.+...--...-.-+..|.+.
T Consensus       570 ~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~Lr-P~s~y~~fk~A~~ecd~GkYk  647 (1238)
T KOG1127|consen  570 PYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLLR-PLSKYGRFKEAVMECDNGKYK  647 (1238)
T ss_pred             ccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhcC-cHhHHHHHHHHHHHHHhhhHH
Confidence            4566777888888888887776544 77788888888888888888888888876553 222222222233455678888


Q ss_pred             HHHHHHHHHHhC------CCCCcHHHHHHHHHHHHHcCCHHHHHHHHH-------HHhhCCCCCCHHHHHHHHHHHH---
Q 012804          165 NALRMFRGLQKH------GFVPELVTYNILIKGLCKAGRLRTARWILK-------ELGDSGHAPNAITYTTIMKCCF---  228 (456)
Q Consensus       165 ~a~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-------~~~~~~~~~~~~~~~~l~~~~~---  228 (456)
                      +++..+..+...      +...-..++-.+...+.-.|-...+.+.++       -........+...|..+-.+|.   
T Consensus       648 eald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f~  727 (1238)
T KOG1127|consen  648 EALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIFS  727 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHHH
Confidence            888877776543      111111222222222222222222222222       2111111112222222211111   


Q ss_pred             --------------------hcCch---h---HHHHHHHHHHHcCCCcChhhHHHHHHHHHH----c----CChHHHHHH
Q 012804          229 --------------------RNRKY---K---LGLEILSAMKRKGYTFDGFGYCTVIAAFVK----I----GRLKEATDY  274 (456)
Q Consensus       229 --------------------~~~~~---~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~----~~~~~a~~~  274 (456)
                                          ..+..   +   .+.+.+-.-..  ...+...|..++..|.+    .    .+...|...
T Consensus       728 q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hls--l~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c  805 (1238)
T KOG1127|consen  728 QEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLS--LAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRC  805 (1238)
T ss_pred             HhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHH--HhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHH
Confidence                                11111   1   00011100000  11122233333333332    1    123456666


Q ss_pred             HHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 012804          275 MEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFD  354 (456)
Q Consensus       275 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  354 (456)
                      +.+.++..- .+...|+.|.-. ...|++.-|...|-.-.... +....+|..+...+....+++.|...|....... |
T Consensus       806 ~KkaV~L~a-nn~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLd-P  881 (1238)
T KOG1127|consen  806 CKKAVSLCA-NNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLD-P  881 (1238)
T ss_pred             HHHHHHHhh-ccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhhcC-c
Confidence            666665422 255666665544 55566666666665555432 2355677777777778888888888888877653 4


Q ss_pred             CCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC--------ChhhHHHHHHHHHccCChhHHHHHHHH----------HHH
Q 012804          355 SNLEAYNCIVDRLGKDGKIDHAINVFESMEVK--------DSFTYSSMVHNLCKAKRLPSASKLLLS----------CLK  416 (456)
Q Consensus       355 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~A~~~~~~----------~~~  416 (456)
                      .+...|..........|+.-++..+|..-...        ....|..........|+.++-+...++          ...
T Consensus       882 ~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~  961 (1238)
T KOG1127|consen  882 LNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFL  961 (1238)
T ss_pred             hhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHh
Confidence            45555555555555667777777776642111        222333333333445554443332222          222


Q ss_pred             cCCCCCHHhHHHHHHHHHccCChHHHHHHHHH
Q 012804          417 SGVRILKSAQKAVVDGLRHSGCRREAKKIQSK  448 (456)
Q Consensus       417 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  448 (456)
                      . .+.+...|...+....+.+.+.+|.....+
T Consensus       962 ~-~p~~~fAy~~~gstlEhL~ey~~a~ela~R  992 (1238)
T KOG1127|consen  962 G-HPQLCFAYAANGSTLEHLEEYRAALELATR  992 (1238)
T ss_pred             c-CcchhHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            2 222445566666666666666666555544

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

Probab=99.15  E-value=1.1e-08  Score=89.02  Aligned_cols=250  Identities=11%  Similarity=0.027  Sum_probs=189.6

Q ss_pred             HHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChH
Q 012804          190 KGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLK  269 (456)
Q Consensus       190 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  269 (456)
                      .-+.+.|++.+|.-.|+...+..+. +...|..|.......++-..|+..+.+..+.+ +-+......|.-.|...|.-.
T Consensus       293 ~~lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~  370 (579)
T KOG1125|consen  293 CNLMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQN  370 (579)
T ss_pred             HHHHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHH
Confidence            3457888899999999988876554 77888888888888899999999999999886 667788888888899999889


Q ss_pred             HHHHHHHHHHHCCCccCHHHHHHHH---------HHHHhcCCHHHHHHHHHHHH-HcCCCcCHHhHHHHHHHHHhcCCHH
Q 012804          270 EATDYMEQMVTDGVQLDIVSYNTLI---------NLYCKEGKLEAAYLLLDEME-KQGFECDKYTHTILIDGLCKAGNIK  339 (456)
Q Consensus       270 ~a~~~~~~~~~~~~~~~~~~~~~l~---------~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~  339 (456)
                      .|.+.++.-+...++-   .|....         ..+..........++|-++. ..+..+|+.+...|.-.|--.|+++
T Consensus       371 ~Al~~L~~Wi~~~p~y---~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efd  447 (579)
T KOG1125|consen  371 QALKMLDKWIRNKPKY---VHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFD  447 (579)
T ss_pred             HHHHHHHHHHHhCccc---hhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHH
Confidence            9999998887653210   000000         01111122334445555544 4444578888888888899999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHH
Q 012804          340 GARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLK  416 (456)
Q Consensus       340 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  416 (456)
                      +|...|+.++... |.|...|+.|...+....+.++|+..|+++.+.   -+.++..|+-.|...|.+++|.+.|-.++.
T Consensus       448 raiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  448 RAVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            9999999999874 667889999999999999999999999999877   566788899999999999999999888764


Q ss_pred             cC---------CCCCHHhHHHHHHHHHccCChHHHHHH
Q 012804          417 SG---------VRILKSAQKAVVDGLRHSGCRREAKKI  445 (456)
Q Consensus       417 ~~---------~~~~~~~~~~l~~~~~~~g~~~~A~~~  445 (456)
                      ..         ..++..+|..|-.++...++.|.+..+
T Consensus       527 mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  527 MQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             hhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            31         122346788887788888887755544

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.14  E-value=4.1e-06  Score=78.31  Aligned_cols=391  Identities=10%  Similarity=0.031  Sum_probs=210.7

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCC--CCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCC--CCCCHh
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGV--LPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAG--ISPDVV   78 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~   78 (456)
                      .+.|+..|+.++.-=   +-  -=.++.+..+..+.  ..|+...+..+.++...+-..+-+++++++.-.+  +..+..
T Consensus       948 ~R~D~~LW~~VL~e~---n~--~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~n 1022 (1666)
T KOG0985|consen  948 ERSDPDLWAKVLNEE---NP--YRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRN 1022 (1666)
T ss_pred             hccChHHHHHHHhcc---Ch--HHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchh
Confidence            456677777766211   11  11234444444332  1245555666777777777777777777765321  111222


Q ss_pred             HHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCC----------------
Q 012804           79 TYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGD----------------  142 (456)
Q Consensus        79 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----------------  142 (456)
                      .-+.|+-...+. +..+..++.+++-..+. |+      +...+...+-+++|..+|+..-..+                
T Consensus      1023 LQnLLiLtAika-d~trVm~YI~rLdnyDa-~~------ia~iai~~~LyEEAF~ifkkf~~n~~A~~VLie~i~~ldRA 1094 (1666)
T KOG0985|consen 1023 LQNLLILTAIKA-DRTRVMEYINRLDNYDA-PD------IAEIAIENQLYEEAFAIFKKFDMNVSAIQVLIENIGSLDRA 1094 (1666)
T ss_pred             hhhhHHHHHhhc-ChHHHHHHHHHhccCCc-hh------HHHHHhhhhHHHHHHHHHHHhcccHHHHHHHHHHhhhHHHH
Confidence            233444333333 22334444444433211 11      1222333333444444443321000                


Q ss_pred             -----CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCH
Q 012804          143 -----LTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNA  217 (456)
Q Consensus       143 -----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  217 (456)
                           -...+..|..+..+-.+.|...+|++-|-+.      .|+..|..++....+.|.|++-.+++...++....|..
T Consensus      1095 ~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i 1168 (1666)
T KOG0985|consen 1095 YEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI 1168 (1666)
T ss_pred             HHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc
Confidence                 0112356666666666666666666555322      14556666677777777777776666665554444333


Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHH
Q 012804          218 ITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLY  297 (456)
Q Consensus       218 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  297 (456)
                      .  +.++-+|++.++..+..+++.       .|+......+..-|...+.++.|.-++..         ..-|..|...+
T Consensus      1169 d--~eLi~AyAkt~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~---------vSN~a~La~TL 1230 (1666)
T KOG0985|consen 1169 D--SELIFAYAKTNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSN---------VSNFAKLASTL 1230 (1666)
T ss_pred             h--HHHHHHHHHhchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHH---------hhhHHHHHHHH
Confidence            3  345566666666555444321       45555566666666666666666655543         33466677777


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHH
Q 012804          298 CKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAI  377 (456)
Q Consensus       298 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  377 (456)
                      ...|++..|...-+..      .+..||..+-.+|...+.+.-|     +|-...+.....-...++..|...|-+++.+
T Consensus      1231 V~LgeyQ~AVD~aRKA------ns~ktWK~VcfaCvd~~EFrlA-----QiCGL~iivhadeLeeli~~Yq~rGyFeElI 1299 (1666)
T KOG0985|consen 1231 VYLGEYQGAVDAARKA------NSTKTWKEVCFACVDKEEFRLA-----QICGLNIIVHADELEELIEYYQDRGYFEELI 1299 (1666)
T ss_pred             HHHHHHHHHHHHhhhc------cchhHHHHHHHHHhchhhhhHH-----HhcCceEEEehHhHHHHHHHHHhcCcHHHHH
Confidence            7777777776554333      2566787777777766655433     3333344556677788889999999999999


Q ss_pred             HHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHc-CCC------CCHHhHHHHHHHHHccCChHHH
Q 012804          378 NVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS-GVR------ILKSAQKAVVDGLRHSGCRREA  442 (456)
Q Consensus       378 ~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~------~~~~~~~~l~~~~~~~g~~~~A  442 (456)
                      .+++.....   ....++.++-.|.+- ++++-.+.++-.... +++      .....|..++..|.+-..++.|
T Consensus      1300 sl~Ea~LGLERAHMgmfTELaiLYsky-kp~km~EHl~LFwsRvNipKviRA~eqahlW~ElvfLY~~y~eyDNA 1373 (1666)
T KOG0985|consen 1300 SLLEAGLGLERAHMGMFTELAILYSKY-KPEKMMEHLKLFWSRVNIPKVIRAAEQAHLWSELVFLYDKYEEYDNA 1373 (1666)
T ss_pred             HHHHhhhchhHHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHhhhhhhHH
Confidence            999877655   444566666555543 455555555444322 221      0223455555555555555544

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=99.13  E-value=8.4e-09  Score=86.44  Aligned_cols=251  Identities=16%  Similarity=0.101  Sum_probs=145.9

Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHH
Q 012804          120 HCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLR  199 (456)
Q Consensus       120 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  199 (456)
                      +-+.-.|.+..++.-.+ ........+......+.+++...|+.+.++   .++.... .|.......+...+...++-+
T Consensus         9 rn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e   83 (290)
T PF04733_consen    9 RNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKE   83 (290)
T ss_dssp             HHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHH
T ss_pred             HHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchH
Confidence            44555677777776555 332221233444556667788888766543   3333332 455555555544444334555


Q ss_pred             HHHHHHHHHhhCCCCC-CHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHH
Q 012804          200 TARWILKELGDSGHAP-NAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQM  278 (456)
Q Consensus       200 ~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  278 (456)
                      .+..-++........+ +..........+...|+++.|++++...      .+.......+.++.+.++++.|.+.++.|
T Consensus        84 ~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~  157 (290)
T PF04733_consen   84 SALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNM  157 (290)
T ss_dssp             CHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            5555555444333332 2222233334556678888887766532      34555666777888888888888888888


Q ss_pred             HHCCCccCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 012804          279 VTDGVQLDIVSYNTLINLYCK----EGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFD  354 (456)
Q Consensus       279 ~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  354 (456)
                      .+.  ..| .+...+..++..    .+.+.+|..+|+++.+. ..++..+.+.+..++...|++++|..++.+....+ +
T Consensus       158 ~~~--~eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~  232 (290)
T PF04733_consen  158 QQI--DED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-P  232 (290)
T ss_dssp             HCC--SCC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--C
T ss_pred             Hhc--CCc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-c
Confidence            764  223 333334444433    23578888888887654 45677777888888888888888888888877654 4


Q ss_pred             CCHHHHHHHHHHHHhCCCH-HHHHHHHHHhccC
Q 012804          355 SNLEAYNCIVDRLGKDGKI-DHAINVFESMEVK  386 (456)
Q Consensus       355 ~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~  386 (456)
                      .++.++..++.+....|+. +.+.+.+.++...
T Consensus       233 ~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  233 NDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             CHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             CCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            5567777777777777777 5566677766654

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=99.12  E-value=8.3e-06  Score=76.40  Aligned_cols=311  Identities=15%  Similarity=0.127  Sum_probs=162.2

Q ss_pred             HHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHH-H---HHHH------HHHhC---------
Q 012804           11 NICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAG-Y---TILN------RMREA---------   71 (456)
Q Consensus        11 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a-~---~~~~------~~~~~---------   71 (456)
                      ..|+.-.-++++..--+.+++..+..|.. ++.++|++...|...++-.+- +   ..|+      -..++         
T Consensus       842 deLv~EvEkRNRLklLlp~LE~~i~eG~~-d~a~hnAlaKIyIDSNNnPE~fLkeN~yYDs~vVGkYCEKRDP~lA~vaY  920 (1666)
T KOG0985|consen  842 DELVEEVEKRNRLKLLLPWLESLIQEGSQ-DPATHNALAKIYIDSNNNPERFLKENPYYDSKVVGKYCEKRDPHLACVAY  920 (1666)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHhccCc-chHHHhhhhheeecCCCChHHhcccCCcchhhHHhhhhcccCCceEEEee
Confidence            34555666778888888888888888865 888999999888776543321 1   0111      11111         


Q ss_pred             --C--------CCCCHhHHHHHHHHHHcCCChhHH-----------HHHHHHHHHCCCC--CCHHhHHHHHHHHHhcCCh
Q 012804           72 --G--------ISPDVVTYNSLIAGATRNSLLSCS-----------LDLLDEMLEMGIP--PDVWSYNSLMHCLFQLGKP  128 (456)
Q Consensus        72 --~--------~~~~~~~~~~l~~~~~~~~~~~~a-----------~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~  128 (456)
                        |        +......|....+.+.+..+.+--           .+++++..+.+++  .|+.....-+.++...+-+
T Consensus       921 erGqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp 1000 (1666)
T KOG0985|consen  921 ERGQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLP 1000 (1666)
T ss_pred             cccCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCc
Confidence              1        001122344444555555443322           2445555554432  3555566677888888889


Q ss_pred             hHHHHHHHHHHhCCCC--CChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHH
Q 012804          129 DEANRVFQDMICGDLT--PCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILK  206 (456)
Q Consensus       129 ~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  206 (456)
                      .+-+++++++.-.+..  .+...-|.++-...+ -+..+..++.+++..-.. |+      +.......+-+++|..+|+
T Consensus      1001 ~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAik-ad~trVm~YI~rLdnyDa-~~------ia~iai~~~LyEEAF~ifk 1072 (1666)
T KOG0985|consen 1001 NELIELLEKIVLDNSVFSENRNLQNLLILTAIK-ADRTRVMEYINRLDNYDA-PD------IAEIAIENQLYEEAFAIFK 1072 (1666)
T ss_pred             HHHHHHHHHHhcCCcccccchhhhhhHHHHHhh-cChHHHHHHHHHhccCCc-hh------HHHHHhhhhHHHHHHHHHH
Confidence            9999999887643211  112222333333332 344555555555544321 12      1222333444455555544


Q ss_pred             HHhhCC---------------------CCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHc
Q 012804          207 ELGDSG---------------------HAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKI  265 (456)
Q Consensus       207 ~~~~~~---------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  265 (456)
                      .....+                     .-..+..|+.+..+-.+.+...+|++.|-+      ..|+..|..+++...+.
T Consensus      1073 kf~~n~~A~~VLie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyik------adDps~y~eVi~~a~~~ 1146 (1666)
T KOG0985|consen 1073 KFDMNVSAIQVLIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYIK------ADDPSNYLEVIDVASRT 1146 (1666)
T ss_pred             HhcccHHHHHHHHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHHh------cCCcHHHHHHHHHHHhc
Confidence            321100                     011344566666666666666655554432      23455666666666666


Q ss_pred             CChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHH
Q 012804          266 GRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHL  345 (456)
Q Consensus       266 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  345 (456)
                      |.+++-.+++....+....|...  +.|+-+|++.++..+..+++       ..|+......+..-|...+.++.|.-++
T Consensus      1147 ~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi-------~gpN~A~i~~vGdrcf~~~~y~aAkl~y 1217 (1666)
T KOG0985|consen 1147 GKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFI-------AGPNVANIQQVGDRCFEEKMYEAAKLLY 1217 (1666)
T ss_pred             CcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHh-------cCCCchhHHHHhHHHhhhhhhHHHHHHH
Confidence            66666666666665554444333  44666666666655544333       1244444444555555555555444443

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

Probab=99.11  E-value=7.8e-08  Score=86.24  Aligned_cols=220  Identities=14%  Similarity=0.042  Sum_probs=176.2

Q ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHH
Q 012804          178 FVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCT  257 (456)
Q Consensus       178 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  257 (456)
                      ++|-...-..+...+.+.|-...|..+++++.         .|..++.+|...|+..+|..+..+..++  +|++..|..
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~  462 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCL  462 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHH
Confidence            34444455667788889999999999998754         3667888999999999999999888884  889999988


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCC
Q 012804          258 VIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGN  337 (456)
Q Consensus       258 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  337 (456)
                      +........-+++|.++.+.....       .-..+.....+.++++++.+.|+.-.+.+ +....+|..+..+..+.++
T Consensus       463 LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek  534 (777)
T KOG1128|consen  463 LGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEK  534 (777)
T ss_pred             hhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhh
Confidence            888777777778888887765432       22222333345789999999999887753 2366788888888889999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHH
Q 012804          338 IKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSC  414 (456)
Q Consensus       338 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~  414 (456)
                      ++.|.+.|....... +.+...|+.+..+|.+.|+..+|...+.++.+.   +...|...+....+.|.+++|++.+.++
T Consensus       535 ~q~av~aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rl  613 (777)
T KOG1128|consen  535 EQAAVKAFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRL  613 (777)
T ss_pred             hHHHHHHHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHH
Confidence            999999999988763 666899999999999999999999999998876   5667777888889999999999999998


Q ss_pred             HHc
Q 012804          415 LKS  417 (456)
Q Consensus       415 ~~~  417 (456)
                      .+.
T Consensus       614 l~~  616 (777)
T KOG1128|consen  614 LDL  616 (777)
T ss_pred             HHh
Confidence            754

>PLN02789 farnesyltranstransferase

Probab=99.10  E-value=3.7e-07  Score=77.70  Aligned_cols=201  Identities=12%  Similarity=0.032  Sum_probs=88.6

Q ss_pred             cCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcC-ChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCH--HHH
Q 012804          230 NRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIG-RLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKL--EAA  306 (456)
Q Consensus       230 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~a  306 (456)
                      .+..++|+.+..++++.. +.+..++..-..++...| ++++++..++++...+.. +..+|+.....+.+.|+.  +++
T Consensus        50 ~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~~~~~~e  127 (320)
T PLN02789         50 DERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGPDAANKE  127 (320)
T ss_pred             CCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCchhhHHH
Confidence            334444555555544443 333333333333333444 345555555555544332 333444333333333332  344


Q ss_pred             HHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhC---CCH----HHHHHH
Q 012804          307 YLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKD---GKI----DHAINV  379 (456)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~----~~a~~~  379 (456)
                      +.+++.+.+.+.. +..+|.....++...|++++++..+.++++.+ +.|...|+.....+.+.   |..    +++.+.
T Consensus       128 l~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d-~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y  205 (320)
T PLN02789        128 LEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEED-VRNNSAWNQRYFVITRSPLLGGLEAMRDSELKY  205 (320)
T ss_pred             HHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC-CCchhHHHHHHHHHHhccccccccccHHHHHHH
Confidence            5555555444322 44455555555555555555555555555543 33344444444433332   111    234444


Q ss_pred             HHHhccC---ChhhHHHHHHHHHcc----CChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHc
Q 012804          380 FESMEVK---DSFTYSSMVHNLCKA----KRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRH  435 (456)
Q Consensus       380 ~~~~~~~---~~~~~~~l~~~~~~~----~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  435 (456)
                      ..+++..   +...|+.+...+...    ++..+|.+.+.+..+.++. ++..+..+++.|..
T Consensus       206 ~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~-s~~al~~l~d~~~~  267 (320)
T PLN02789        206 TIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSN-HVFALSDLLDLLCE  267 (320)
T ss_pred             HHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCC-cHHHHHHHHHHHHh
Confidence            4333332   445555555555442    2334455555555443322 44455555555543

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.08  E-value=2.2e-06  Score=79.99  Aligned_cols=424  Identities=12%  Similarity=-0.009  Sum_probs=248.7

Q ss_pred             hCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHH
Q 012804           20 ANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDL   99 (456)
Q Consensus        20 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   99 (456)
                      +.+...|+..|-+..+.++. -...|..|...|+...+...|...|+...+.+ ..+..........|++..+++.|..+
T Consensus       471 rK~~~~al~ali~alrld~~-~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I  548 (1238)
T KOG1127|consen  471 RKNSALALHALIRALRLDVS-LAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEI  548 (1238)
T ss_pred             hhhHHHHHHHHHHHHhcccc-hhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHH
Confidence            34578888888888877643 34578999999998889999999999998764 33566788889999999999999998


Q ss_pred             HHHHHHCCC-CCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 012804          100 LDEMLEMGI-PPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGF  178 (456)
Q Consensus       100 ~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  178 (456)
                      .-..-+... ..-...|....-.|...++...++.-|+...... |.|...|..+..+|...|++..|+++|.+....  
T Consensus       549 ~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--  625 (1238)
T KOG1127|consen  549 CLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--  625 (1238)
T ss_pred             HHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--
Confidence            433333211 0111223334455778899999999999998877 788999999999999999999999999998775  


Q ss_pred             CCcH-HHHHHHHHHHHHcCCHHHHHHHHHHHhhC------CCCCCHHHHHHHHHHHHhcCch-------hHHHHHHHHHH
Q 012804          179 VPEL-VTYNILIKGLCKAGRLRTARWILKELGDS------GHAPNAITYTTIMKCCFRNRKY-------KLGLEILSAMK  244 (456)
Q Consensus       179 ~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~~~~-------~~a~~~~~~~~  244 (456)
                      .|+. ..-......-+..|.+.++...+......      +..--..++..+...+...|-.       +.+++.|.-..
T Consensus       626 rP~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l  705 (1238)
T KOG1127|consen  626 RPLSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSL  705 (1238)
T ss_pred             CcHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHH
Confidence            3332 22222334457789999999888776431      1111122222222222222222       22333333222


Q ss_pred             HcCCCcChhhHHHHHHHHHHcCChH------HHHHHH-HHHHHCC--------------------CccCHHHHHHHHHHH
Q 012804          245 RKGYTFDGFGYCTVIAAFVKIGRLK------EATDYM-EQMVTDG--------------------VQLDIVSYNTLINLY  297 (456)
Q Consensus       245 ~~~~~~~~~~~~~l~~~~~~~~~~~------~a~~~~-~~~~~~~--------------------~~~~~~~~~~l~~~~  297 (456)
                      ......+...|..+..+|.-.-..+      ....++ .+....+                    ...++.+|..++..|
T Consensus       706 ~h~~~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGiny  785 (1238)
T KOG1127|consen  706 IHSLQSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINY  785 (1238)
T ss_pred             HHhhhhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHH
Confidence            2221122222222221111000000      000000 0011111                    111233344444433


Q ss_pred             Hh----cC----CHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 012804          298 CK----EG----KLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGK  369 (456)
Q Consensus       298 ~~----~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  369 (456)
                      .+    .|    +...|...++..++.. ..+..+|+.|.-. ...|++.-+...|-+..... +....+|..+...+..
T Consensus       786 lr~f~~l~et~~~~~~Ai~c~KkaV~L~-ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~  862 (1238)
T KOG1127|consen  786 LRYFLLLGETMKDACTAIRCCKKAVSLC-ANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLE  862 (1238)
T ss_pred             HHHHHHcCCcchhHHHHHHHHHHHHHHh-hccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEe
Confidence            33    11    2234556666555532 1244455555443 55567766666666655442 5556677777777788


Q ss_pred             CCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHH----HcCCCCCHHhHHHHHHHHHccCChHHH
Q 012804          370 DGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCL----KSGVRILKSAQKAVVDGLRHSGCRREA  442 (456)
Q Consensus       370 ~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~g~~~~A  442 (456)
                      ..+++.|...|......   +...|..........|+.-++..+|.---    ..|-.|+..-|..........|+.++-
T Consensus       863 n~d~E~A~~af~~~qSLdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~  942 (1238)
T KOG1127|consen  863 NQDFEHAEPAFSSVQSLDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEES  942 (1238)
T ss_pred             cccHHHhhHHHHhhhhcCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHH
Confidence            88888888888877766   44555555555556777777777776521    224455556666666666677776665


Q ss_pred             HHHHHHHHh
Q 012804          443 KKIQSKIRM  451 (456)
Q Consensus       443 ~~~~~~~~~  451 (456)
                      ....+++..
T Consensus       943 I~t~~ki~s  951 (1238)
T KOG1127|consen  943 INTARKISS  951 (1238)
T ss_pred             HHHhhhhhh
Confidence            555555433

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=99.08  E-value=6.4e-06  Score=71.77  Aligned_cols=410  Identities=12%  Similarity=0.069  Sum_probs=225.5

Q ss_pred             CCCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHH
Q 012804            2 FGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYN   81 (456)
Q Consensus         2 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   81 (456)
                      ..|-|..+|+.||+-+..+ .++++.+.+++++..- +-+...|..-+..-...++++....+|.+....  ..+...|.
T Consensus        15 ~nP~di~sw~~lire~qt~-~~~~~R~~YEq~~~~F-P~s~r~W~~yi~~El~skdfe~VEkLF~RCLvk--vLnlDLW~   90 (656)
T KOG1914|consen   15 ENPYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNVF-PSSPRAWKLYIERELASKDFESVEKLFSRCLVK--VLNLDLWK   90 (656)
T ss_pred             cCCccHHHHHHHHHHHccC-CHHHHHHHHHHHhccC-CCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--HhhHhHHH
Confidence            3678999999999988777 9999999999998653 336678999999999999999999999988765  34677777


Q ss_pred             HHHHHHHcC-CChh----HHHHHHHHHH-HCCCCCC-HHhHHHHHHH---------HHhcCChhHHHHHHHHHHhCCCCC
Q 012804           82 SLIAGATRN-SLLS----CSLDLLDEML-EMGIPPD-VWSYNSLMHC---------LFQLGKPDEANRVFQDMICGDLTP  145 (456)
Q Consensus        82 ~l~~~~~~~-~~~~----~a~~~~~~~~-~~~~~~~-~~~~~~l~~~---------~~~~~~~~~a~~~~~~~~~~~~~~  145 (456)
                      ..+..-.+. ++..    ...+.|+-.. +.|..+- -..|+..+..         +....+++...++|+++....+..
T Consensus        91 lYl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~n  170 (656)
T KOG1914|consen   91 LYLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHN  170 (656)
T ss_pred             HHHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCcccc
Confidence            777654432 2222    2233444333 3343322 2234443332         344456777888888887643222


Q ss_pred             ChhHHHH------HHHHH-------HhcCChHHHHHHHHHHHhC--CCC-------Cc--------HHHHHHHHHHHHHc
Q 012804          146 CTATFNI------MLNGL-------CKNRYTDNALRMFRGLQKH--GFV-------PE--------LVTYNILIKGLCKA  195 (456)
Q Consensus       146 ~~~~~~~------l~~~~-------~~~~~~~~a~~~~~~~~~~--~~~-------~~--------~~~~~~l~~~~~~~  195 (456)
                      -...|+-      =++..       -+...+..|.++++++...  |+.       |.        ...|-.+|.--..+
T Consensus       171 lEkLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksN  250 (656)
T KOG1914|consen  171 LEKLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSN  250 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcC
Confidence            1222221      11111       1233456677777666432  221       11        01122222211111


Q ss_pred             CC--------HHHHHHHHHHHh-hCCCCCCHHHHH-H----HHHHHHhcCc-------hhHHHHHHHHHHHcCCCcChhh
Q 012804          196 GR--------LRTARWILKELG-DSGHAPNAITYT-T----IMKCCFRNRK-------YKLGLEILSAMKRKGYTFDGFG  254 (456)
Q Consensus       196 ~~--------~~~a~~~~~~~~-~~~~~~~~~~~~-~----l~~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~~  254 (456)
                      +-        -....-.+++.. -.+..|+..... .    .-+.+...|+       .+++..++++....-...+...
T Consensus       251 pL~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~L  330 (656)
T KOG1914|consen  251 PLRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLL  330 (656)
T ss_pred             CcccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            10        011111222211 122222211100 0    0111222232       3444455554443322222222


Q ss_pred             HHHHHHHHHHc---CChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-CHHhHHHHHH
Q 012804          255 YCTVIAAFVKI---GRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFEC-DKYTHTILID  330 (456)
Q Consensus       255 ~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~  330 (456)
                      |..+...--..   ...+.....+++++..-..--..+|..+++.-.+......|..+|.++.+.+..+ +..+..+++.
T Consensus       331 y~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mE  410 (656)
T KOG1914|consen  331 YFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALME  410 (656)
T ss_pred             HHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHH
Confidence            22222111111   1244455555555544222223456666777777777788888888887766555 5556666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC------ChhhHHHHHHHHHccCCh
Q 012804          331 GLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK------DSFTYSSMVHNLCKAKRL  404 (456)
Q Consensus       331 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------~~~~~~~l~~~~~~~~~~  404 (456)
                      .++ .++.+-|.++|+.-++. +..++.-....++.+...|+-..+..+|+++...      ....|..++.--..-|+.
T Consensus       411 y~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL  488 (656)
T KOG1914|consen  411 YYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDL  488 (656)
T ss_pred             HHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccH
Confidence            554 46777888888875544 3444555566677777788888888888877665      346777887777778888


Q ss_pred             hHHHHHHHHHHHc
Q 012804          405 PSASKLLLSCLKS  417 (456)
Q Consensus       405 ~~A~~~~~~~~~~  417 (456)
                      ..+.++-+++...
T Consensus       489 ~si~~lekR~~~a  501 (656)
T KOG1914|consen  489 NSILKLEKRRFTA  501 (656)
T ss_pred             HHHHHHHHHHHHh
Confidence            8777777766543

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.07  E-value=1.1e-06  Score=79.20  Aligned_cols=193  Identities=19%  Similarity=0.232  Sum_probs=113.9

Q ss_pred             HHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCC
Q 012804          223 IMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGK  302 (456)
Q Consensus       223 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  302 (456)
                      .+.+......+.+|+.+++.+....  .-..-|..+...|...|+++.|+++|.+.         ..++..|..|.+.|+
T Consensus       738 aieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~k  806 (1636)
T KOG3616|consen  738 AIEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGK  806 (1636)
T ss_pred             HHHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhcccc
Confidence            3455556677777777777776553  22334566677777788888887777543         234556777788888


Q ss_pred             HHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Q 012804          303 LEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFES  382 (456)
Q Consensus       303 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  382 (456)
                      |..|.++-.+..  |.+.....|..-..-+-..|++.+|.+++-.+   | .|+     ..+.+|-+.|..++.+++..+
T Consensus       807 w~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti---~-~p~-----~aiqmydk~~~~ddmirlv~k  875 (1636)
T KOG3616|consen  807 WEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITI---G-EPD-----KAIQMYDKHGLDDDMIRLVEK  875 (1636)
T ss_pred             HHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEc---c-Cch-----HHHHHHHhhCcchHHHHHHHH
Confidence            888777765553  22334445555555566677777776665332   2 233     234566777777777776665


Q ss_pred             hccC-ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHH
Q 012804          383 MEVK-DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQ  446 (456)
Q Consensus       383 ~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  446 (456)
                      .... -..+...+..-|-..|+...|...|-++-         -|.+.+..|..++.|++|.++.
T Consensus       876 ~h~d~l~dt~~~f~~e~e~~g~lkaae~~flea~---------d~kaavnmyk~s~lw~dayria  931 (1636)
T KOG3616|consen  876 HHGDHLHDTHKHFAKELEAEGDLKAAEEHFLEAG---------DFKAAVNMYKASELWEDAYRIA  931 (1636)
T ss_pred             hChhhhhHHHHHHHHHHHhccChhHHHHHHHhhh---------hHHHHHHHhhhhhhHHHHHHHH
Confidence            5443 33455555666666666666666554442         1233444455555555555443

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

Probab=99.03  E-value=1.6e-07  Score=82.08  Aligned_cols=88  Identities=17%  Similarity=0.142  Sum_probs=57.5

Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHH
Q 012804          121 CLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRT  200 (456)
Q Consensus       121 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  200 (456)
                      .+.+.|++.+|.-.|+..++.+ |-+...|..|.......++-..|+..+++..+.. +-+....-.|.-.|...|.-.+
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHH
Confidence            3556677777777777766665 5566677777777777777777777777776652 2355566666666667776666


Q ss_pred             HHHHHHHHhh
Q 012804          201 ARWILKELGD  210 (456)
Q Consensus       201 a~~~~~~~~~  210 (456)
                      |+..++....
T Consensus       372 Al~~L~~Wi~  381 (579)
T KOG1125|consen  372 ALKMLDKWIR  381 (579)
T ss_pred             HHHHHHHHHH
Confidence            7766666544

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.02  E-value=3.3e-06  Score=76.39  Aligned_cols=107  Identities=10%  Similarity=0.106  Sum_probs=46.6

Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhH
Q 012804          156 GLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKL  235 (456)
Q Consensus       156 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  235 (456)
                      +......|.+|+.+++.+.....  -...|..+...|...|+++.|.++|.+.         ..++-.|.+|.+.|+++.
T Consensus       741 aai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~d  809 (1636)
T KOG3616|consen  741 AAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWED  809 (1636)
T ss_pred             HHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHH
Confidence            33344455555555555544321  2223444445555555555555555322         112334445555555555


Q ss_pred             HHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHH
Q 012804          236 GLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYM  275 (456)
Q Consensus       236 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  275 (456)
                      |.++-.+....  ......|-.-..-+-..|++.+|++++
T Consensus       810 a~kla~e~~~~--e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  810 AFKLAEECHGP--EATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             HHHHHHHhcCc--hhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            55544433311  222223333333344444444444443

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

Probab=99.01  E-value=1.3e-07  Score=84.83  Aligned_cols=220  Identities=15%  Similarity=0.076  Sum_probs=177.8

Q ss_pred             CCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHH
Q 012804          214 APNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTL  293 (456)
Q Consensus       214 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  293 (456)
                      +|-...-..+...+...|-...|..+++++.         .+..++.+|...|+..+|..+..+..+  -+|++..|..+
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~L  463 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLL  463 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHh
Confidence            3444445566777888888999999888765         455678899999999999999988887  36788888888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCH
Q 012804          294 INLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKI  373 (456)
Q Consensus       294 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  373 (456)
                      .......--+++|.++.+.....       .-..+.....+.++++++.+.|+.-.+.. +.-..+|-.+..+..+.+++
T Consensus       464 GDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~  535 (777)
T KOG1128|consen  464 GDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKE  535 (777)
T ss_pred             hhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhh
Confidence            88777777788888888765432       12222222345789999999999988764 55678999999999999999


Q ss_pred             HHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHH
Q 012804          374 DHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIR  450 (456)
Q Consensus       374 ~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  450 (456)
                      +.|.+.|......   +...|+++..+|.+.++..+|...++++.+-+ ..+...|........+.|.+++|.+.+.++.
T Consensus       536 q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll  614 (777)
T KOG1128|consen  536 QAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLL  614 (777)
T ss_pred             HHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHH
Confidence            9999999988766   77899999999999999999999999999887 4477788888888899999999999999987


Q ss_pred             hcc
Q 012804          451 MAK  453 (456)
Q Consensus       451 ~~~  453 (456)
                      ..+
T Consensus       615 ~~~  617 (777)
T KOG1128|consen  615 DLR  617 (777)
T ss_pred             Hhh
Confidence            654

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

Probab=99.00  E-value=1.4e-07  Score=74.63  Aligned_cols=146  Identities=10%  Similarity=0.099  Sum_probs=109.3

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCH
Q 012804          259 IAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNI  338 (456)
Q Consensus       259 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  338 (456)
                      +..|...|++..+....+.+..    |.        ..+...++.+++...++...+.+ +.+...|..+...|...|++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCH
Confidence            4457788888876544432211    11        01223667778888888777764 34778888888899999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHH-HhCCC--HHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHH
Q 012804          339 KGARLHLEYMNKIGFDSNLEAYNCIVDRL-GKDGK--IDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLL  412 (456)
Q Consensus       339 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~--~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~  412 (456)
                      ++|...++++.+.. +.+...+..+..++ ...|+  .++|.++++++...   ++.++..++..+.+.|++++|+..|+
T Consensus        90 ~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~  168 (198)
T PRK10370         90 DNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999988874 56778888888764 67676  48999999988776   67788888888999999999999999


Q ss_pred             HHHHcC
Q 012804          413 SCLKSG  418 (456)
Q Consensus       413 ~~~~~~  418 (456)
                      ++++..
T Consensus       169 ~aL~l~  174 (198)
T PRK10370        169 KVLDLN  174 (198)
T ss_pred             HHHhhC
Confidence            998774

>PLN02789 farnesyltranstransferase

Probab=98.99  E-value=2.7e-06  Score=72.51  Aligned_cols=204  Identities=11%  Similarity=0.045  Sum_probs=93.0

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcC-ChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCh--HHH
Q 012804           90 NSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLG-KPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYT--DNA  166 (456)
Q Consensus        90 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~a  166 (456)
                      .++.++|+.+..++++..+. +..+|+....++...| ++++++..++++...+ +.+..+|+.....+.+.|..  +++
T Consensus        50 ~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~~~~e  127 (320)
T PLN02789         50 DERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDAANKE  127 (320)
T ss_pred             CCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchhhHHH
Confidence            34444555555555443221 2233333333334444 3455555555555443 33344444443333333331  344


Q ss_pred             HHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhc---Cc----hhHHHHH
Q 012804          167 LRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRN---RK----YKLGLEI  239 (456)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~----~~~a~~~  239 (456)
                      +.+++++.+.. +-+..+|+....++...|+++++++.+.++.+.++. +...|+.....+.+.   +.    .+.....
T Consensus       128 l~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y  205 (320)
T PLN02789        128 LEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSELKY  205 (320)
T ss_pred             HHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHHHHH
Confidence            55555554442 224455555555555555555555555555554333 333333333222222   11    2344555


Q ss_pred             HHHHHHcCCCcChhhHHHHHHHHHHc----CChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHh
Q 012804          240 LSAMKRKGYTFDGFGYCTVIAAFVKI----GRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCK  299 (456)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  299 (456)
                      ...++... |-+...|+.+...+...    +...+|...+.+....++. +......|+..|+.
T Consensus       206 ~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~-s~~al~~l~d~~~~  267 (320)
T PLN02789        206 TIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSN-HVFALSDLLDLLCE  267 (320)
T ss_pred             HHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCC-cHHHHHHHHHHHHh
Confidence            54555443 44555555555555442    2334466666655544322 45555666666654

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

Probab=98.98  E-value=2.9e-07  Score=72.59  Aligned_cols=156  Identities=12%  Similarity=0.065  Sum_probs=104.0

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhc
Q 012804          256 CTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKA  335 (456)
Q Consensus       256 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  335 (456)
                      ..+-..+...|+-+....+........ +.+.......+....+.|++..|...+.+..... ++|..+|+.+.-+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHc
Confidence            445556666676666666666654432 2355555666777777777777777777776643 45677777777777777


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHH
Q 012804          336 GNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLL  412 (456)
Q Consensus       336 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~  412 (456)
                      |+++.|..-|.+..+.. +-+...++.+...+.-.|+.+.|..++......   +..+-..+..+....|++++|.++..
T Consensus       148 Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         148 GRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             cChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            77777777777777652 445566677777777777777777777766544   66666677777777777777777655


Q ss_pred             HH
Q 012804          413 SC  414 (456)
Q Consensus       413 ~~  414 (456)
                      +-
T Consensus       227 ~e  228 (257)
T COG5010         227 QE  228 (257)
T ss_pred             cc
Confidence            44

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

Probab=98.93  E-value=1.3e-06  Score=84.19  Aligned_cols=222  Identities=15%  Similarity=0.092  Sum_probs=174.0

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHHc-CCCcC---hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHH
Q 012804          216 NAITYTTIMKCCFRNRKYKLGLEILSAMKRK-GYTFD---GFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYN  291 (456)
Q Consensus       216 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  291 (456)
                      +...|-..|......++.++|.++.++++.. ++...   ...|.++++.-..-|.-+...++|+++.+..  -....|.
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~~ 1534 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVHL 1534 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHHH
Confidence            5667888888888999999999999998865 22222   2356666666667788888999999998752  2356788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHh
Q 012804          292 TLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDS--NLEAYNCIVDRLGK  369 (456)
Q Consensus       292 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~  369 (456)
                      .|...|.+.+.+++|.++++.|.+. +.-....|...+..+.+.++-+.|..++.++++. .+.  ........+..-.+
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~-lPk~eHv~~IskfAqLEFk 1612 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS-LPKQEHVEFISKFAQLEFK 1612 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh-cchhhhHHHHHHHHHHHhh
Confidence            8999999999999999999999875 3346778999999999999999999999998875 222  45666777778889


Q ss_pred             CCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCH--HhHHHHHHHHHccCChHH
Q 012804          370 DGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILK--SAQKAVVDGLRHSGCRRE  441 (456)
Q Consensus       370 ~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~  441 (456)
                      .|+.+.++.+|+.....   ....|+.+++.-.+.|+.+.+..+|++++..++.|..  ..|...+..--..|+-..
T Consensus      1613 ~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~ 1689 (1710)
T KOG1070|consen 1613 YGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKN 1689 (1710)
T ss_pred             cCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhh
Confidence            99999999999987665   5678999999999999999999999999998877654  345555555555666433

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.92  E-value=3.1e-07  Score=75.97  Aligned_cols=190  Identities=11%  Similarity=-0.031  Sum_probs=131.4

Q ss_pred             CcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCc-c-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCH--Hh
Q 012804          249 TFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQ-L-DIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDK--YT  324 (456)
Q Consensus       249 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~  324 (456)
                      ......+......+...|+++.|...++++....+. | ....+..+..++...|++++|...++.+.+.......  .+
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a  109 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYA  109 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHH
Confidence            344556677778888999999999999998876332 1 1246677888999999999999999999875322111  24


Q ss_pred             HHHHHHHHHhc--------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCChhhHHHHHH
Q 012804          325 HTILIDGLCKA--------GNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVH  396 (456)
Q Consensus       325 ~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~  396 (456)
                      +..+..++...        |++++|...++.+.+.. +.+...+..+.....    ....          .......+..
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~~~~----~~~~----------~~~~~~~~a~  174 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY-PNSEYAPDAKKRMDY----LRNR----------LAGKELYVAR  174 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC-CCChhHHHHHHHHHH----HHHH----------HHHHHHHHHH
Confidence            55555556554        67888999999988762 333333322221111    0000          0111235667


Q ss_pred             HHHccCChhHHHHHHHHHHHcCC--CCCHHhHHHHHHHHHccCChHHHHHHHHHHHhcc
Q 012804          397 NLCKAKRLPSASKLLLSCLKSGV--RILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAK  453 (456)
Q Consensus       397 ~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  453 (456)
                      .+.+.|++.+|+..++++++..+  +.....+..++.++.+.|++++|..+++.+....
T Consensus       175 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       175 FYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            78999999999999999987733  1235788899999999999999999999887654

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

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

Probab=98.92  E-value=1.9e-06  Score=83.18  Aligned_cols=244  Identities=8%  Similarity=0.021  Sum_probs=165.5

Q ss_pred             HHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhC-CCC---CCHhHHHHHHHHHHcCCChhHHHHHHHHHH
Q 012804           29 IIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREA-GIS---PDVVTYNSLIAGATRNSLLSCSLDLLDEML  104 (456)
Q Consensus        29 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  104 (456)
                      =|++.+...|. +...|-..|......++.++|+++++++... ++.   --...|.++++.-...|.-+...++|+++.
T Consensus      1446 DferlvrssPN-SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAc 1524 (1710)
T KOG1070|consen 1446 DFERLVRSSPN-SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERAC 1524 (1710)
T ss_pred             HHHHHHhcCCC-cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHH
Confidence            35555555432 5557777777778888888888888877653 111   112356666666666777777788888887


Q ss_pred             HCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC--cH
Q 012804          105 EMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVP--EL  182 (456)
Q Consensus       105 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~  182 (456)
                      +..  -.-..|..|...|.+.+.+++|.++++.|.+.- ......|...+..+.+.++-++|..++.+..+. ++-  -.
T Consensus      1525 qyc--d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~-lPk~eHv 1600 (1710)
T KOG1070|consen 1525 QYC--DAYTVHLKLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKS-LPKQEHV 1600 (1710)
T ss_pred             Hhc--chHHHHHHHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh-cchhhhH
Confidence            752  123456778888888888888888888887652 245677888888888888888888888877765 221  23


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcC--hhhHHHHHH
Q 012804          183 VTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFD--GFGYCTVIA  260 (456)
Q Consensus       183 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~  260 (456)
                      ......+..-.+.|+.+.+..+|+......++ ....|+..++.-.+.++.+.+..+|+++...++++.  ...|...+.
T Consensus      1601 ~~IskfAqLEFk~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLe 1679 (1710)
T KOG1070|consen 1601 EFISKFAQLEFKYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLE 1679 (1710)
T ss_pred             HHHHHHHHHHhhcCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHH
Confidence            33444455566788888888888887765433 667788888888888888888888888888776654  345666666


Q ss_pred             HHHHcCChHHHHHHHHHH
Q 012804          261 AFVKIGRLKEATDYMEQM  278 (456)
Q Consensus       261 ~~~~~~~~~~a~~~~~~~  278 (456)
                      .--..|+-+.++.+=.++
T Consensus      1680 yEk~~Gde~~vE~VKarA 1697 (1710)
T KOG1070|consen 1680 YEKSHGDEKNVEYVKARA 1697 (1710)
T ss_pred             HHHhcCchhhHHHHHHHH
Confidence            655666655544443333

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.91  E-value=3.5e-06  Score=80.26  Aligned_cols=242  Identities=10%  Similarity=0.089  Sum_probs=145.6

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHH
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNS   82 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   82 (456)
                      +|.+...+..|+..+...|++++|.++.+...+..+. ....|-.+...+.+.++.+.+..+                 .
T Consensus        27 ~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~-~i~~yy~~G~l~~q~~~~~~~~lv-----------------~   88 (906)
T PRK14720         27 SLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKK-SISALYISGILSLSRRPLNDSNLL-----------------N   88 (906)
T ss_pred             CcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCc-ceehHHHHHHHHHhhcchhhhhhh-----------------h
Confidence            5677888888898888899999999998877776433 333444444466666665555444                 2


Q ss_pred             HHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCC
Q 012804           83 LIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRY  162 (456)
Q Consensus        83 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  162 (456)
                      ++.......++.-...+...|...+  -+...+..+..+|-+.|+.+++..+++++++.+ +.++.+.|.+...|... +
T Consensus        89 ~l~~~~~~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-d  164 (906)
T PRK14720         89 LIDSFSQNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-D  164 (906)
T ss_pred             hhhhcccccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-h
Confidence            3333334444433444444444432  344577788888888888899999998888887 77788888888888888 8


Q ss_pred             hHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHH
Q 012804          163 TDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSA  242 (456)
Q Consensus       163 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  242 (456)
                      +++|.+++.+....               +...+++..+..++..+....+. +...+..+.+.....-           
T Consensus       165 L~KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~~-d~d~f~~i~~ki~~~~-----------  217 (906)
T PRK14720        165 KEKAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNSD-DFDFFLRIERKVLGHR-----------  217 (906)
T ss_pred             HHHHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCcc-cchHHHHHHHHHHhhh-----------
Confidence            88888888777654               55556677777777666654322 2222222221111110           


Q ss_pred             HHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHH
Q 012804          243 MKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYC  298 (456)
Q Consensus       243 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  298 (456)
                          +...-..++..+-..|-..++++++..+++.+++.... |......++.+|.
T Consensus       218 ----~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        218 ----EFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             ----ccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCc-chhhHHHHHHHHH
Confidence                11111223333444555555666666666666655332 4444445555444

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.90  E-value=6e-07  Score=74.31  Aligned_cols=190  Identities=9%  Similarity=-0.056  Sum_probs=110.5

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCC--CHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCH--h
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLP--DVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDV--V   78 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~   78 (456)
                      .+..+..+-.+...+...|++++|...|+++....+..  ...++..+..++...|++++|...++.+.+.......  .
T Consensus        29 ~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~  108 (235)
T TIGR03302        29 EEWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADY  108 (235)
T ss_pred             ccCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHH
Confidence            34455666666777777777777777777776654321  1135566667777777777777777777654311111  1


Q ss_pred             HHHHHHHHHHcC--------CChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHH
Q 012804           79 TYNSLIAGATRN--------SLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATF  150 (456)
Q Consensus        79 ~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  150 (456)
                      ++..+..++...        |+.+.|.+.++.+....+. +...+..+.....    ..      ...        ....
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~~~~----~~------~~~--------~~~~  169 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN-SEYAPDAKKRMDY----LR------NRL--------AGKE  169 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC-ChhHHHHHHHHHH----HH------HHH--------HHHH
Confidence            333333444333        5566677777776664322 2212211111100    00      000        0011


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC
Q 012804          151 NIMLNGLCKNRYTDNALRMFRGLQKHGF--VPELVTYNILIKGLCKAGRLRTARWILKELGDS  211 (456)
Q Consensus       151 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  211 (456)
                      ..+...+.+.|++++|+..++...+...  +.....+..+..++...|++++|...++.+...
T Consensus       170 ~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       170 LYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            2455678888999999988888876521  223567778888888999999998888877654

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).

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

Probab=98.89  E-value=3.4e-07  Score=72.20  Aligned_cols=165  Identities=18%  Similarity=0.091  Sum_probs=132.4

Q ss_pred             CHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 012804           41 DVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMH  120 (456)
Q Consensus        41 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  120 (456)
                      |... ...-..+...|+-+....+....... .+-|.......+....+.|++..|+..+.+..... ++|..+|+.+.-
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lga  142 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGA  142 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHH
Confidence            4444 55667777788888888887775543 23455566668888999999999999999988754 558899999999


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHH
Q 012804          121 CLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRT  200 (456)
Q Consensus       121 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  200 (456)
                      +|.+.|+++.|..-|.+..+.. +-+....+.+...+.-.|+.+.|..++......+ ..+...-..+.......|++++
T Consensus       143 aldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~  220 (257)
T COG5010         143 ALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFRE  220 (257)
T ss_pred             HHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHH
Confidence            9999999999999999988765 4566788889989999999999999999888763 3367777888888899999999


Q ss_pred             HHHHHHHHhh
Q 012804          201 ARWILKELGD  210 (456)
Q Consensus       201 a~~~~~~~~~  210 (456)
                      |.++...-..
T Consensus       221 A~~i~~~e~~  230 (257)
T COG5010         221 AEDIAVQELL  230 (257)
T ss_pred             HHhhcccccc
Confidence            9988776544

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.85  E-value=3.8e-07  Score=68.28  Aligned_cols=104  Identities=10%  Similarity=-0.079  Sum_probs=63.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHcc
Q 012804          325 HTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKA  401 (456)
Q Consensus       325 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~  401 (456)
                      +..+...+...|++++|...|+.+.... +.+...+..+..++...|++++|...|+++...   ++..+..++.++...
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~  105 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMM  105 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHc
Confidence            3344555566666666666666666553 445666666666666666666666666666554   555666666666777


Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHhHHHHH
Q 012804          402 KRLPSASKLLLSCLKSGVRILKSAQKAVV  430 (456)
Q Consensus       402 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~  430 (456)
                      |++++|+..|+++++..+. ++..+....
T Consensus       106 g~~~eAi~~~~~Al~~~p~-~~~~~~~~~  133 (144)
T PRK15359        106 GEPGLAREAFQTAIKMSYA-DASWSEIRQ  133 (144)
T ss_pred             CCHHHHHHHHHHHHHhCCC-ChHHHHHHH
Confidence            7777777777777655322 444443333

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.85  E-value=5.5e-06  Score=78.93  Aligned_cols=235  Identities=8%  Similarity=0.035  Sum_probs=127.5

Q ss_pred             CHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHH
Q 012804          111 DVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIK  190 (456)
Q Consensus       111 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  190 (456)
                      +...+..|+..+...+++++|.++.+...+.. +-....|..+...+...++.+++.-+                 .++.
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~-P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~l~   91 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEH-KKSISALYISGILSLSRRPLNDSNLL-----------------NLID   91 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CcceehHHHHHHHHHhhcchhhhhhh-----------------hhhh
Confidence            44556666666666777777777766555442 22233333333344444443333333                 2222


Q ss_pred             HHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHH
Q 012804          191 GLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKE  270 (456)
Q Consensus       191 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  270 (456)
                      ......++..+..+...+...  .-+...+..+..+|.+.|+.+++..+++++.+.+ +-++.+.+.+...|... ++++
T Consensus        92 ~~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~K  167 (906)
T PRK14720         92 SFSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEK  167 (906)
T ss_pred             hcccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHH
Confidence            223333333333333333332  1233455666666667777777777777777665 55666666666666666 6666


Q ss_pred             HHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 012804          271 ATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNK  350 (456)
Q Consensus       271 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  350 (456)
                      |..++.+.+..               +...+++..+.++|..+....+. +...|..+.                +.+..
T Consensus       168 A~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~~-d~d~f~~i~----------------~ki~~  215 (906)
T PRK14720        168 AITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNSD-DFDFFLRIE----------------RKVLG  215 (906)
T ss_pred             HHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCcc-cchHHHHHH----------------HHHHh
Confidence            66666655432               44555666666666666654221 222222222                22222


Q ss_pred             C-CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHH
Q 012804          351 I-GFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLC  399 (456)
Q Consensus       351 ~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~  399 (456)
                      . +..--..++..+...|...++++++..+++.+...   |..+...++..|.
T Consensus       216 ~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        216 HREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             hhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence            1 22223455666667777788888888888877766   4555566666665

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.84  E-value=5.9e-05  Score=66.06  Aligned_cols=411  Identities=12%  Similarity=0.059  Sum_probs=244.5

Q ss_pred             HhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHH
Q 012804           34 IRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVW  113 (456)
Q Consensus        34 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  113 (456)
                      ++.++ -|+.+|+.|++-+... .++++.+.++++... .+-.+..|..-|..-...++++..+++|.+.+..-  .+..
T Consensus        13 ie~nP-~di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkv--LnlD   87 (656)
T KOG1914|consen   13 IEENP-YDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKV--LNLD   87 (656)
T ss_pred             HhcCC-ccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH--hhHh
Confidence            34443 4899999999988766 999999999999875 34567889999999999999999999999987753  3555


Q ss_pred             hHHHHHHHHHh-cCChh----HHHHHHHHHHh-CCCCC-ChhHHHHHHHH---------HHhcCChHHHHHHHHHHHhCC
Q 012804          114 SYNSLMHCLFQ-LGKPD----EANRVFQDMIC-GDLTP-CTATFNIMLNG---------LCKNRYTDNALRMFRGLQKHG  177 (456)
Q Consensus       114 ~~~~l~~~~~~-~~~~~----~a~~~~~~~~~-~~~~~-~~~~~~~l~~~---------~~~~~~~~~a~~~~~~~~~~~  177 (456)
                      .|...+.--.+ .|+..    ...+.|+-... .|+.+ +...|+..+..         +..+.+.+...+++.++...-
T Consensus        88 LW~lYl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tP  167 (656)
T KOG1914|consen   88 LWKLYLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTP  167 (656)
T ss_pred             HHHHHHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCc
Confidence            66666653322 23322    23333443332 23322 23345544433         333446667778888877542


Q ss_pred             CCC------cHHHHHHHHHHH-------HHcCCHHHHHHHHHHHhh--CCCC------CCHHH---------HHHHHHHH
Q 012804          178 FVP------ELVTYNILIKGL-------CKAGRLRTARWILKELGD--SGHA------PNAIT---------YTTIMKCC  227 (456)
Q Consensus       178 ~~~------~~~~~~~l~~~~-------~~~~~~~~a~~~~~~~~~--~~~~------~~~~~---------~~~l~~~~  227 (456)
                      +..      |-..|..-|+..       -+...+..|.++++++..  .|..      |...|         |..+|.- 
T Consensus       168 m~nlEkLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~w-  246 (656)
T KOG1914|consen  168 MHNLEKLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKW-  246 (656)
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHH-
Confidence            211      111222212111       123346667777776643  2221      11111         2222221 


Q ss_pred             HhcCchh---------HHHHHHHHHHH-cCCCcChhhH-----HHHHHHHHHcCCh-------HHHHHHHHHHHHCCCcc
Q 012804          228 FRNRKYK---------LGLEILSAMKR-KGYTFDGFGY-----CTVIAAFVKIGRL-------KEATDYMEQMVTDGVQL  285 (456)
Q Consensus       228 ~~~~~~~---------~a~~~~~~~~~-~~~~~~~~~~-----~~l~~~~~~~~~~-------~~a~~~~~~~~~~~~~~  285 (456)
                      .+.+...         ...-.+++... .+..|+....     ....+.+...|+.       +++..+++.....-..-
T Consensus       247 EksNpL~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~  326 (656)
T KOG1914|consen  247 EKSNPLRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKE  326 (656)
T ss_pred             HhcCCcccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHH
Confidence            1111110         11112222221 1222221110     0111223333443       44555555554432222


Q ss_pred             CHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHH
Q 012804          286 DIVSYNTLINLYCKEG---KLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDS-NLEAYN  361 (456)
Q Consensus       286 ~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~  361 (456)
                      +..+|..+..---..-   ..+.....++++......--.-+|..++..-.+..-++.|..+|.++.+.+..+ +..+..
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            3333333322111111   356666777777653222233468888888888888999999999999887666 566666


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCC--HHhHHHHHHHHHcc
Q 012804          362 CIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRIL--KSAQKAVVDGLRHS  436 (456)
Q Consensus       362 ~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~  436 (456)
                      +++.-+ -.++..-|.++|+.-...   ++..-...+.-+...++-..|..+|++.+..++.|+  ..+|..++.--..-
T Consensus       407 A~mEy~-cskD~~~AfrIFeLGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~v  485 (656)
T KOG1914|consen  407 ALMEYY-CSKDKETAFRIFELGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNV  485 (656)
T ss_pred             HHHHHH-hcCChhHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhc
Confidence            666644 578899999999987766   556666788888999999999999999998865555  47899999999999


Q ss_pred             CChHHHHHHHHHHHh
Q 012804          437 GCRREAKKIQSKIRM  451 (456)
Q Consensus       437 g~~~~A~~~~~~~~~  451 (456)
                      |+...++++-++.-.
T Consensus       486 GdL~si~~lekR~~~  500 (656)
T KOG1914|consen  486 GDLNSILKLEKRRFT  500 (656)
T ss_pred             ccHHHHHHHHHHHHH
Confidence            999999988777643

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.83  E-value=1.8e-06  Score=81.29  Aligned_cols=132  Identities=12%  Similarity=0.106  Sum_probs=108.5

Q ss_pred             CccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 012804          283 VQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFEC-DKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYN  361 (456)
Q Consensus       283 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  361 (456)
                      .+.+...+..|.....+.|.+++|..+++...+.  .| +......++..+.+.+++++|....++..... +.+.....
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~  158 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREIL  158 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHH
Confidence            3446788888888888899999999999888876  34 45567777888888899999999999888864 66677788


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          362 CIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       362 ~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      .+..++.+.|++++|..+|+++...   +..++..+..++...|+.++|...|+++++.
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            8888888999999999999988855   5678888888888899999999999988876

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.83  E-value=0.0001  Score=68.48  Aligned_cols=423  Identities=13%  Similarity=0.046  Sum_probs=235.8

Q ss_pred             HHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHH--HHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCCh
Q 012804           16 TFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDA--YCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLL   93 (456)
Q Consensus        16 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   93 (456)
                      .....+++.+|++....+.+..+  +. .|..++.+  +.+.|+.++|..+++.....+.. |..|...+-.+|...++.
T Consensus        18 d~ld~~qfkkal~~~~kllkk~P--n~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~   93 (932)
T KOG2053|consen   18 DLLDSSQFKKALAKLGKLLKKHP--NA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKL   93 (932)
T ss_pred             HHhhhHHHHHHHHHHHHHHHHCC--Cc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhh
Confidence            34567899999999999988753  33 23444444  46789999999888887766433 788899999999999999


Q ss_pred             hHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcC-C---------h
Q 012804           94 SCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNR-Y---------T  163 (456)
Q Consensus        94 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~---------~  163 (456)
                      +++..+|+......  |+......+..+|.+.+++.+-.+.--++-+. .+.....|=.++....... .         .
T Consensus        94 d~~~~~Ye~~~~~~--P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l  170 (932)
T KOG2053|consen   94 DEAVHLYERANQKY--PSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILL  170 (932)
T ss_pred             hHHHHHHHHHHhhC--CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhH
Confidence            99999999998854  66777778888899888876544444333332 1333333333333333211 1         1


Q ss_pred             HHHHHHHHHHHhCC-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHH-HhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHH
Q 012804          164 DNALRMFRGLQKHG-FVPELVTYNILIKGLCKAGRLRTARWILKE-LGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILS  241 (456)
Q Consensus       164 ~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  241 (456)
                      .-|.+..+.+.+.+ .--+..-...-...+...|++++|.+++.. ..+.-...+...-+.-+..+...+++.+..++-.
T Consensus       171 ~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~  250 (932)
T KOG2053|consen  171 ALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSS  250 (932)
T ss_pred             HHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHH
Confidence            23556666666553 111111122223345567889999998843 3333233344444556677778888888888888


Q ss_pred             HHHHcCCCcChhhHHHHHHH----------------HHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHH
Q 012804          242 AMKRKGYTFDGFGYCTVIAA----------------FVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEA  305 (456)
Q Consensus       242 ~~~~~~~~~~~~~~~~l~~~----------------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  305 (456)
                      ++...+ +.|   |...+..                +...+..+...+..++....+.+-..-..-.+..-+..-|+.++
T Consensus       251 ~Ll~k~-~Dd---y~~~~~sv~klLe~~~~~~a~~~~s~~~~l~~~~ek~~~~i~~~~Rgp~LA~lel~kr~~~~gd~ee  326 (932)
T KOG2053|consen  251 RLLEKG-NDD---YKIYTDSVFKLLELLNKEPAEAAHSLSKSLDECIEKAQKNIGSKSRGPYLARLELDKRYKLIGDSEE  326 (932)
T ss_pred             HHHHhC-Ccc---hHHHHHHHHHHHHhcccccchhhhhhhhhHHHHHHHHHHhhcccccCcHHHHHHHHHHhcccCChHH
Confidence            888775 323   2221111                12223344444444444433222111111122222234466666


Q ss_pred             HHHHHHHHHHc----------------------------CCCcCHH----h---HHHHHHHHHhcCC-----HHHHHHHH
Q 012804          306 AYLLLDEMEKQ----------------------------GFECDKY----T---HTILIDGLCKAGN-----IKGARLHL  345 (456)
Q Consensus       306 a~~~~~~~~~~----------------------------~~~~~~~----~---~~~l~~~~~~~~~-----~~~a~~~~  345 (456)
                      +...|-+-...                            +..++..    .   +...+..-.-.|.     .+....++
T Consensus       327 ~~~~y~~kfg~kpcc~~Dl~~yl~~l~~~q~~~l~~~l~~~~~~~s~~~k~l~~h~c~l~~~rl~G~~~~l~ad~i~a~~  406 (932)
T KOG2053|consen  327 MLSYYFKKFGDKPCCAIDLNHYLGHLNIDQLKSLMSKLVLADDDSSGDEKVLQQHLCVLLLLRLLGLYEKLPADSILAYV  406 (932)
T ss_pred             HHHHHHHHhCCCcHhHhhHHHhhccCCHHHHHHHHHHhhccCCcchhhHHHHHHHHHHHHHHHHhhccccCChHHHHHHH
Confidence            54443221100                            0011111    0   1111111122232     12333333


Q ss_pred             HHHH---hCC------CCCCH---------HHHHHHHHHHHhCCCHH---HHHHHHHHhccC---ChhhHHHHHHHHHcc
Q 012804          346 EYMN---KIG------FDSNL---------EAYNCIVDRLGKDGKID---HAINVFESMEVK---DSFTYSSMVHNLCKA  401 (456)
Q Consensus       346 ~~~~---~~~------~~~~~---------~~~~~l~~~~~~~g~~~---~a~~~~~~~~~~---~~~~~~~l~~~~~~~  401 (456)
                      ++..   ..|      .-|+.         .+.+.+++.+.+.++..   +|+-+++.....   |..+-..+++.|.-.
T Consensus       407 ~kl~~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt~s~hnf~~KLlLiriY~~l  486 (932)
T KOG2053|consen  407 RKLKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLTKSPHNFQTKLLLIRIYSYL  486 (932)
T ss_pred             HHHHHHHhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCccHHHHHHHHHHHHHh
Confidence            3321   112      12221         13356667777777755   455566655544   444455677888888


Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHH
Q 012804          402 KRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIR  450 (456)
Q Consensus       402 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  450 (456)
                      |-+..|.++|+.+--+.++.|..-+. +...+...|++..+...++...
T Consensus       487 Ga~p~a~~~y~tLdIK~IQ~DTlgh~-~~~~~~t~g~~~~~s~~~~~~l  534 (932)
T KOG2053|consen  487 GAFPDAYELYKTLDIKNIQTDTLGHL-IFRRAETSGRSSFASNTFNEHL  534 (932)
T ss_pred             cCChhHHHHHHhcchHHhhhccchHH-HHHHHHhcccchhHHHHHHHHH
Confidence            88888888888885555665544443 4455666788888887776543

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

Probab=98.83  E-value=8.7e-06  Score=64.46  Aligned_cols=248  Identities=11%  Similarity=0.022  Sum_probs=162.5

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCch
Q 012804          154 LNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKY  233 (456)
Q Consensus       154 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  233 (456)
                      ++-+.-.|.+..++..-.......  .+...-..+.++|...|.+.....-.   ... -.|.......+.......++.
T Consensus        15 iRn~fY~Gnyq~~ine~~~~~~~~--~~~e~d~y~~raylAlg~~~~~~~eI---~~~-~~~~lqAvr~~a~~~~~e~~~   88 (299)
T KOG3081|consen   15 IRNYFYLGNYQQCINEAEKFSSSK--TDVELDVYMYRAYLALGQYQIVISEI---KEG-KATPLQAVRLLAEYLELESNK   88 (299)
T ss_pred             HHHHHHhhHHHHHHHHHHhhcccc--chhHHHHHHHHHHHHccccccccccc---ccc-cCChHHHHHHHHHHhhCcchh
Confidence            344555677877777666554432  23344444567777777765543322   222 234444555444444444444


Q ss_pred             hHHH-HHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012804          234 KLGL-EILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDE  312 (456)
Q Consensus       234 ~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  312 (456)
                      +... ++.+.+.......+......-...|+..|++++|.+......      +......=+..+.+..+++-|...++.
T Consensus        89 ~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~  162 (299)
T KOG3081|consen   89 KSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKK  162 (299)
T ss_pred             HHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4333 344444444333343444444566888899999998887632      344444446667788889999999999


Q ss_pred             HHHcCCCcCHHhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC--
Q 012804          313 MEKQGFECDKYTHTILIDGLCK----AGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK--  386 (456)
Q Consensus       313 ~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--  386 (456)
                      |.+.   .+..|.+.|..++.+    .+.+..|.-+|+++.++ .+|+..+.+....++...|++++|..+++++..+  
T Consensus       163 mq~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~  238 (299)
T KOG3081|consen  163 MQQI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDA  238 (299)
T ss_pred             HHcc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccC
Confidence            9874   366788888877754    35678899999999875 5889999999999999999999999999988877  


Q ss_pred             -ChhhHHHHHHHHHccCChhHH-HHHHHHHHHc
Q 012804          387 -DSFTYSSMVHNLCKAKRLPSA-SKLLLSCLKS  417 (456)
Q Consensus       387 -~~~~~~~l~~~~~~~~~~~~A-~~~~~~~~~~  417 (456)
                       ++.+...++.+-...|...++ .+.+.+....
T Consensus       239 ~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  239 KDPETLANLIVLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             CCHHHHHHHHHHHHHhCCChHHHHHHHHHHHhc
Confidence             777777777766677766554 4555555544

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

Probab=98.80  E-value=2.1e-05  Score=62.35  Aligned_cols=105  Identities=20%  Similarity=0.234  Sum_probs=47.2

Q ss_pred             HHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHh----cCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCC
Q 012804          192 LCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFR----NRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGR  267 (456)
Q Consensus       192 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  267 (456)
                      +.+..+++-|...+++|.+.   -+..+.+.|..++.+    .++...|.-+|+++-++- +|++.+.+....++...|+
T Consensus       147 ~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~-~~T~~llnG~Av~~l~~~~  222 (299)
T KOG3081|consen  147 LLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKT-PPTPLLLNGQAVCHLQLGR  222 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhccc-CCChHHHccHHHHHHHhcC
Confidence            34444444455555544442   133334434333322    233445555555554432 4455555555555555555


Q ss_pred             hHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcC
Q 012804          268 LKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEG  301 (456)
Q Consensus       268 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  301 (456)
                      +++|..+++..+..... ++.+...++.+-...|
T Consensus       223 ~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~G  255 (299)
T KOG3081|consen  223 YEEAESLLEEALDKDAK-DPETLANLIVLALHLG  255 (299)
T ss_pred             HHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhC
Confidence            55555555555544332 3444433333333333

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.80  E-value=2.8e-07  Score=68.94  Aligned_cols=109  Identities=10%  Similarity=-0.033  Sum_probs=92.7

Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          342 RLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       342 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      ..++++.++.  .|+  .+..+...+...|++++|...|+.+...   +...|..++.++...|++++|+..|+++++.+
T Consensus        13 ~~~~~~al~~--~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~   88 (144)
T PRK15359         13 EDILKQLLSV--DPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHHHHc--CHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            4456666654  344  3556788899999999999999998776   77889999999999999999999999999876


Q ss_pred             CCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhcccC
Q 012804          419 VRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKIS  455 (456)
Q Consensus       419 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  455 (456)
                      + .++..+..++.++...|+.++|...|++..+..+.
T Consensus        89 p-~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~  124 (144)
T PRK15359         89 A-SHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYA  124 (144)
T ss_pred             C-CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            4 38899999999999999999999999999887654

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

Probab=98.79  E-value=3.3e-06  Score=66.95  Aligned_cols=119  Identities=10%  Similarity=0.085  Sum_probs=69.3

Q ss_pred             cCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHH-HHhcCC--hhHH
Q 012804           55 FVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHC-LFQLGK--PDEA  131 (456)
Q Consensus        55 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~--~~~a  131 (456)
                      .++.+++...++...+.+ +.|...|..+...|...|++++|...+++..+.... +...+..+..+ +...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHH
Confidence            444455555555555443 345556666666666666666666666666665432 45555555554 345454  3666


Q ss_pred             HHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 012804          132 NRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKH  176 (456)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  176 (456)
                      .+++++..+.+ +.+..++..+...+.+.|++++|+..++++.+.
T Consensus       130 ~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        130 REMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            66666666554 445556666666666666666666666666554

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.76  E-value=7.7e-06  Score=77.09  Aligned_cols=160  Identities=11%  Similarity=0.021  Sum_probs=129.8

Q ss_pred             CCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHH
Q 012804          247 GYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHT  326 (456)
Q Consensus       247 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  326 (456)
                      .++.+...+..+.....+.|..++|..+++.+.+..+. +......++..+.+.+++++|+..+++....... +.....
T Consensus        81 ~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd-~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~  158 (694)
T PRK15179         81 RYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPD-SSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREIL  158 (694)
T ss_pred             hccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHH
Confidence            34677889999999999999999999999999997433 6677788899999999999999999999987433 667788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCC
Q 012804          327 ILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKR  403 (456)
Q Consensus       327 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~  403 (456)
                      .+..++...|++++|..+|+++... .+.+..++..+..++...|+.++|...|+++...   ....|+.++      ++
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~~-~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~------~~  231 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSRQ-HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRL------VD  231 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHH------HH
Confidence            8889999999999999999999984 3566889999999999999999999999998776   223333322      33


Q ss_pred             hhHHHHHHHHHH
Q 012804          404 LPSASKLLLSCL  415 (456)
Q Consensus       404 ~~~A~~~~~~~~  415 (456)
                      ...-..+++++-
T Consensus       232 ~~~~~~~~~~~~  243 (694)
T PRK15179        232 LNADLAALRRLG  243 (694)
T ss_pred             HHHHHHHHHHcC
Confidence            444455666653

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.73  E-value=0.00011  Score=63.69  Aligned_cols=147  Identities=13%  Similarity=0.060  Sum_probs=110.7

Q ss_pred             HHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcC-HHhHHHHHHHHHhcCCHH
Q 012804          261 AFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECD-KYTHTILIDGLCKAGNIK  339 (456)
Q Consensus       261 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~  339 (456)
                      .+...|+++.|+..++.++... +-|+..+......+...++.++|.+.++.+...  .|+ ......+..++.+.|++.
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~  391 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQ  391 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChH
Confidence            3456788888888888888763 346666777778888888888888888888876  344 455666778888888888


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCC
Q 012804          340 GARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGV  419 (456)
Q Consensus       340 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  419 (456)
                      +|+.+++..... .+.|+..|..|..+|...|+..++....              ...+...|++++|...+..+.+.. 
T Consensus       392 eai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~~a~~A~--------------AE~~~~~G~~~~A~~~l~~A~~~~-  455 (484)
T COG4783         392 EAIRILNRYLFN-DPEDPNGWDLLAQAYAELGNRAEALLAR--------------AEGYALAGRLEQAIIFLMRASQQV-  455 (484)
T ss_pred             HHHHHHHHHhhc-CCCCchHHHHHHHHHHHhCchHHHHHHH--------------HHHHHhCCCHHHHHHHHHHHHHhc-
Confidence            888888888776 3777888888888888888887776643              445677888888888888887662 


Q ss_pred             CCCHHhH
Q 012804          420 RILKSAQ  426 (456)
Q Consensus       420 ~~~~~~~  426 (456)
                      +++..+|
T Consensus       456 ~~~~~~~  462 (484)
T COG4783         456 KLGFPDW  462 (484)
T ss_pred             cCCcHHH
Confidence            3344444

>PF12854 PPR_1: PPR repeat

Probab=98.72  E-value=2e-08  Score=53.28  Aligned_cols=31  Identities=45%  Similarity=0.749  Sum_probs=13.7

Q ss_pred             CCCCHhHHHHHHHHHHcCCChhHHHHHHHHH
Q 012804           73 ISPDVVTYNSLIAGATRNSLLSCSLDLLDEM  103 (456)
Q Consensus        73 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  103 (456)
                      +.||..+|+.+|.+|++.|++++|.++|++|
T Consensus         3 ~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    3 CEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            3444444444444444444444444444443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.67  E-value=2e-05  Score=62.02  Aligned_cols=201  Identities=15%  Similarity=0.080  Sum_probs=146.9

Q ss_pred             hcCchhHHHHHHHHHHHc---C-CCcChh-hHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCH
Q 012804          229 RNRKYKLGLEILSAMKRK---G-YTFDGF-GYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKL  303 (456)
Q Consensus       229 ~~~~~~~a~~~~~~~~~~---~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  303 (456)
                      ...+.++..+++..+...   + ..++.. .+..++-+....|+.+.|...++.+... ++.+..+-..-...+-..|++
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhch
Confidence            456788888888888743   3 334433 4556666777889999999999998876 344555444444455668999


Q ss_pred             HHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHh
Q 012804          304 EAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESM  383 (456)
Q Consensus       304 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  383 (456)
                      ++|.++++.+.+.+ +.|..++..-+...-..|+.-+|++-+....+. +..|.+.|..+...|...|+++.|.-.++++
T Consensus       103 ~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  103 KEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            99999999999875 346667776666667778888888888888776 6889999999999999999999999999987


Q ss_pred             ccC---ChhhHHHHHHHHHccC---ChhHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 012804          384 EVK---DSFTYSSMVHNLCKAK---RLPSASKLLLSCLKSGVRILKSAQKAVVDGL  433 (456)
Q Consensus       384 ~~~---~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  433 (456)
                      .-.   ++..+..+...+.-.|   +..-|.++|.+.++..++ +...+..+.-++
T Consensus       181 ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~-~~ral~GI~lc~  235 (289)
T KOG3060|consen  181 LLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPK-NLRALFGIYLCG  235 (289)
T ss_pred             HHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChH-hHHHHHHHHHHH
Confidence            655   5666667776665444   566788999999877432 444444443333

>PF12854 PPR_1: PPR repeat

Probab=98.67  E-value=4e-08  Score=52.12  Aligned_cols=32  Identities=41%  Similarity=0.722  Sum_probs=18.7

Q ss_pred             CCCCCHHhHHHHHHHHHhcCChhHHHHHHHHH
Q 012804          107 GIPPDVWSYNSLMHCLFQLGKPDEANRVFQDM  138 (456)
Q Consensus       107 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  138 (456)
                      |++||..+|+.|+.+|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            45555556666666666666666665555554

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.66  E-value=8e-05  Score=58.76  Aligned_cols=187  Identities=18%  Similarity=0.173  Sum_probs=82.8

Q ss_pred             CChHHHHHHHHHHHhC---C-CCCcHH-HHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhH
Q 012804          161 RYTDNALRMFRGLQKH---G-FVPELV-TYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKL  235 (456)
Q Consensus       161 ~~~~~a~~~~~~~~~~---~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  235 (456)
                      .+.++.++++..+...   | ..++.. .|..++-+....|+.+.|...++++...- +-+...-..-...+...|++++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchhh
Confidence            3455555555554332   2 222322 23334444455555555555555544432 1122222211222333455555


Q ss_pred             HHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012804          236 GLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEK  315 (456)
Q Consensus       236 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  315 (456)
                      |+++++.+.+.+ |.|..++..-+...-..|+.-+|++-+....+. +..|...|..+...|...|++++|.-.++++.-
T Consensus       105 A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  105 AIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             HHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            555555555544 334444444444444445444555555444443 333555555555555555555555555555544


Q ss_pred             cCCCcCHHhHHHHHHHHHhcC---CHHHHHHHHHHHHhC
Q 012804          316 QGFECDKYTHTILIDGLCKAG---NIKGARLHLEYMNKI  351 (456)
Q Consensus       316 ~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~  351 (456)
                      .. +.++..+..+...+...|   +.+.+.+++.+.++.
T Consensus       183 ~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  183 IQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             cC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            31 113333334433332222   334445555554443

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.63  E-value=1.1e-06  Score=65.50  Aligned_cols=108  Identities=15%  Similarity=0.045  Sum_probs=84.4

Q ss_pred             HHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC--
Q 012804          309 LLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK--  386 (456)
Q Consensus       309 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--  386 (456)
                      .++........ +......+...+...|++++|...++.+...+ +.+...+..+..++.+.|++++|...++++...  
T Consensus         5 ~~~~~l~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p   82 (135)
T TIGR02552         5 TLKDLLGLDSE-QLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDP   82 (135)
T ss_pred             hHHHHHcCChh-hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            45555554222 44556677777888899999999999888764 567788888888898999999999998887655  


Q ss_pred             -ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          387 -DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       387 -~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                       ++..+..+...+...|++++|...+++.++..
T Consensus        83 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  115 (135)
T TIGR02552        83 DDPRPYFHAAECLLALGEPESALKALDLAIEIC  115 (135)
T ss_pred             CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence             56777888888889999999999999888764

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.59  E-value=3.3e-05  Score=66.85  Aligned_cols=123  Identities=15%  Similarity=0.060  Sum_probs=99.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC
Q 012804          293 LINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGK  372 (456)
Q Consensus       293 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  372 (456)
                      ....+...|++++|+..++.+...- +-|+.........+.+.++.++|.+.++.+.... +........+..++.+.|+
T Consensus       312 ~A~~~~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~-P~~~~l~~~~a~all~~g~  389 (484)
T COG4783         312 RALQTYLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALALD-PNSPLLQLNLAQALLKGGK  389 (484)
T ss_pred             HHHHHHHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CCccHHHHHHHHHHHhcCC
Confidence            3445567899999999999988762 2355555666788999999999999999999863 3336777888899999999


Q ss_pred             HHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          373 IDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       373 ~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      +.+|+.+++.....   ++..|..|..+|...|+..+|.....+....
T Consensus       390 ~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~  437 (484)
T COG4783         390 PQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYAL  437 (484)
T ss_pred             hHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHHHHh
Confidence            99999999987765   8899999999999999998888776665433

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.56  E-value=4.3e-06  Score=62.35  Aligned_cols=110  Identities=16%  Similarity=0.165  Sum_probs=64.7

Q ss_pred             HHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCC
Q 012804           29 IIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGI  108 (456)
Q Consensus        29 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  108 (456)
                      .++.+++..+. +......+...+...|++++|.+.|+.+...+ +.+...+..+..++...|++++|...++...+.+ 
T Consensus         5 ~~~~~l~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-   81 (135)
T TIGR02552         5 TLKDLLGLDSE-QLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-   81 (135)
T ss_pred             hHHHHHcCChh-hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-
Confidence            34444444332 33445555566666666666666666665543 3355556666666666666666666666665543 


Q ss_pred             CCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 012804          109 PPDVWSYNSLMHCLFQLGKPDEANRVFQDMICG  141 (456)
Q Consensus       109 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  141 (456)
                      +.+...+..+..++...|++++|.+.|+...+.
T Consensus        82 p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        82 PDDPRPYFHAAECLLALGEPESALKALDLAIEI  114 (135)
T ss_pred             CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            224555555666666666666666666666654

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.50  E-value=1.1e-05  Score=60.71  Aligned_cols=54  Identities=17%  Similarity=0.033  Sum_probs=28.9

Q ss_pred             HHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHH
Q 012804          393 SMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSK  448 (456)
Q Consensus       393 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  448 (456)
                      .+...+...|++++|+..++....  ....+..+...+.++.+.|++++|+..|++
T Consensus        90 ~LA~~~~~~~~~d~Al~~L~~~~~--~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   90 RLARILLQQGQYDEALATLQQIPD--EAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHHcCCHHHHHHHHHhccC--cchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            445555556666666666544321  122334455555666666666666666554

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.49  E-value=1.7e-05  Score=59.71  Aligned_cols=115  Identities=13%  Similarity=0.068  Sum_probs=54.4

Q ss_pred             cCCHHHHHHHHHHHHHcCCCc--CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhCCCHHH
Q 012804          300 EGKLEAAYLLLDEMEKQGFEC--DKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSN--LEAYNCIVDRLGKDGKIDH  375 (456)
Q Consensus       300 ~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~  375 (456)
                      .++...+...++.+.......  .......+...+...|++++|...|+.+......|+  ......+...+...|++++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~  103 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDE  103 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            455555555555555432111  011222333445555555555555555555431111  1122334445555555555


Q ss_pred             HHHHHHHhccC--ChhhHHHHHHHHHccCChhHHHHHHHHH
Q 012804          376 AINVFESMEVK--DSFTYSSMVHNLCKAKRLPSASKLLLSC  414 (456)
Q Consensus       376 a~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~  414 (456)
                      |+..++.....  .+..+...+.++...|++++|...|+++
T Consensus       104 Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  104 ALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            55555543332  3344445555556666666666655543

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=98.49  E-value=0.00092  Score=60.79  Aligned_cols=215  Identities=10%  Similarity=0.018  Sum_probs=122.2

Q ss_pred             cHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHH----------HHHHHcCC
Q 012804           22 RLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSL----------IAGATRNS   91 (456)
Q Consensus        22 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l----------~~~~~~~~   91 (456)
                      ..++|.++.+      -.|.+..|..+.......-.++.|...|-+....   +.+.....|          ...-.--|
T Consensus       678 gledA~qfiE------dnPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY---~Gik~vkrl~~i~s~~~q~aei~~~~g  748 (1189)
T KOG2041|consen  678 GLEDAIQFIE------DNPHPRLWRLLAEYALFKLALDTAEHAFVRCGDY---AGIKLVKRLRTIHSKEQQRAEISAFYG  748 (1189)
T ss_pred             chHHHHHHHh------cCCchHHHHHHHHHHHHHHhhhhHhhhhhhhccc---cchhHHHHhhhhhhHHHHhHhHhhhhc
Confidence            3455555444      2578888998888887777888887777665432   111111111          11122257


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhC-CCCCChhHHHHHHHHHHhcCChHHHHHHH
Q 012804           92 LLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICG-DLTPCTATFNIMLNGLCKNRYTDNALRMF  170 (456)
Q Consensus        92 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  170 (456)
                      ++++|++++-++-+++         ..+..+.+.|++-...++++.--.. +-..-...|+.+...+.....|++|.+.|
T Consensus       749 ~feeaek~yld~drrD---------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY  819 (1189)
T KOG2041|consen  749 EFEEAEKLYLDADRRD---------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYY  819 (1189)
T ss_pred             chhHhhhhhhccchhh---------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888887765542         3456677788887777766542111 00112356777777777777788887777


Q ss_pred             HHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCc
Q 012804          171 RGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTF  250 (456)
Q Consensus       171 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  250 (456)
                      ......         ...+.++.+..++++-..+...+.     .+....-.+.+++.+.|.-++|.+.+-+..    .|
T Consensus       820 ~~~~~~---------e~~~ecly~le~f~~LE~la~~Lp-----e~s~llp~~a~mf~svGMC~qAV~a~Lr~s----~p  881 (1189)
T KOG2041|consen  820 SYCGDT---------ENQIECLYRLELFGELEVLARTLP-----EDSELLPVMADMFTSVGMCDQAVEAYLRRS----LP  881 (1189)
T ss_pred             Hhccch---------HhHHHHHHHHHhhhhHHHHHHhcC-----cccchHHHHHHHHHhhchHHHHHHHHHhcc----Cc
Confidence            654321         223455555555555544444332     244455556667777777666665543322    11


Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHH
Q 012804          251 DGFGYCTVIAAFVKIGRLKEATDYMEQ  277 (456)
Q Consensus       251 ~~~~~~~l~~~~~~~~~~~~a~~~~~~  277 (456)
                           ...+..|...++|.+|.++-+.
T Consensus       882 -----kaAv~tCv~LnQW~~avelaq~  903 (1189)
T KOG2041|consen  882 -----KAAVHTCVELNQWGEAVELAQR  903 (1189)
T ss_pred             -----HHHHHHHHHHHHHHHHHHHHHh
Confidence                 1234556666666666665543

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.43  E-value=0.0016  Score=61.04  Aligned_cols=424  Identities=15%  Similarity=0.111  Sum_probs=241.2

Q ss_pred             HHHHHHH--HHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHH
Q 012804           10 LNICVCT--FCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGA   87 (456)
Q Consensus        10 ~~~l~~~--~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   87 (456)
                      |..++.+  +.+.|+.++|..+++.....+.. |..+...+-.+|...++.++|..+|++..+.  -|+......+..+|
T Consensus        44 ~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmay  120 (932)
T KOG2053|consen   44 YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAY  120 (932)
T ss_pred             HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHH
Confidence            3444444  46889999999999887765544 8889999999999999999999999999876  47777777888889


Q ss_pred             HcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCC----------hhHHHHHHHHHHhCC-CCCChhHHHHHHHH
Q 012804           88 TRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGK----------PDEANRVFQDMICGD-LTPCTATFNIMLNG  156 (456)
Q Consensus        88 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~  156 (456)
                      .+.+.+.+-.+.--++-+. .+-++..+-.+++.+...-.          ..-|.+.++.+.+.+ --.+..-.......
T Consensus       121 vR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~i  199 (932)
T KOG2053|consen  121 VREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLI  199 (932)
T ss_pred             HHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHH
Confidence            9888876655544444442 33355556666666554321          234556666666543 11222223333455


Q ss_pred             HHhcCChHHHHHHHH-HHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHH----HHHHHH----
Q 012804          157 LCKNRYTDNALRMFR-GLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYT----TIMKCC----  227 (456)
Q Consensus       157 ~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----~l~~~~----  227 (456)
                      +...|.+++|.+++. ...+.-.+.+...-+.-+..+...+++.+..++-.++...+.. |..+|.    .++..-    
T Consensus       200 L~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~~D-dy~~~~~sv~klLe~~~~~~  278 (932)
T KOG2053|consen  200 LELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKGND-DYKIYTDSVFKLLELLNKEP  278 (932)
T ss_pred             HHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhCCc-chHHHHHHHHHHHHhccccc
Confidence            667889999999984 4444433344555556677888889999998888888876544 211111    111110    


Q ss_pred             -----HhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHH---HcCChHHHHHHH------------------------
Q 012804          228 -----FRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFV---KIGRLKEATDYM------------------------  275 (456)
Q Consensus       228 -----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~~~~a~~~~------------------------  275 (456)
                           ...+..+...+...+.....   ....|-+-+.+..   ..|+.+++.-.|                        
T Consensus       279 a~~~~s~~~~l~~~~ek~~~~i~~~---~Rgp~LA~lel~kr~~~~gd~ee~~~~y~~kfg~kpcc~~Dl~~yl~~l~~~  355 (932)
T KOG2053|consen  279 AEAAHSLSKSLDECIEKAQKNIGSK---SRGPYLARLELDKRYKLIGDSEEMLSYYFKKFGDKPCCAIDLNHYLGHLNID  355 (932)
T ss_pred             chhhhhhhhhHHHHHHHHHHhhccc---ccCcHHHHHHHHHHhcccCChHHHHHHHHHHhCCCcHhHhhHHHhhccCCHH
Confidence                 11112222222222222221   1111222222222   234555443322                        


Q ss_pred             ------HHHHHCCCccCHH----H---HHHHHHHHHhcCC-----HHHHHHHHHHHH---HcC------CCcCHH-----
Q 012804          276 ------EQMVTDGVQLDIV----S---YNTLINLYCKEGK-----LEAAYLLLDEME---KQG------FECDKY-----  323 (456)
Q Consensus       276 ------~~~~~~~~~~~~~----~---~~~l~~~~~~~~~-----~~~a~~~~~~~~---~~~------~~~~~~-----  323 (456)
                            ......  .++..    .   +...+..-...|.     -+.-..++.++.   ++|      .-|+..     
T Consensus       356 q~~~l~~~l~~~--~~~~s~~~k~l~~h~c~l~~~rl~G~~~~l~ad~i~a~~~kl~~~ye~gls~~K~ll~TE~~~g~~  433 (932)
T KOG2053|consen  356 QLKSLMSKLVLA--DDDSSGDEKVLQQHLCVLLLLRLLGLYEKLPADSILAYVRKLKLTYEKGLSLSKDLLPTEYSFGDE  433 (932)
T ss_pred             HHHHHHHHhhcc--CCcchhhHHHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHhccccccccccccccccHHH
Confidence                  222111  01111    0   1111111112231     223333333332   222      223322     


Q ss_pred             ----hHHHHHHHHHhcCCHH---HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC--ChhhHHH-
Q 012804          324 ----THTILIDGLCKAGNIK---GARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK--DSFTYSS-  393 (456)
Q Consensus       324 ----~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~-  393 (456)
                          +.+.++..|.+.++..   +|+-+++...... +-|..+--.++..|.-.|-+..|.++|..+.-+  ...+... 
T Consensus       434 ~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt~s-~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~DTlgh~  512 (932)
T KOG2053|consen  434 LLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLTKS-PHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTDTLGHL  512 (932)
T ss_pred             HHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcC-CccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhccchHH
Confidence                2345667787887754   5666666665553 556677778889999999999999999987666  2223333 


Q ss_pred             HHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHH
Q 012804          394 MVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKI  445 (456)
Q Consensus       394 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  445 (456)
                      +...+...|++..+...+....+.=-..-..+-..+..|| +.|.+++..++
T Consensus       513 ~~~~~~t~g~~~~~s~~~~~~lkfy~~~~kE~~eyI~~AY-r~g~ySkI~em  563 (932)
T KOG2053|consen  513 IFRRAETSGRSSFASNTFNEHLKFYDSSLKETPEYIALAY-RRGAYSKIPEM  563 (932)
T ss_pred             HHHHHHhcccchhHHHHHHHHHHHHhhhhhhhHHHHHHHH-HcCchhhhHHH
Confidence            3345566889999999998887551111223444444455 66777665554

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.42  E-value=8e-06  Score=60.11  Aligned_cols=92  Identities=9%  Similarity=-0.007  Sum_probs=58.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHcc
Q 012804          325 HTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKA  401 (456)
Q Consensus       325 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~  401 (456)
                      .-.+...+...|++++|.++|+.+.... +.+..-|..|..++-..|++++|+..|..+...   ++..+..+..++...
T Consensus        38 lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L~l  116 (157)
T PRK15363         38 LYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYLAC  116 (157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHc
Confidence            3344444556677777777776666553 445556666666666667777777766665443   666666666666677


Q ss_pred             CChhHHHHHHHHHHHc
Q 012804          402 KRLPSASKLLLSCLKS  417 (456)
Q Consensus       402 ~~~~~A~~~~~~~~~~  417 (456)
                      |+.+.|.+.|+.++..
T Consensus       117 G~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        117 DNVCYAIKALKAVVRI  132 (157)
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            7777777666666554

>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=98.37  E-value=3.2e-05  Score=67.48  Aligned_cols=124  Identities=16%  Similarity=0.117  Sum_probs=82.4

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHh
Q 012804          255 YCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCK  334 (456)
Q Consensus       255 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  334 (456)
                      ...++..+...++++.|..+++++.+..  |+  ....+++.+...++..+|.+++.+..... +-+...+..-...+..
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHh
Confidence            3445555566677777777777777653  33  33446666666777777777777776542 2255555555666777


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhc
Q 012804          335 AGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESME  384 (456)
Q Consensus       335 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  384 (456)
                      .++++.|..+.+++.... |.+..+|..|..+|...|+++.|+-.++.+.
T Consensus       247 k~~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             cCCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            777777777777777752 4556677777777777777777777777654

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>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=98.37  E-value=2.8e-05  Score=67.78  Aligned_cols=123  Identities=15%  Similarity=0.179  Sum_probs=85.2

Q ss_pred             HHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhc
Q 012804           81 NSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKN  160 (456)
Q Consensus        81 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  160 (456)
                      ..++..+...++++.|.++++++.+..  |+  ....++..+...++..+|.+++++..... +.+..........+.+.
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence            445566666777888888888877754  33  33446677777777777888777777554 44566666666777777


Q ss_pred             CChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Q 012804          161 RYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELG  209 (456)
Q Consensus       161 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  209 (456)
                      ++++.|+.+.+++.+. .|.+..+|..|..+|...|+++.|+..+..+.
T Consensus       248 ~~~~lAL~iAk~av~l-sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  248 KKYELALEIAKKAVEL-SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CCHHHHHHHHHHHHHh-CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            7888888888777776 23345577777788888888888877776554

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.28  E-value=2.3e-05  Score=56.94  Aligned_cols=95  Identities=16%  Similarity=-0.007  Sum_probs=67.7

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhCCCHHHHHHHHHHhccC------ChhhHHH
Q 012804          323 YTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSN---LEAYNCIVDRLGKDGKIDHAINVFESMEVK------DSFTYSS  393 (456)
Q Consensus       323 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------~~~~~~~  393 (456)
                      .++..++..+...|++++|...+..+.... +.+   ...+..+..++.+.|++++|.+.|+.+...      .+.++..
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~   81 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKY-PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLK   81 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHH
Confidence            355666777778888888888888877642 211   345566777788888888888888877653      2345677


Q ss_pred             HHHHHHccCChhHHHHHHHHHHHcC
Q 012804          394 MVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       394 l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      ++.++.+.|++++|.+.++++++..
T Consensus        82 ~~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        82 LGMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHHHC
Confidence            7777778888888888888887764

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.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=98.25  E-value=0.00056  Score=51.39  Aligned_cols=120  Identities=13%  Similarity=0.015  Sum_probs=51.9

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC-----ChhhHHHHH
Q 012804          321 DKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK-----DSFTYSSMV  395 (456)
Q Consensus       321 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~l~  395 (456)
                      +...-..|..+....|++.+|...|++...--+..|....-.+.++....+++..|...++...+.     ++.....+.
T Consensus        88 Tvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll~a  167 (251)
T COG4700          88 TVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLLFA  167 (251)
T ss_pred             hHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHHHH
Confidence            333333444444444444444444444443323334444444444444444444444444443332     333334444


Q ss_pred             HHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHH
Q 012804          396 HNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREA  442 (456)
Q Consensus       396 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  442 (456)
                      +++...|++.+|...|+.+...  -|++........-+.++|+.++|
T Consensus       168 R~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea  212 (251)
T COG4700         168 RTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREA  212 (251)
T ss_pred             HHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHH
Confidence            4444455555555555544432  23333333333344444444443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.23  E-value=0.0006  Score=56.05  Aligned_cols=178  Identities=14%  Similarity=0.071  Sum_probs=110.6

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCccCHHH---HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHh
Q 012804          258 VIAAFVKIGRLKEATDYMEQMVTDGVQLDIVS---YNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCK  334 (456)
Q Consensus       258 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  334 (456)
                      ....+...|++++|...|+.+....+.+ ...   .-.++.+|.+.+++++|...+++..+..+.-...-+...+.+.+.
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~  116 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTN  116 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhh
Confidence            4445566788888888888888763332 222   234567778888888888888888775332222223333333221


Q ss_pred             --c---------------CC---HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCChhhHHHH
Q 012804          335 --A---------------GN---IKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSM  394 (456)
Q Consensus       335 --~---------------~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l  394 (456)
                        .               .|   ...|...|+.+++.  -|+             ..-..+|...+..+...-...-..+
T Consensus       117 ~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~-------------S~ya~~A~~rl~~l~~~la~~e~~i  181 (243)
T PRK10866        117 MALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPN-------------SQYTTDATKRLVFLKDRLAKYELSV  181 (243)
T ss_pred             hhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcC-------------ChhHHHHHHHHHHHHHHHHHHHHHH
Confidence              1               11   12344555555443  222             2234445544444444322222357


Q ss_pred             HHHHHccCChhHHHHHHHHHHHc--CCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHh
Q 012804          395 VHNLCKAKRLPSASKLLLSCLKS--GVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       395 ~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      +..|.+.|.+..|+.-++.+++.  +-+.....+..+..+|...|..++|..+...+..
T Consensus       182 a~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~~  240 (243)
T PRK10866        182 AEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIAA  240 (243)
T ss_pred             HHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHhc
Confidence            77889999999999999999987  3334556777888999999999999998877654

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.19  E-value=0.00014  Score=53.75  Aligned_cols=99  Identities=8%  Similarity=-0.133  Sum_probs=68.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 012804          286 DIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVD  365 (456)
Q Consensus       286 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  365 (456)
                      +....-.+...+...|++++|..+|+-+....+. +..-|..|..++-..|++++|+..|..+...+ +.++..+-.+..
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~  111 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAE  111 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            3444445555666777888888777777765322 55556667777777777888888877777765 456677777777


Q ss_pred             HHHhCCCHHHHHHHHHHhccC
Q 012804          366 RLGKDGKIDHAINVFESMEVK  386 (456)
Q Consensus       366 ~~~~~g~~~~a~~~~~~~~~~  386 (456)
                      ++...|+.+.|.+.|+.++..
T Consensus       112 c~L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        112 CYLACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            777788888777777765543

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.19  E-value=2.5e-05  Score=54.09  Aligned_cols=90  Identities=16%  Similarity=0.036  Sum_probs=48.4

Q ss_pred             HHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCCh
Q 012804          363 IVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCR  439 (456)
Q Consensus       363 l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  439 (456)
                      ++..+...|++++|...++++...   +...+..++..+...|++++|.+.+++..+..+. +...+..++.++...|++
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~   84 (100)
T cd00189           6 LGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPD-NAKAYYNLGLAYYKLGKY   84 (100)
T ss_pred             HHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc-chhHHHHHHHHHHHHHhH
Confidence            344444455555555555544433   2234445555555566666666666666554322 334555566666666666


Q ss_pred             HHHHHHHHHHHhcc
Q 012804          440 REAKKIQSKIRMAK  453 (456)
Q Consensus       440 ~~A~~~~~~~~~~~  453 (456)
                      ++|...+.+..+..
T Consensus        85 ~~a~~~~~~~~~~~   98 (100)
T cd00189          85 EEALEAYEKALELD   98 (100)
T ss_pred             HHHHHHHHHHHccC
Confidence            66666666655443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.15  E-value=1.1e-05  Score=51.09  Aligned_cols=62  Identities=15%  Similarity=0.005  Sum_probs=47.7

Q ss_pred             HHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhcccCC
Q 012804          394 MVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKISH  456 (456)
Q Consensus       394 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  456 (456)
                      ++..+.+.|++++|++.|+++++..+. +...+..++.++...|++++|..+|+++.+..+.|
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~   64 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERALELDPDN   64 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence            556778888888888888888877533 67788888888888888888888888887776654

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.15  E-value=4.3e-06  Score=45.14  Aligned_cols=33  Identities=30%  Similarity=0.513  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCC
Q 012804            9 LLNICVCTFCKANRLEKAEAIIIDGIRLGVLPD   41 (456)
Q Consensus         9 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~   41 (456)
                      +|+.+|.+|++.|++++|.++|++|.+.|..||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            566666666666666666666666666666665

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.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.15  E-value=4.7e-06  Score=44.60  Aligned_cols=33  Identities=21%  Similarity=0.176  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCC
Q 012804            8 RLLNICVCTFCKANRLEKAEAIIIDGIRLGVLP   40 (456)
Q Consensus         8 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~   40 (456)
                      .+|+.++.+|.+.|+++.|.++|+.|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            345555555555555555555555555555443

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.14  E-value=9e-05  Score=65.02  Aligned_cols=118  Identities=13%  Similarity=0.137  Sum_probs=59.3

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHHc--CCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHH
Q 012804          216 NAITYTTIMKCCFRNRKYKLGLEILSAMKRK--GYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTL  293 (456)
Q Consensus       216 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  293 (456)
                      +......++..+....+.+.+..++.++...  ....-+.+..++++.|...|..+.+..++..=...|+.||..+++.|
T Consensus        65 S~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~L  144 (429)
T PF10037_consen   65 SSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLL  144 (429)
T ss_pred             cHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHH
Confidence            4444444555555555555555555554433  11122333345555555555555555555555555555555555555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHH
Q 012804          294 INLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLC  333 (456)
Q Consensus       294 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  333 (456)
                      +..+.+.|++..|.++...|..++...+..|+...+.+|.
T Consensus       145 md~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~  184 (429)
T PF10037_consen  145 MDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCY  184 (429)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHH
Confidence            5555555555555555555554443334444444343333

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 [].

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.14  E-value=5.9e-05  Score=63.62  Aligned_cols=128  Identities=18%  Similarity=0.103  Sum_probs=98.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHh-cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 012804          288 VSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCK-AGNIKGARLHLEYMNKIGFDSNLEAYNCIVDR  366 (456)
Q Consensus       288 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  366 (456)
                      .+|..+++...+.+..+.|..+|.+..+.+ ..+..+|...+..-.. .++.+.|..+|+...+. ++.+...|...++.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            467788888888888999999999998543 2355566665555333 56777799999998876 57788889999999


Q ss_pred             HHhCCCHHHHHHHHHHhccC------ChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          367 LGKDGKIDHAINVFESMEVK------DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       367 ~~~~g~~~~a~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      +.+.|+.+.|+.+|++....      ....|...+..-.+.|+.+.+.++.+++.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999998876      2357888888888899999999999888876

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.14  E-value=0.00013  Score=52.83  Aligned_cols=100  Identities=8%  Similarity=-0.131  Sum_probs=59.7

Q ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCC--CHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCC--CCHhHHHHH
Q 012804            8 RLLNICVCTFCKANRLEKAEAIIIDGIRLGVLP--DVVTYNMLIDAYCQFVSFDAGYTILNRMREAGIS--PDVVTYNSL   83 (456)
Q Consensus         8 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l   83 (456)
                      .++..+...+.+.|++++|.+.|+.+.+..+..  ....+..+..++.+.|+++.|...|+.+......  .....+..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            345556666677777777777777776554321  1234555666667777777777777766654211  113445555


Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCC
Q 012804           84 IAGATRNSLLSCSLDLLDEMLEMG  107 (456)
Q Consensus        84 ~~~~~~~~~~~~a~~~~~~~~~~~  107 (456)
                      ..++...|+.++|.+.++++.+..
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHHC
Confidence            666666667777777776666653

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.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.13  E-value=4.6e-06  Score=45.01  Aligned_cols=31  Identities=45%  Similarity=0.764  Sum_probs=12.1

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHCCCCC
Q 012804           80 YNSLIAGATRNSLLSCSLDLLDEMLEMGIPP  110 (456)
Q Consensus        80 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  110 (456)
                      |+.++.+|++.|++++|.++|++|.+.|+.|
T Consensus         3 ~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p   33 (35)
T TIGR00756         3 YNTLIDGLCKAGRVEEALELFKEMLERGIEP   33 (35)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC
Confidence            3333333333333333333333333333333

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.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.11  E-value=5.6e-06  Score=44.28  Aligned_cols=32  Identities=34%  Similarity=0.601  Sum_probs=17.4

Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHhCCCCC
Q 012804           44 TYNMLIDAYCQFVSFDAGYTILNRMREAGISP   75 (456)
Q Consensus        44 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   75 (456)
                      +|+.++.+|.+.|+++.|.++|+.|.+.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            45555555555555555555555555555444

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.10  E-value=0.0041  Score=53.11  Aligned_cols=53  Identities=15%  Similarity=0.127  Sum_probs=30.4

Q ss_pred             HHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHH
Q 012804           86 GATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMI  139 (456)
Q Consensus        86 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  139 (456)
                      .+.+..++..|+..+...++..+. +..-|..-...+...|+++++.--.+.-.
T Consensus        58 ~~yk~k~Y~nal~~yt~Ai~~~pd-~a~yy~nRAa~~m~~~~~~~a~~dar~~~  110 (486)
T KOG0550|consen   58 AFYKQKTYGNALKNYTFAIDMCPD-NASYYSNRAATLMMLGRFEEALGDARQSV  110 (486)
T ss_pred             hHHHHhhHHHHHHHHHHHHHhCcc-chhhhchhHHHHHHHHhHhhcccchhhhe
Confidence            344555666677777776666533 44555555555666666666655444433

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.09  E-value=9.3e-05  Score=50.49  Aligned_cols=75  Identities=16%  Similarity=0.246  Sum_probs=37.1

Q ss_pred             HHHHHHHhhCcHHHHHHHHHHHHhcCC-CCCHHhHHHHHHHHHccC--------ChhHHHHHHHHHHhCCCCCCHhHHHH
Q 012804           12 ICVCTFCKANRLEKAEAIIIDGIRLGV-LPDVVTYNMLIDAYCQFV--------SFDAGYTILNRMREAGISPDVVTYNS   82 (456)
Q Consensus        12 ~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~~   82 (456)
                      ..|..+...+++...-.+|+.+++.|+ .|++.+|+.++.+.++..        +.-..+.+|+.|...+++|+..+|+.
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYni  109 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNI  109 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHH
Confidence            334445555666666666666666555 556666666555554322        11223344444444444444444444


Q ss_pred             HHHH
Q 012804           83 LIAG   86 (456)
Q Consensus        83 l~~~   86 (456)
                      ++..
T Consensus       110 vl~~  113 (120)
T PF08579_consen  110 VLGS  113 (120)
T ss_pred             HHHH
Confidence            4443

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 [, , ].

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.09  E-value=6.2e-05  Score=65.95  Aligned_cols=101  Identities=12%  Similarity=-0.089  Sum_probs=84.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCC
Q 012804          327 ILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKR  403 (456)
Q Consensus       327 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~  403 (456)
                      .-...+...|++++|+..++++++.. +.+...+..+..+|.+.|++++|+..++++...   +...|..++.+|...|+
T Consensus         7 ~~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          7 DKAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCC
Confidence            34556778899999999999999874 667888999999999999999999999998776   66789999999999999


Q ss_pred             hhHHHHHHHHHHHcCCCCCHHhHHHH
Q 012804          404 LPSASKLLLSCLKSGVRILKSAQKAV  429 (456)
Q Consensus       404 ~~~A~~~~~~~~~~~~~~~~~~~~~l  429 (456)
                      +++|+..|+++++.++. +......+
T Consensus        86 ~~eA~~~~~~al~l~P~-~~~~~~~l  110 (356)
T PLN03088         86 YQTAKAALEKGASLAPG-DSRFTKLI  110 (356)
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            99999999999977533 44443333

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.09  E-value=0.00036  Score=54.36  Aligned_cols=90  Identities=14%  Similarity=-0.018  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcC--HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 012804          288 VSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECD--KYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVD  365 (456)
Q Consensus       288 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  365 (456)
                      ..+..+...+...|++++|...+++..+....+.  ...+..+...+.+.|++++|...++++.+.. +.+...+..+..
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~  114 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            3455566666667777777777776665432221  3456666667777777777777777766642 334555566666


Q ss_pred             HHHhCCCHHHHHH
Q 012804          366 RLGKDGKIDHAIN  378 (456)
Q Consensus       366 ~~~~~g~~~~a~~  378 (456)
                      ++...|+...+..
T Consensus       115 ~~~~~g~~~~a~~  127 (172)
T PRK02603        115 IYHKRGEKAEEAG  127 (172)
T ss_pred             HHHHcCChHhHhh
Confidence            6666666544443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.08  E-value=0.00015  Score=63.62  Aligned_cols=93  Identities=13%  Similarity=-0.084  Sum_probs=81.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC
Q 012804          292 TLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDG  371 (456)
Q Consensus       292 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  371 (456)
                      .-...+...|++++|+..|+++.+... .+...+..+..++...|++++|+..+++++... +.+...|..+..+|...|
T Consensus         7 ~~a~~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          7 DKAKEAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhC
Confidence            345667789999999999999998743 367788889999999999999999999999874 567888999999999999


Q ss_pred             CHHHHHHHHHHhccC
Q 012804          372 KIDHAINVFESMEVK  386 (456)
Q Consensus       372 ~~~~a~~~~~~~~~~  386 (456)
                      ++++|+..|+++...
T Consensus        85 ~~~eA~~~~~~al~l   99 (356)
T PLN03088         85 EYQTAKAALEKGASL   99 (356)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999998876

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.08  E-value=0.00053  Score=58.20  Aligned_cols=132  Identities=17%  Similarity=0.239  Sum_probs=61.9

Q ss_pred             HHHHHHHc-CChHHHHHHHHHHHHC----CC-ccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-----cCHH-hH
Q 012804          258 VIAAFVKI-GRLKEATDYMEQMVTD----GV-QLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFE-----CDKY-TH  325 (456)
Q Consensus       258 l~~~~~~~-~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~-~~  325 (456)
                      +...|... |+++.|.+.|++..+.    +. ..-...+..+...+.+.|++++|.++|++.......     .+.. .+
T Consensus       120 lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~  199 (282)
T PF14938_consen  120 LAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYF  199 (282)
T ss_dssp             HHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHH
Confidence            33444444 5666666666655542    10 111234455566666777777777777766543211     1111 22


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCC--HHHHHHHHHHHHh--CCCHHHHHHHHHHhccCChh
Q 012804          326 TILIDGLCKAGNIKGARLHLEYMNKI--GFDSN--LEAYNCIVDRLGK--DGKIDHAINVFESMEVKDSF  389 (456)
Q Consensus       326 ~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~--~~~~~~l~~~~~~--~g~~~~a~~~~~~~~~~~~~  389 (456)
                      ...+-.+...||+..|...++.....  ++..+  ......|+.++-.  ...+++++.-|+.+...|..
T Consensus       200 l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~~ld~w  269 (282)
T PF14938_consen  200 LKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSISRLDNW  269 (282)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS---HH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccCccHHH
Confidence            23333455566777777777766543  22222  3344555555532  23355555555555554433

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.07  E-value=1e-05  Score=54.22  Aligned_cols=81  Identities=12%  Similarity=0.090  Sum_probs=48.2

Q ss_pred             hCcHHHHHHHHHHHHhcCCC-CCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHH
Q 012804           20 ANRLEKAEAIIIDGIRLGVL-PDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLD   98 (456)
Q Consensus        20 ~g~~~~A~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   98 (456)
                      +|+++.|+.+++++.+..+. ++...+..+..++.+.|++++|+++++. .+.+. .+......+..++.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            56777777777777766542 2344455567777777777777777766 22211 122333445666777777777777


Q ss_pred             HHHH
Q 012804           99 LLDE  102 (456)
Q Consensus        99 ~~~~  102 (456)
                      .+++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            7654

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.07  E-value=0.00012  Score=64.21  Aligned_cols=123  Identities=12%  Similarity=0.098  Sum_probs=87.5

Q ss_pred             CCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHC--CCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHH
Q 012804           73 ISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEM--GIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATF  150 (456)
Q Consensus        73 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  150 (456)
                      .+.+......++..+....+++.+..++-+....  ....-..|..++++.|.+.|..+.++.++..=...|+-||..++
T Consensus        62 ~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~  141 (429)
T PF10037_consen   62 KPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSF  141 (429)
T ss_pred             CCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhH
Confidence            3455666677777777777777777777777664  22223445567888888888888888888887777888888888


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHc
Q 012804          151 NIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKA  195 (456)
Q Consensus       151 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  195 (456)
                      +.++..+.+.|++..|.++...|...+...+..++...+.+|.+-
T Consensus       142 n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  142 NLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            888888888888888888877776665555666666555555444

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 [].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.04  E-value=0.0025  Score=52.42  Aligned_cols=184  Identities=13%  Similarity=0.048  Sum_probs=107.3

Q ss_pred             CHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhH---HHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHH
Q 012804           41 DVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVT---YNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNS  117 (456)
Q Consensus        41 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  117 (456)
                      +...+-.....+...|++++|.+.|+.+...... +...   .-.+..++.+.+++++|...+++..+..+......+..
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~-s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~  109 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPF-GPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVL  109 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHH
Confidence            4444444555566789999999999999876322 2222   23566778889999999999999988754333333444


Q ss_pred             HHHHHHh--cC---------------C---hhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 012804          118 LMHCLFQ--LG---------------K---PDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHG  177 (456)
Q Consensus       118 l~~~~~~--~~---------------~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  177 (456)
                      .+.+.+.  .+               |   ..+|...|+.+++.  -|+.             .-..+|...+..+... 
T Consensus       110 Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S-------------~ya~~A~~rl~~l~~~-  173 (243)
T PRK10866        110 YMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNS-------------QYTTDATKRLVFLKDR-  173 (243)
T ss_pred             HHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCC-------------hhHHHHHHHHHHHHHH-
Confidence            4443321  11               1   13455556666554  2322             2234444433333322 


Q ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC--CCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHH
Q 012804          178 FVPELVTYNILIKGLCKAGRLRTARWILKELGDS--GHAPNAITYTTIMKCCFRNRKYKLGLEILSAMK  244 (456)
Q Consensus       178 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  244 (456)
                         -...--.+.+.|.+.|.+..|..-++.+.+.  +.+........+..+|...|..++|..+...+.
T Consensus       174 ---la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        174 ---LAKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             ---HHHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence               0111113456677778887777777777653  223345556667777888888888777666554

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=98.04  E-value=2.2e-05  Score=50.32  Aligned_cols=67  Identities=9%  Similarity=-0.071  Sum_probs=53.4

Q ss_pred             ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccC-ChHHHHHHHHHHHhccc
Q 012804          387 DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSG-CRREAKKIQSKIRMAKI  454 (456)
Q Consensus       387 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~  454 (456)
                      ++..|..++..+...|++++|+..|+++++.++. ++..+..++.++...| ++++|++.+++..+.+|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~-~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPN-NAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            3567778888888888888888888888887543 6778888888888888 68888888888876553

...

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.03  E-value=0.00029  Score=59.54  Aligned_cols=131  Identities=14%  Similarity=0.113  Sum_probs=99.6

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHH
Q 012804          253 FGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCK-EGKLEAAYLLLDEMEKQGFECDKYTHTILIDG  331 (456)
Q Consensus       253 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  331 (456)
                      .+|..++...-+.+..+.|+.+|.+..+.+ ..+..+|......-.. .++.+.|..+|+...+. +..+...+...+..
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            467778888888889999999999998653 2345566655555334 67777799999999876 45577888888999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhCCCHHHHHHHHHHhccC
Q 012804          332 LCKAGNIKGARLHLEYMNKIGFDSNL---EAYNCIVDRLGKDGKIDHAINVFESMEVK  386 (456)
Q Consensus       332 ~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  386 (456)
                      +...++.+.|..+|++.... ++++.   ..|...+..-.+.|+.+.+.++.+++.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999998875 33332   58888888888999999999999888775

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.03  E-value=3.3e-05  Score=51.76  Aligned_cols=13  Identities=23%  Similarity=0.046  Sum_probs=4.8

Q ss_pred             CHHHHHHHHHHHH
Q 012804          337 NIKGARLHLEYMN  349 (456)
Q Consensus       337 ~~~~a~~~~~~~~  349 (456)
                      +++.|+.+++++.
T Consensus         4 ~y~~Ai~~~~k~~   16 (84)
T PF12895_consen    4 NYENAIKYYEKLL   16 (84)
T ss_dssp             -HHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHH
Confidence            3334444444433

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.03  E-value=0.00017  Score=49.79  Aligned_cols=86  Identities=16%  Similarity=0.151  Sum_probs=33.6

Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHH
Q 012804          120 HCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLR  199 (456)
Q Consensus       120 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  199 (456)
                      ..+...|++++|...++.+.+.. +.+...+..+...+...+++++|.+.++...... +.+...+..+...+...|+++
T Consensus         8 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~   85 (100)
T cd00189           8 NLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGKYE   85 (100)
T ss_pred             HHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHhHH
Confidence            33334444444444444443332 2222333333444444444444444444443331 112233333344444444444


Q ss_pred             HHHHHHHH
Q 012804          200 TARWILKE  207 (456)
Q Consensus       200 ~a~~~~~~  207 (456)
                      .|...+..
T Consensus        86 ~a~~~~~~   93 (100)
T cd00189          86 EALEAYEK   93 (100)
T ss_pred             HHHHHHHH
Confidence            44444433

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.03  E-value=0.0066  Score=51.93  Aligned_cols=59  Identities=10%  Similarity=-0.045  Sum_probs=38.0

Q ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHH
Q 012804           10 LNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMR   69 (456)
Q Consensus        10 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   69 (456)
                      .......+.+..++..|+..+..+++..+. ++.-|..-...+...|++++|.--.+.-.
T Consensus        52 ~k~~gn~~yk~k~Y~nal~~yt~Ai~~~pd-~a~yy~nRAa~~m~~~~~~~a~~dar~~~  110 (486)
T KOG0550|consen   52 AKEEGNAFYKQKTYGNALKNYTFAIDMCPD-NASYYSNRAATLMMLGRFEEALGDARQSV  110 (486)
T ss_pred             HHhhcchHHHHhhHHHHHHHHHHHHHhCcc-chhhhchhHHHHHHHHhHhhcccchhhhe
Confidence            334455677777888888888888877654 45556656666666677776655544443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.03  E-value=0.00032  Score=59.52  Aligned_cols=127  Identities=17%  Similarity=0.169  Sum_probs=52.5

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHC----CC-ccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----cCCCcC--H
Q 012804          254 GYCTVIAAFVKIGRLKEATDYMEQMVTD----GV-QLDIVSYNTLINLYCKEGKLEAAYLLLDEMEK----QGFECD--K  322 (456)
Q Consensus       254 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~--~  322 (456)
                      .|......|-..+++++|.+.|.+....    +- ..-...|.....+|.+. ++++|...+++..+    .| .|+  .
T Consensus        37 ~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G-~~~~aA  114 (282)
T PF14938_consen   37 LYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAG-RFSQAA  114 (282)
T ss_dssp             HHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT--HHHHH
T ss_pred             HHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcC-cHHHHH
Confidence            3444555555566666666666554332    11 11112233333333322 55555555555432    11 111  2


Q ss_pred             HhHHHHHHHHHhc-CCHHHHHHHHHHHHhC----CCCCC--HHHHHHHHHHHHhCCCHHHHHHHHHHh
Q 012804          323 YTHTILIDGLCKA-GNIKGARLHLEYMNKI----GFDSN--LEAYNCIVDRLGKDGKIDHAINVFESM  383 (456)
Q Consensus       323 ~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~  383 (456)
                      .++..+...|... |+++.|.+.|+++.+.    + .+.  ...+..++..+.+.|++++|.++|+++
T Consensus       115 ~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~  181 (282)
T PF14938_consen  115 KCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEV  181 (282)
T ss_dssp             HHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            2344444444444 5555555555554332    1 110  223334444455555555555555544

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=98.02  E-value=0.011  Score=54.21  Aligned_cols=206  Identities=9%  Similarity=0.014  Sum_probs=128.0

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHH----------HHHHHccCChhHHHHHHHHHHhCC
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNML----------IDAYCQFVSFDAGYTILNRMREAG   72 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l----------~~~~~~~~~~~~a~~~~~~~~~~~   72 (456)
                      +.|.+..|..+.+.....-.++-|...|-+....   +.+.....+          ...-.-.|++++|.++|-.+.+++
T Consensus       688 dnPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY---~Gik~vkrl~~i~s~~~q~aei~~~~g~feeaek~yld~drrD  764 (1189)
T KOG2041|consen  688 DNPHPRLWRLLAEYALFKLALDTAEHAFVRCGDY---AGIKLVKRLRTIHSKEQQRAEISAFYGEFEEAEKLYLDADRRD  764 (1189)
T ss_pred             cCCchHHHHHHHHHHHHHHhhhhHhhhhhhhccc---cchhHHHHhhhhhhHHHHhHhHhhhhcchhHhhhhhhccchhh
Confidence            5688999999999999888999999888765432   222111111          112223589999999998877653


Q ss_pred             CCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHC-CCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHH
Q 012804           73 ISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEM-GIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFN  151 (456)
Q Consensus        73 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  151 (456)
                               ..+..+.+.|+|-...++++.--.. +-+.-...++.+...+.....|++|.+.|..-..         -.
T Consensus       765 ---------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~---------~e  826 (1189)
T KOG2041|consen  765 ---------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGD---------TE  826 (1189)
T ss_pred             ---------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc---------hH
Confidence                     3466677788887777766432110 0111245677888888888888888888765321         12


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcC
Q 012804          152 IMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNR  231 (456)
Q Consensus       152 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  231 (456)
                      ..+.++.+..++++-+.+-+.+.     .+....-.+..++.+.|.-++|.+.+-+...    |.     ..+..|...+
T Consensus       827 ~~~ecly~le~f~~LE~la~~Lp-----e~s~llp~~a~mf~svGMC~qAV~a~Lr~s~----pk-----aAv~tCv~Ln  892 (1189)
T KOG2041|consen  827 NQIECLYRLELFGELEVLARTLP-----EDSELLPVMADMFTSVGMCDQAVEAYLRRSL----PK-----AAVHTCVELN  892 (1189)
T ss_pred             hHHHHHHHHHhhhhHHHHHHhcC-----cccchHHHHHHHHHhhchHHHHHHHHHhccC----cH-----HHHHHHHHHH
Confidence            34566666666666555544443     3445566677778888888887776644322    11     2344566666


Q ss_pred             chhHHHHHHHHH
Q 012804          232 KYKLGLEILSAM  243 (456)
Q Consensus       232 ~~~~a~~~~~~~  243 (456)
                      ++.+|.++.++.
T Consensus       893 QW~~avelaq~~  904 (1189)
T KOG2041|consen  893 QWGEAVELAQRF  904 (1189)
T ss_pred             HHHHHHHHHHhc
Confidence            777666665443

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=98.02  E-value=0.0015  Score=52.33  Aligned_cols=172  Identities=13%  Similarity=0.091  Sum_probs=97.1

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCC--ccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhc
Q 012804          258 VIAAFVKIGRLKEATDYMEQMVTDGV--QLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKA  335 (456)
Q Consensus       258 l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  335 (456)
                      ....+...|++.+|...|+.+....+  +-.......++.++.+.|+++.|...+++..+.-+.-...-+...+.+.+..
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            34455677788888888887776521  1223445566777788888888888888877642211111122222222111


Q ss_pred             -------------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCChhhHHHHHHHHHccC
Q 012804          336 -------------GNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAK  402 (456)
Q Consensus       336 -------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~  402 (456)
                                   +...+|...               +..++.-|=...-..+|...+..+...-...-..++..|.+.|
T Consensus        91 ~~~~~~~~~~~D~~~~~~A~~~---------------~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~  155 (203)
T PF13525_consen   91 KQIPGILRSDRDQTSTRKAIEE---------------FEELIKRYPNSEYAEEAKKRLAELRNRLAEHELYIARFYYKRG  155 (203)
T ss_dssp             HHHHHHH-TT---HHHHHHHHH---------------HHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HhCccchhcccChHHHHHHHHH---------------HHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence                         111233333               3344444444555566666665555442233345778899999


Q ss_pred             ChhHHHHHHHHHHHcCC--CCCHHhHHHHHHHHHccCChHHHHH
Q 012804          403 RLPSASKLLLSCLKSGV--RILKSAQKAVVDGLRHSGCRREAKK  444 (456)
Q Consensus       403 ~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~  444 (456)
                      .+..|..-++.+++.=+  +.....+..++.++.+.|..+.|..
T Consensus       156 ~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~~  199 (203)
T PF13525_consen  156 KYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAADT  199 (203)
T ss_dssp             -HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             cHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHHH
Confidence            99999999999988722  1123466778889999998885543

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.00  E-value=0.00042  Score=53.98  Aligned_cols=97  Identities=11%  Similarity=0.021  Sum_probs=48.1

Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHhCCCCCC--HhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHH
Q 012804           44 TYNMLIDAYCQFVSFDAGYTILNRMREAGISPD--VVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHC  121 (456)
Q Consensus        44 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  121 (456)
                      .+..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+++....... +...+..+..+
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~  115 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNNIAVI  115 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHH
Confidence            344444555555555555555555544321111  234444555555555555555555555543211 33344444444


Q ss_pred             HHhcCC--------------hhHHHHHHHHHHhC
Q 012804          122 LFQLGK--------------PDEANRVFQDMICG  141 (456)
Q Consensus       122 ~~~~~~--------------~~~a~~~~~~~~~~  141 (456)
                      +...|+              +++|.+++++....
T Consensus       116 ~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~  149 (172)
T PRK02603        116 YHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRL  149 (172)
T ss_pred             HHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhh
Confidence            444444              46677777777654

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.98  E-value=0.00051  Score=53.29  Aligned_cols=81  Identities=12%  Similarity=-0.134  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc--CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 012804          287 IVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFEC--DKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIV  364 (456)
Q Consensus       287 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  364 (456)
                      ...+..++..+...|++++|...+++.......+  ...++..+...+...|++++|...++.+.... +.....+..+.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la  113 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            3445555666666777777777777765542222  12356666666777777777777777766542 33344444444


Q ss_pred             HHHH
Q 012804          365 DRLG  368 (456)
Q Consensus       365 ~~~~  368 (456)
                      ..+.
T Consensus       114 ~i~~  117 (168)
T CHL00033        114 VICH  117 (168)
T ss_pred             HHHH
Confidence            4444

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.96  E-value=0.00014  Score=59.00  Aligned_cols=88  Identities=16%  Similarity=0.021  Sum_probs=52.7

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHH
Q 012804          297 YCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHA  376 (456)
Q Consensus       297 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  376 (456)
                      ..+.+++.+|+..|.+.++... -|..-|..-..+|.+.|.++.|++-.+..+..+ +--...|..|..+|...|++++|
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~P-~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELDP-TNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcCC-CcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHHH
Confidence            4455666666666666666532 255555566666666666666666666665542 22245666666666666666666


Q ss_pred             HHHHHHhccC
Q 012804          377 INVFESMEVK  386 (456)
Q Consensus       377 ~~~~~~~~~~  386 (456)
                      ++.|+++...
T Consensus       169 ~~aykKaLel  178 (304)
T KOG0553|consen  169 IEAYKKALEL  178 (304)
T ss_pred             HHHHHhhhcc
Confidence            6666666555

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.96  E-value=0.00084  Score=47.84  Aligned_cols=92  Identities=17%  Similarity=0.015  Sum_probs=46.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCcC--HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHH
Q 012804          293 LINLYCKEGKLEAAYLLLDEMEKQGFECD--KYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDS---NLEAYNCIVDRL  367 (456)
Q Consensus       293 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~  367 (456)
                      +..++-..|+.++|+.+|++....|....  ...+..+...+...|++++|..+++...... +.   +......+..++
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~-p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF-PDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCccccHHHHHHHHHHH
Confidence            34445556666666666666665554332  2344455555666666666666666655431 11   122222233345


Q ss_pred             HhCCCHHHHHHHHHHhcc
Q 012804          368 GKDGKIDHAINVFESMEV  385 (456)
Q Consensus       368 ~~~g~~~~a~~~~~~~~~  385 (456)
                      ...|+.++|++.+-....
T Consensus        86 ~~~gr~~eAl~~~l~~la  103 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEALA  103 (120)
T ss_pred             HHCCCHHHHHHHHHHHHH
Confidence            555666666655544433

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.95  E-value=0.00017  Score=61.13  Aligned_cols=129  Identities=15%  Similarity=0.083  Sum_probs=78.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHH----HHcCCC-cCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh----CC-CCCCH
Q 012804          288 VSYNTLINLYCKEGKLEAAYLLLDEM----EKQGFE-CDKYTHTILIDGLCKAGNIKGARLHLEYMNK----IG-FDSNL  357 (456)
Q Consensus       288 ~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~-~~~~~  357 (456)
                      ..|..|...|.-.|+++.|+..-+.-    .+.|-. .....+..+..++.-.|+++.|.+.++....    .| -....
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            34555556666677777776554432    122211 1233566677777777777777777776432    22 12234


Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHhccC---------ChhhHHHHHHHHHccCChhHHHHHHHHHHH
Q 012804          358 EAYNCIVDRLGKDGKIDHAINVFESMEVK---------DSFTYSSMVHNLCKAKRLPSASKLLLSCLK  416 (456)
Q Consensus       358 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  416 (456)
                      .+..+|...|.-..+++.|+.++.+-...         ...++..|..+|...|..++|+.+.+..++
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            55666777777777777777777654332         445677777777777777777776665543

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.94  E-value=0.0044  Score=46.81  Aligned_cols=134  Identities=16%  Similarity=0.113  Sum_probs=106.3

Q ss_pred             CCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CcCHHhHH
Q 012804          248 YTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGF-ECDKYTHT  326 (456)
Q Consensus       248 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~  326 (456)
                      ..|+......+..+....|+..+|...|++....-+.-|......+.++....+++..|...++.+.+.+. .-++.+..
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            36677777778889999999999999999998876667888888899999999999999999999887531 11344566


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHh
Q 012804          327 ILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESM  383 (456)
Q Consensus       327 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  383 (456)
                      .+.+.+...|.+..|+..|+.....  -|+...-......+.+.|+.+++..-+..+
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            7778889999999999999998875  677777667777888899887776554443

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.92  E-value=0.00023  Score=48.69  Aligned_cols=67  Identities=27%  Similarity=0.395  Sum_probs=28.6

Q ss_pred             CChhHHHHHHHHHHHCCC-CCCHHhHHHHHHHHHhcC--------ChhHHHHHHHHHHhCCCCCChhHHHHHHHHH
Q 012804           91 SLLSCSLDLLDEMLEMGI-PPDVWSYNSLMHCLFQLG--------KPDEANRVFQDMICGDLTPCTATFNIMLNGL  157 (456)
Q Consensus        91 ~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  157 (456)
                      +++.....+|+.+++.|+ .|+..+|+.++....+..        +.-+.+.+|++|+..+++|+..+|+.++..+
T Consensus        39 ~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl~~L  114 (120)
T PF08579_consen   39 EDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVLGSL  114 (120)
T ss_pred             cchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHH
Confidence            444444444444444444 444444444444433321        1223334444444444444444444444433

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.92  E-value=0.001  Score=61.18  Aligned_cols=133  Identities=14%  Similarity=0.060  Sum_probs=67.8

Q ss_pred             CccCHHHHHHHHHHHHhc--C---CHHHHHHHHHHHHHcCCCcC-HHhHHHHHHHHHhcC--------CHHHHHHHHHHH
Q 012804          283 VQLDIVSYNTLINLYCKE--G---KLEAAYLLLDEMEKQGFECD-KYTHTILIDGLCKAG--------NIKGARLHLEYM  348 (456)
Q Consensus       283 ~~~~~~~~~~l~~~~~~~--~---~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~--------~~~~a~~~~~~~  348 (456)
                      .+.+...|...+++....  +   +...|..+|++..+.  .|+ ...+..+..++....        +...+.+..++.
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            345666666666654332  2   255666777776664  233 334444333332211        112223333332


Q ss_pred             HhC-CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC--ChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          349 NKI-GFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK--DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       349 ~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      ... ..+.+...+..+.......|++++|...++++...  +...|..++..+...|+.++|.+.++++...
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            221 12333455555555555566666666666666555  4445555666666666666666666666644

>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=97.90  E-value=6.6e-05  Score=47.93  Aligned_cols=64  Identities=17%  Similarity=0.285  Sum_probs=47.7

Q ss_pred             HHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHH
Q 012804           17 FCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSL   83 (456)
Q Consensus        17 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   83 (456)
                      +.+.|++++|+++|+.+....+. +...+..+..++.+.|++++|.++++.+...  .|+...|..+
T Consensus         1 ll~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l   64 (68)
T PF14559_consen    1 LLKQGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQL   64 (68)
T ss_dssp             HHHTTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHH
T ss_pred             ChhccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHH
Confidence            35678888888888888887654 7777778888888888888888888888876  3554444433

...

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.90  E-value=0.0011  Score=60.80  Aligned_cols=136  Identities=13%  Similarity=0.090  Sum_probs=87.0

Q ss_pred             CCCCCHHhHHHHHHHHHccC-----ChhHHHHHHHHHHhCCCCCC-HhHHHHHHHHHHcC--------CChhHHHHHHHH
Q 012804           37 GVLPDVVTYNMLIDAYCQFV-----SFDAGYTILNRMREAGISPD-VVTYNSLIAGATRN--------SLLSCSLDLLDE  102 (456)
Q Consensus        37 ~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~--------~~~~~a~~~~~~  102 (456)
                      ..+.+...|...+++.....     +...|+.+|++..+..  |+ ...|..+..++...        .++..+.+..+.
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld--P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE--PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            34567777777777654322     3567778888877763  44 33444333322211        123344444444


Q ss_pred             HHHC-CCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 012804          103 MLEM-GIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKH  176 (456)
Q Consensus       103 ~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  176 (456)
                      .... ..+.+...|..+.......|++++|...+++....+  |+...|..+...+...|+.++|.+.+++....
T Consensus       410 a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        410 IVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             hhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3332 123355667767666677788999999998888775  57788888888888899999999888888765

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.89  E-value=0.00078  Score=55.19  Aligned_cols=114  Identities=14%  Similarity=0.041  Sum_probs=88.3

Q ss_pred             HHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC---CHHHHHHH
Q 012804          303 LEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDG---KIDHAINV  379 (456)
Q Consensus       303 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~  379 (456)
                      .+....-++.-...+ +-|...|..|...|...|+.+.|...|+...+.. +++...+..+..++....   ...++..+
T Consensus       138 ~~~l~a~Le~~L~~n-P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~l  215 (287)
T COG4235         138 MEALIARLETHLQQN-PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARAL  215 (287)
T ss_pred             HHHHHHHHHHHHHhC-CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHH
Confidence            444444444444443 3378899999999999999999999999988874 677888888887665443   35678899


Q ss_pred             HHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          380 FESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       380 ~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      |+++...   ++.+...|...+...|++.+|...|+.|++..
T Consensus       216 l~~al~~D~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         216 LRQALALDPANIRALSLLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            9988877   67778888888999999999999999998774

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.89  E-value=0.00025  Score=60.17  Aligned_cols=129  Identities=12%  Similarity=-0.044  Sum_probs=94.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHH----hCCCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---------Chh
Q 012804          324 THTILIDGLCKAGNIKGARLHLEYMN----KIGFD-SNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---------DSF  389 (456)
Q Consensus       324 ~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---------~~~  389 (456)
                      .|..|...|.-.|+++.|+...+.-+    +.|-. .....+..+..++.-.|+++.|.+.|+.....         ...
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            45666666667789999988776533    22311 12346777888999999999999999865433         445


Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHHc----C-CCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhc
Q 012804          390 TYSSMVHNLCKAKRLPSASKLLLSCLKS----G-VRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMA  452 (456)
Q Consensus       390 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  452 (456)
                      +...|...|.-..++++|+.++.+-+..    + .--....+.+++.++...|..++|..+.+...+.
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~  344 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRS  344 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            6678889998889999999988775432    1 1124457778999999999999999998877654

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.88  E-value=0.00019  Score=58.31  Aligned_cols=99  Identities=16%  Similarity=0.062  Sum_probs=82.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCC---hhhHHHHHHHHHccCChh
Q 012804          329 IDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKD---SFTYSSMVHNLCKAKRLP  405 (456)
Q Consensus       329 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~  405 (456)
                      ..-+.+.+++++|+..|.+++... +.|...|..-..+|.+.|.++.|++-.+..+..|   ..+|..|..+|...|++.
T Consensus        88 GN~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   88 GNKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHH
Confidence            344677899999999999999974 5667777778889999999999999999988874   467889999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHH
Q 012804          406 SASKLLLSCLKSGVRILKSAQKAVV  430 (456)
Q Consensus       406 ~A~~~~~~~~~~~~~~~~~~~~~l~  430 (456)
                      +|++.|+++++.  .|+..+|..-+
T Consensus       167 ~A~~aykKaLel--dP~Ne~~K~nL  189 (304)
T KOG0553|consen  167 EAIEAYKKALEL--DPDNESYKSNL  189 (304)
T ss_pred             HHHHHHHhhhcc--CCCcHHHHHHH
Confidence            999999999955  56666665443

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.88  E-value=0.001  Score=54.49  Aligned_cols=116  Identities=14%  Similarity=0.096  Sum_probs=79.2

Q ss_pred             hHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcC---CHHHHHHH
Q 012804          268 LKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAG---NIKGARLH  344 (456)
Q Consensus       268 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~  344 (456)
                      .+....-++.-+..++. |...|..|...|...|+.+.|..-|....+.. .++...+..+..++....   ...++..+
T Consensus       138 ~~~l~a~Le~~L~~nP~-d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~l  215 (287)
T COG4235         138 MEALIARLETHLQQNPG-DAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARAL  215 (287)
T ss_pred             HHHHHHHHHHHHHhCCC-CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHH
Confidence            44444444444444433 77788888888888888888888888877652 335666666666654332   34677788


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC
Q 012804          345 LEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK  386 (456)
Q Consensus       345 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  386 (456)
                      |+++...+ +.|......|...+...|++.+|...|+.|...
T Consensus       216 l~~al~~D-~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         216 LRQALALD-PANIRALSLLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            88877764 556777777777888888888888888877766

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.86  E-value=0.00065  Score=52.72  Aligned_cols=114  Identities=12%  Similarity=0.005  Sum_probs=70.2

Q ss_pred             HHHHHHHHHHHHhc-CCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCC--CHhHHHHHHHHHHcCCChhHHHHH
Q 012804           23 LEKAEAIIIDGIRL-GVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISP--DVVTYNSLIAGATRNSLLSCSLDL   99 (456)
Q Consensus        23 ~~~A~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~   99 (456)
                      +..+...+..+.+. +.......|..+...+...|++++|...|+........+  ...++..+...+...|++++|.+.
T Consensus        15 ~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~   94 (168)
T CHL00033         15 FTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEY   94 (168)
T ss_pred             cccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            44444555555322 222234566777777777888888888888876553222  234677777888888888888888


Q ss_pred             HHHHHHCCCCCCHHhHHHHHHHHH-------hcCChhHHHHHHHH
Q 012804          100 LDEMLEMGIPPDVWSYNSLMHCLF-------QLGKPDEANRVFQD  137 (456)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~~~a~~~~~~  137 (456)
                      ++....... ....++..+...+.       ..|+++.|...+++
T Consensus        95 ~~~Al~~~~-~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033         95 YFQALERNP-FLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHHhCc-CcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHH
Confidence            888776532 23444555555555       67777655544443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.82  E-value=0.00013  Score=46.01  Aligned_cols=58  Identities=12%  Similarity=0.102  Sum_probs=46.1

Q ss_pred             HHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhC
Q 012804           13 CVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREA   71 (456)
Q Consensus        13 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   71 (456)
                      +...+.+.|++++|+..|+.+++..+. +...+..+..++...|++++|...|+.+.+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            456778888888888888888887643 7778888888888888888888888888765

>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=97.81  E-value=3.7e-05  Score=49.13  Aligned_cols=49  Identities=24%  Similarity=0.272  Sum_probs=25.6

Q ss_pred             hCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          369 KDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       369 ~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      ..|++++|++.|+++...   +...+..++.+|.+.|++++|.++++++...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            445555555555555433   4445555555555555555555555555543

...

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.81  E-value=0.00015  Score=46.36  Aligned_cols=65  Identities=12%  Similarity=0.092  Sum_probs=53.8

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccC-ChhHHHHHHHHHHhC
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFV-SFDAGYTILNRMREA   71 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~   71 (456)
                      ++.+|..+...+...|++++|+..|+++++.++. +...|..+..++...| ++++|++.+++..+.
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~-~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPN-NAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            4678888888888999999999999998888754 6778888888888888 688888888887764

...

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.77  E-value=3.7e-05  Score=39.95  Aligned_cols=29  Identities=21%  Similarity=0.353  Sum_probs=17.0

Q ss_pred             HHHHHHHHHHhhCcHHHHHHHHHHHHhcC
Q 012804            9 LLNICVCTFCKANRLEKAEAIIIDGIRLG   37 (456)
Q Consensus         9 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~   37 (456)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45566666666666666666666655544

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.

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.76  E-value=0.0031  Score=44.96  Aligned_cols=92  Identities=16%  Similarity=0.075  Sum_probs=55.9

Q ss_pred             HHHHHHHhhCcHHHHHHHHHHHHhcCCCCC--HHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCC----HhHHHHHHH
Q 012804           12 ICVCTFCKANRLEKAEAIIIDGIRLGVLPD--VVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPD----VVTYNSLIA   85 (456)
Q Consensus        12 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~   85 (456)
                      .+..++-..|+.++|+.+|++....|....  ...+-.+...+...|++++|..+++......  |+    ......+.-
T Consensus         6 ~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al   83 (120)
T PF12688_consen    6 ELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLAL   83 (120)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHH
Confidence            345566677777777777777777665433  2245556667777777777777777776542  22    112222334


Q ss_pred             HHHcCCChhHHHHHHHHHHH
Q 012804           86 GATRNSLLSCSLDLLDEMLE  105 (456)
Q Consensus        86 ~~~~~~~~~~a~~~~~~~~~  105 (456)
                      ++...|+.++|++.+-....
T Consensus        84 ~L~~~gr~~eAl~~~l~~la  103 (120)
T PF12688_consen   84 ALYNLGRPKEALEWLLEALA  103 (120)
T ss_pred             HHHHCCCHHHHHHHHHHHHH
Confidence            55566777777776655444

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.76  E-value=4.3e-05  Score=39.73  Aligned_cols=26  Identities=42%  Similarity=0.653  Sum_probs=10.4

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHH
Q 012804           80 YNSLIAGATRNSLLSCSLDLLDEMLE  105 (456)
Q Consensus        80 ~~~l~~~~~~~~~~~~a~~~~~~~~~  105 (456)
                      |+.++++|++.|++++|.++|++|.+
T Consensus         3 y~~li~~~~~~~~~~~a~~~~~~M~~   28 (31)
T PF01535_consen    3 YNSLISGYCKMGQFEEALEVFDEMRE   28 (31)
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHhH
Confidence            33334444444444444444443333

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.

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.74  E-value=0.0065  Score=48.71  Aligned_cols=65  Identities=14%  Similarity=0.019  Sum_probs=42.2

Q ss_pred             hHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCC--CHHhHHHHHHHHHccCChhHHHHHHHHHHhC
Q 012804            7 TRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLP--DVVTYNMLIDAYCQFVSFDAGYTILNRMREA   71 (456)
Q Consensus         7 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   71 (456)
                      +..+-.....+...|++.+|.+.|+.+....+..  ...+.-.++.++.+.|+++.|...++...+.
T Consensus         5 ~~~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen    5 AEALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3344444566777888888888888887764331  2235556677777888888888888887765

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.71  E-value=0.00086  Score=55.58  Aligned_cols=93  Identities=13%  Similarity=-0.001  Sum_probs=62.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhCCCHHHHHHHHHHhccC------ChhhHHHH
Q 012804          324 THTILIDGLCKAGNIKGARLHLEYMNKIGFDSN---LEAYNCIVDRLGKDGKIDHAINVFESMEVK------DSFTYSSM  394 (456)
Q Consensus       324 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------~~~~~~~l  394 (456)
                      .|...+....+.|++++|...|+.+++.- |.+   ...+..++.+|...|++++|...|+.+...      .+..+..+
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y-P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~kl  223 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKY-PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKV  223 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence            34444444455677888888888777652 222   346666777777778888887777777643      34555666


Q ss_pred             HHHHHccCChhHHHHHHHHHHHc
Q 012804          395 VHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       395 ~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      +..+...|++++|.+.|+++++.
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH
Confidence            66777777777777777777765

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.61  E-value=0.024  Score=51.62  Aligned_cols=92  Identities=14%  Similarity=0.104  Sum_probs=44.8

Q ss_pred             CHHhHHHHHHHHHhcCChhHHHHHHH---------HHHhCCCCCChhHHHHHHHHHHhcCCh--HHHHHHHHHHHhCCCC
Q 012804          111 DVWSYNSLMHCLFQLGKPDEANRVFQ---------DMICGDLTPCTATFNIMLNGLCKNRYT--DNALRMFRGLQKHGFV  179 (456)
Q Consensus       111 ~~~~~~~l~~~~~~~~~~~~a~~~~~---------~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~a~~~~~~~~~~~~~  179 (456)
                      .+..+.+=+..|...|.+++|.++--         .+...  ..+.-.++..-.+|.+..+.  -+.+.-++++.+.|-.
T Consensus       555 ~evp~~~~m~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~--ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~  632 (1081)
T KOG1538|consen  555 VEVPQSAPMYQYIERGLFKEAYQIACLGVTDTDWRELAME--ALEALDFETARKAYIRVRDLRYLELISELEERKKRGET  632 (1081)
T ss_pred             ccccccccchhhhhccchhhhhcccccceecchHHHHHHH--HHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCC
Confidence            34445555667777888777765411         11000  01112233333444443332  2333344555666665


Q ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 012804          180 PELVTYNILIKGLCKAGRLRTARWILKE  207 (456)
Q Consensus       180 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~  207 (456)
                      |+...   +...++-.|.+.+|-++|.+
T Consensus       633 P~~iL---lA~~~Ay~gKF~EAAklFk~  657 (1081)
T KOG1538|consen  633 PNDLL---LADVFAYQGKFHEAAKLFKR  657 (1081)
T ss_pred             chHHH---HHHHHHhhhhHHHHHHHHHH
Confidence            66543   23445566677777666654

>PRK15331 chaperone protein SicA; Provisional

Probab=97.59  E-value=0.0025  Score=47.48  Aligned_cols=85  Identities=7%  Similarity=-0.020  Sum_probs=62.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHH
Q 012804          331 GLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSA  407 (456)
Q Consensus       331 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A  407 (456)
                      -+...|++++|..+|+-+...+ +.+..-|..|..++-..+++++|+..|..+...   |+......+.++...|+.+.|
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  124 (165)
T PRK15331         46 EFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHHH
Confidence            3456788888888888877654 445666777777777788888888887754433   677777777888888888888


Q ss_pred             HHHHHHHHH
Q 012804          408 SKLLLSCLK  416 (456)
Q Consensus       408 ~~~~~~~~~  416 (456)
                      ...|+.+++
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            888887775

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.58  E-value=0.039  Score=47.15  Aligned_cols=278  Identities=13%  Similarity=0.051  Sum_probs=168.7

Q ss_pred             cCChHHHHHHHHHHHhCCCCCcHHHHHHHH--HHHHHcCCHHHHHHHHHHHhhCCCCCCHHHH----HHHHHHHHhcCch
Q 012804          160 NRYTDNALRMFRGLQKHGFVPELVTYNILI--KGLCKAGRLRTARWILKELGDSGHAPNAITY----TTIMKCCFRNRKY  233 (456)
Q Consensus       160 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~  233 (456)
                      .|+-..|.++-.+..+. +..|....-.++  .+-.-.|+++.|.+-|+.|..     |+.+-    ..|.-...+.|+.
T Consensus        97 AGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~-----dPEtRllGLRgLyleAqr~Gar  170 (531)
T COG3898          97 AGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD-----DPETRLLGLRGLYLEAQRLGAR  170 (531)
T ss_pred             cCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc-----ChHHHHHhHHHHHHHHHhcccH
Confidence            45556666555444322 122222222233  233456788888888888775     33332    2233333567777


Q ss_pred             hHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCC-CccCHHH--HHHHHHHHH---hcCCHHHHH
Q 012804          234 KLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDG-VQLDIVS--YNTLINLYC---KEGKLEAAY  307 (456)
Q Consensus       234 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~--~~~l~~~~~---~~~~~~~a~  307 (456)
                      +.|..+-++..... +.-.......+...+..|+++.|+++++.-.... +.++..-  -..|+.+-.   -.-+...|.
T Consensus       171 eaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar  249 (531)
T COG3898         171 EAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASAR  249 (531)
T ss_pred             HHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHH
Confidence            88887777776653 4445667777888888888888888887665532 2222211  112222211   123456666


Q ss_pred             HHHHHHHHcCCCcCHH-hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHH----HHHHHH
Q 012804          308 LLLDEMEKQGFECDKY-THTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHA----INVFES  382 (456)
Q Consensus       308 ~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a----~~~~~~  382 (456)
                      ..-.+..+.  .|+.. .-.....++.+.|+..++-.+++.+-+.  .|.+.++..+  .+.+.|+....    .+-+..
T Consensus       250 ~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~--ePHP~ia~lY--~~ar~gdta~dRlkRa~~L~s  323 (531)
T COG3898         250 DDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKA--EPHPDIALLY--VRARSGDTALDRLKRAKKLES  323 (531)
T ss_pred             HHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhc--CCChHHHHHH--HHhcCCCcHHHHHHHHHHHHh
Confidence            665555543  44433 2233456788889999999999988876  4555554433  34455653221    123344


Q ss_pred             hccCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHcc-CChHHHHHHHHHHHhc
Q 012804          383 MEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHS-GCRREAKKIQSKIRMA  452 (456)
Q Consensus       383 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~  452 (456)
                      |...+..+...+..+-...|++..|..--+....  ..|....|..+.+.-... |+..+++.++.+..+.
T Consensus       324 lk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         324 LKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             cCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            5555778888888888889999888877776663  467888888888876555 9999999888776654

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.57  E-value=0.00036  Score=45.25  Aligned_cols=52  Identities=17%  Similarity=0.087  Sum_probs=28.8

Q ss_pred             HHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          366 RLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       366 ~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      .|.+.+++++|.++++.+...   ++..|...+.++.+.|++++|.+.+++.++.
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            445555555555555555444   4444555555555555555555555555544

>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=97.51  E-value=0.002  Score=50.18  Aligned_cols=72  Identities=15%  Similarity=0.230  Sum_probs=38.0

Q ss_pred             CChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHH----------------cCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 012804          161 RYTDNALRMFRGLQKHGFVPELVTYNILIKGLCK----------------AGRLRTARWILKELGDSGHAPNAITYTTIM  224 (456)
Q Consensus       161 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  224 (456)
                      |..+=....++.|.+.|+.-|..+|+.|++.+=+                ..+.+-|++++++|...|+.||..++..++
T Consensus        66 GHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll  145 (228)
T PF06239_consen   66 GHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAIDLLEQMENNGVMPDKETEQMLL  145 (228)
T ss_pred             ChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            3344444444455555555555555555444432                112344566666666666666666666666


Q ss_pred             HHHHhcCc
Q 012804          225 KCCFRNRK  232 (456)
Q Consensus       225 ~~~~~~~~  232 (456)
                      +.+.+.+.
T Consensus       146 ~iFG~~s~  153 (228)
T PF06239_consen  146 NIFGRKSH  153 (228)
T ss_pred             HHhccccH
Confidence            66655443

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=97.51  E-value=0.034  Score=44.87  Aligned_cols=176  Identities=14%  Similarity=0.073  Sum_probs=96.0

Q ss_pred             HHHHcCChHHHHHHHHHHHHCCC--ccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhc---
Q 012804          261 AFVKIGRLKEATDYMEQMVTDGV--QLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKA---  335 (456)
Q Consensus       261 ~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---  335 (456)
                      .-.+.|++++|.+.|+.+....+  +-...+...++.++.+.++++.|...+++...........-|...+.++..-   
T Consensus        43 ~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i  122 (254)
T COG4105          43 TELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQI  122 (254)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccC
Confidence            34567888888888888886522  2245566677778888888999988888887753322233344444444321   


Q ss_pred             ----CCHHH---HHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCChhhHHHHHHHHHccCChhHHH
Q 012804          336 ----GNIKG---ARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSAS  408 (456)
Q Consensus       336 ----~~~~~---a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  408 (456)
                          .|...   |..-|+.++.. +|.+..              ..+|......+...-...=..+++.|.+.|.+-.|.
T Consensus       123 ~~~~rDq~~~~~A~~~f~~~i~r-yPnS~Y--------------a~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~  187 (254)
T COG4105         123 DDVTRDQSAARAAFAAFKELVQR-YPNSRY--------------APDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAI  187 (254)
T ss_pred             CccccCHHHHHHHHHHHHHHHHH-CCCCcc--------------hhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHH
Confidence                23333   33333333332 222111              111111111111110111124556677777777777


Q ss_pred             HHHHHHHHcCCCCCH---HhHHHHHHHHHccCChHHHHHHHHHHHhc
Q 012804          409 KLLLSCLKSGVRILK---SAQKAVVDGLRHSGCRREAKKIQSKIRMA  452 (456)
Q Consensus       409 ~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  452 (456)
                      .-++++++. .+-..   ..+..+..+|.+.|..++|.+.-+-+...
T Consensus       188 nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         188 NRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             HHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            777777766 22222   34445566777777777777765555443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.50  E-value=0.0045  Score=51.40  Aligned_cols=96  Identities=5%  Similarity=-0.116  Sum_probs=40.1

Q ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCC--HHhHHHHHHHHHccCChhHHHHHHHHHHhCCC--CCCHhHHHHHHH
Q 012804           10 LNICVCTFCKANRLEKAEAIIIDGIRLGVLPD--VVTYNMLIDAYCQFVSFDAGYTILNRMREAGI--SPDVVTYNSLIA   85 (456)
Q Consensus        10 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~   85 (456)
                      |...+..+.+.|++++|...|+.+++..+...  ..++..+..+|...|++++|...|+.+.+.-.  +.....+-.+..
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            33333333444555555555555554432211  12344444444455555555555554443210  011222223333


Q ss_pred             HHHcCCChhHHHHHHHHHHH
Q 012804           86 GATRNSLLSCSLDLLDEMLE  105 (456)
Q Consensus        86 ~~~~~~~~~~a~~~~~~~~~  105 (456)
                      ++...|+.++|.++|+.+.+
T Consensus       226 ~~~~~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        226 IMQDKGDTAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            44444444445444444444

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.47  E-value=0.0077  Score=48.25  Aligned_cols=154  Identities=8%  Similarity=-0.018  Sum_probs=114.4

Q ss_pred             HHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChh
Q 012804           15 CTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLS   94 (456)
Q Consensus        15 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   94 (456)
                      +.+-.....+.-+++|++=.       ..+.+.++..+.-.|.+.-...++.++.+...+.++.....|.+.-.+.|+.+
T Consensus       157 ~~~e~~~~~ESsv~lW~KRl-------~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k  229 (366)
T KOG2796|consen  157 ANLEQGLAEESSIRLWRKRL-------GRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIK  229 (366)
T ss_pred             HHHHhccchhhHHHHHHHHH-------HHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHH
Confidence            33333344466777776532       24567788888888899999999999998876778888889999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHhHH-----HHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHH
Q 012804           95 CSLDLLDEMLEMGIPPDVWSYN-----SLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRM  169 (456)
Q Consensus        95 ~a~~~~~~~~~~~~~~~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  169 (456)
                      .|...|++..+..-..+..+.+     .....|.-.+++..|...+.+.+..+ +.++...|.-.-+..-.|+..+|++.
T Consensus       230 ~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~  308 (366)
T KOG2796|consen  230 TAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQ  308 (366)
T ss_pred             HHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHH
Confidence            9999999776543333333333     33445667788999999998888776 55666666666666667999999999


Q ss_pred             HHHHHhC
Q 012804          170 FRGLQKH  176 (456)
Q Consensus       170 ~~~~~~~  176 (456)
                      ++.+.+.
T Consensus       309 ~e~~~~~  315 (366)
T KOG2796|consen  309 LEAMVQQ  315 (366)
T ss_pred             HHHHhcc
Confidence            9999886

>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=97.45  E-value=0.002  Score=50.25  Aligned_cols=99  Identities=22%  Similarity=0.328  Sum_probs=74.9

Q ss_pred             HHHHHHHHhcCCCCCHHhHHHHHHHHHc-----cCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcC-----------
Q 012804           27 EAIIIDGIRLGVLPDVVTYNMLIDAYCQ-----FVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRN-----------   90 (456)
Q Consensus        27 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------   90 (456)
                      ...|+.....  ..+-.+|..++..+.+     .|..+-....+..|.+.|+.-|..+|+.|+..+=+.           
T Consensus        34 ~~~f~~~~~~--~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~  111 (228)
T PF06239_consen   34 EELFERAPGQ--AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAE  111 (228)
T ss_pred             HHHHHHHhhc--cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHH
Confidence            3455554322  3466777777777754     466777778888888888888889999888876542           


Q ss_pred             -----CChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCC
Q 012804           91 -----SLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGK  127 (456)
Q Consensus        91 -----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  127 (456)
                           .+-+-|++++++|...|+-||..++..++..+.+.+.
T Consensus       112 F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  112 FMHYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             hccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence                 2346789999999999999999999999999887765

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.41  E-value=0.0013  Score=42.51  Aligned_cols=58  Identities=14%  Similarity=0.125  Sum_probs=47.1

Q ss_pred             HHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCC
Q 012804           14 VCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAG   72 (456)
Q Consensus        14 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   72 (456)
                      -..|.+++++++|+++++.+++.++. ++..+.....++.+.|++++|.+.|+...+.+
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            35678888888888888888887754 77778888888888888888888888888763

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=97.40  E-value=0.022  Score=52.10  Aligned_cols=173  Identities=17%  Similarity=0.105  Sum_probs=103.2

Q ss_pred             HHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCcCHH-----hHHHHHHHHH----hcCCHHHH
Q 012804          272 TDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQG-FECDKY-----THTILIDGLC----KAGNIKGA  341 (456)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~-----~~~~l~~~~~----~~~~~~~a  341 (456)
                      ..+|.-+++. +||   .+..++....-.||-+.+++.+.+..+.+ +.-...     .|...+..+.    ...+.+.|
T Consensus       177 ~G~f~L~lSl-LPp---~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a  252 (468)
T PF10300_consen  177 FGLFNLVLSL-LPP---KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEA  252 (468)
T ss_pred             HHHHHHHHHh-CCH---HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHH
Confidence            3344444443 333   23445555556677777777776665421 211111     1222222222    24456778


Q ss_pred             HHHHHHHHhCCCCCCHHHH-HHHHHHHHhCCCHHHHHHHHHHhccC-------ChhhHHHHHHHHHccCChhHHHHHHHH
Q 012804          342 RLHLEYMNKIGFDSNLEAY-NCIVDRLGKDGKIDHAINVFESMEVK-------DSFTYSSMVHNLCKAKRLPSASKLLLS  413 (456)
Q Consensus       342 ~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~a~~~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~A~~~~~~  413 (456)
                      .++++.+.+.  -|+...| -.-.+.+...|++++|++.|+++...       ....+..++..+.-.++|++|.+.|.+
T Consensus       253 ~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~  330 (468)
T PF10300_consen  253 EELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLR  330 (468)
T ss_pred             HHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHH
Confidence            8888888775  3444333 33445667788888888888865542       334556677778888889999998888


Q ss_pred             HHHcCCCCCHHhHHHHH-HHHHccCCh-------HHHHHHHHHHHh
Q 012804          414 CLKSGVRILKSAQKAVV-DGLRHSGCR-------REAKKIQSKIRM  451 (456)
Q Consensus       414 ~~~~~~~~~~~~~~~l~-~~~~~~g~~-------~~A~~~~~~~~~  451 (456)
                      +.+..-. +..+|..+. .++...|+.       ++|..++.++..
T Consensus       331 L~~~s~W-Ska~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  331 LLKESKW-SKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHhcccc-HHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            8876433 444444333 355667777       778888877754

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.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=97.32  E-value=0.12  Score=46.94  Aligned_cols=344  Identities=11%  Similarity=0.020  Sum_probs=176.6

Q ss_pred             CHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHH
Q 012804           76 DVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLN  155 (456)
Q Consensus        76 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  155 (456)
                      +-..++.++.---.....+.+..+++.++.. .|.-..-|......=.+.|..+.+.++|++-+. +++.+...|...+.
T Consensus        44 ~f~~wt~li~~~~~~~~~~~~r~~y~~fL~k-yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~-aip~SvdlW~~Y~~  121 (577)
T KOG1258|consen   44 DFDAWTTLIQENDSIEDVDALREVYDIFLSK-YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQ-AIPLSVDLWLSYLA  121 (577)
T ss_pred             cccchHHHHhccCchhHHHHHHHHHHHHHhh-CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH-hhhhHHHHHHHHHH
Confidence            3445555555444444556666667666643 222233445555556677888888899888774 44666677766665


Q ss_pred             HHH-hcCChHHHHHHHHHHHhC-CCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHH---h
Q 012804          156 GLC-KNRYTDNALRMFRGLQKH-GFV-PELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCF---R  229 (456)
Q Consensus       156 ~~~-~~~~~~~a~~~~~~~~~~-~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---~  229 (456)
                      .+. ..|+.+...+.|+...+. |.. -+...|...|..-..++++.....+++++++..    ...++..-.-|.   +
T Consensus       122 f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRileiP----~~~~~~~f~~f~~~l~  197 (577)
T KOG1258|consen  122 FLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEIP----LHQLNRHFDRFKQLLN  197 (577)
T ss_pred             HHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhhh----hhHhHHHHHHHHHHHh
Confidence            444 456777777788777654 211 244567777777777888888888888887631    222222222211   1


Q ss_pred             c------CchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCc-cC-HHHHHHHH-------
Q 012804          230 N------RKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQ-LD-IVSYNTLI-------  294 (456)
Q Consensus       230 ~------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~-~~~~~~l~-------  294 (456)
                      .      ...+++.++-......             ......+..  +..+=..+...+.+ +. ....+.+-       
T Consensus       198 ~~~~~~l~~~d~~~~l~~~~~~~-------------~~~~~~~~~--~e~~~~~v~~~~~~s~~l~~~~~~l~~~~~~~~  262 (577)
T KOG1258|consen  198 QNEEKILLSIDELIQLRSDVAER-------------SKITHSQEP--LEELEIGVKDSTDPSKSLTEEKTILKRIVSIHE  262 (577)
T ss_pred             cCChhhhcCHHHHHHHhhhHHhh-------------hhcccccCh--hHHHHHHHhhccCccchhhHHHHHHHHHHHHHH
Confidence            1      1122222211111110             000000111  11111111111000 00 00111111       


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcC---C----CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 012804          295 NLYCKEGKLEAAYLLLDEMEKQG---F----ECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRL  367 (456)
Q Consensus       295 ~~~~~~~~~~~a~~~~~~~~~~~---~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  367 (456)
                      .++.......+....++.-....   +    .++..+|...+.--...|+.+...-++++..-- ...=...|-..+...
T Consensus       263 ~~~~~s~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m  341 (577)
T KOG1258|consen  263 KVYQKSEEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWM  341 (577)
T ss_pred             HHHHhhHhHHHHHHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHH
Confidence            11222223333333444433321   1    123456777777778888888888888876532 112235566666666


Q ss_pred             HhCCCHHHHHHHHHHhccC----ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHH-hHHHHHHHHHccCChHHH
Q 012804          368 GKDGKIDHAINVFESMEVK----DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKS-AQKAVVDGLRHSGCRREA  442 (456)
Q Consensus       368 ~~~g~~~~a~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A  442 (456)
                      ...|+.+-|..++....+-    .+.+...-....-..|+++.|..++++.... . |+.. .-..-+....+.|+.+.+
T Consensus       342 ~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e-~-pg~v~~~l~~~~~e~r~~~~~~~  419 (577)
T KOG1258|consen  342 ESSGDVSLANNVLARACKIHVKKTPIIHLLEARFEESNGNFDDAKVILQRIESE-Y-PGLVEVVLRKINWERRKGNLEDA  419 (577)
T ss_pred             HHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHHHHhhccHHHHHHHHHHHHhh-C-CchhhhHHHHHhHHHHhcchhhh
Confidence            6668888888777765543    2222222222334577888888888888765 3 4332 222333455677777777


Q ss_pred             H
Q 012804          443 K  443 (456)
Q Consensus       443 ~  443 (456)
                      .
T Consensus       420 ~  420 (577)
T KOG1258|consen  420 N  420 (577)
T ss_pred             h
Confidence            7

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.32  E-value=0.0011  Score=43.63  Aligned_cols=60  Identities=15%  Similarity=0.063  Sum_probs=28.4

Q ss_pred             HHHHHHHHHccCChhHHHHHHHHHHHc----CCC-CC-HHhHHHHHHHHHccCChHHHHHHHHHHH
Q 012804          391 YSSMVHNLCKAKRLPSASKLLLSCLKS----GVR-IL-KSAQKAVVDGLRHSGCRREAKKIQSKIR  450 (456)
Q Consensus       391 ~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~-~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  450 (456)
                      ++.+...|...|++++|++.++++++.    |.. |+ ..++..++.++...|++++|.+++++..
T Consensus         8 ~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    8 YNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344444555555555555555544422    111 11 2345555555566666666665555543

...

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.31  E-value=0.061  Score=49.16  Aligned_cols=78  Identities=10%  Similarity=0.059  Sum_probs=44.9

Q ss_pred             HHHHHHHHhcCChh--HHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHH
Q 012804          116 NSLMHCLFQLGKPD--EANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLC  193 (456)
Q Consensus       116 ~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  193 (456)
                      +..-.+|.+..+..  +..--++++.+.|-.|+...   +...++-.|.+.+|-++|.+--..         +-.+..|.
T Consensus       602 ~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~G~e---------nRAlEmyT  669 (1081)
T KOG1538|consen  602 ETARKAYIRVRDLRYLELISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKRSGHE---------NRALEMYT  669 (1081)
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHcCch---------hhHHHHHH
Confidence            33344555544432  33344566777776676543   445677789999999988654222         22345555


Q ss_pred             HcCCHHHHHHHH
Q 012804          194 KAGRLRTARWIL  205 (456)
Q Consensus       194 ~~~~~~~a~~~~  205 (456)
                      ....++.|.+++
T Consensus       670 DlRMFD~aQE~~  681 (1081)
T KOG1538|consen  670 DLRMFDYAQEFL  681 (1081)
T ss_pred             HHHHHHHHHHHh
Confidence            555666665554

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.30  E-value=0.1  Score=45.68  Aligned_cols=422  Identities=14%  Similarity=0.097  Sum_probs=225.3

Q ss_pred             HHhhCcHHHHHHHHHHHHhcCCCCCH------HhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHH--H
Q 012804           17 FCKANRLEKAEAIIIDGIRLGVLPDV------VTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGA--T   88 (456)
Q Consensus        17 ~~~~g~~~~A~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~--~   88 (456)
                      +.+++++.+|.++|.+..+.. ..++      ...+.++++|.. .+.+.....+....+.  .| ...|-.+..+.  -
T Consensus        16 Lqkq~~~~esEkifskI~~e~-~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~--~~-~s~~l~LF~~L~~Y   90 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEK-ESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQ--FG-KSAYLPLFKALVAY   90 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHh-hcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHh--cC-CchHHHHHHHHHHH
Confidence            457899999999999988653 2232      234567777764 4566666666555554  23 23344444433  3


Q ss_pred             cCCChhHHHHHHHHHHHC--CCCC------------CHHhHHHHHHHHHhcCChhHHHHHHHHHHhCC----CCCChhHH
Q 012804           89 RNSLLSCSLDLLDEMLEM--GIPP------------DVWSYNSLMHCLFQLGKPDEANRVFQDMICGD----LTPCTATF  150 (456)
Q Consensus        89 ~~~~~~~a~~~~~~~~~~--~~~~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~  150 (456)
                      +.+.+.+|.+.+..-...  +.+|            |-..-+..+.++...|++.++..+++++...=    ..-+..+|
T Consensus        91 ~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~y  170 (549)
T PF07079_consen   91 KQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMY  170 (549)
T ss_pred             HhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHH
Confidence            678899999888776654  2221            12222456778899999999999999887543    23677888


Q ss_pred             HHHHHHHHhc--------CCh-------HHHHHHHHHHHhC------CCCCcHHHHHHHHHHHHHcC--CHHHHHHHHHH
Q 012804          151 NIMLNGLCKN--------RYT-------DNALRMFRGLQKH------GFVPELVTYNILIKGLCKAG--RLRTARWILKE  207 (456)
Q Consensus       151 ~~l~~~~~~~--------~~~-------~~a~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~  207 (456)
                      +.++-.+++.        ...       +.+.-+.+++...      .+.|.......++....-..  +..--.++++.
T Consensus       171 d~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~  250 (549)
T PF07079_consen  171 DRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILEN  250 (549)
T ss_pred             HHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHH
Confidence            8755444432        111       2222222222221      12333333333333322111  12222333333


Q ss_pred             HhhCCCCCCHHH-HHHHHHHHHhcCchhHHHHHHHHHHHcCCC----cChhhHHHHHHHHHHcCChHHHHHHHHHHHHCC
Q 012804          208 LGDSGHAPNAIT-YTTIMKCCFRNRKYKLGLEILSAMKRKGYT----FDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDG  282 (456)
Q Consensus       208 ~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  282 (456)
                      ..+.-+.|+... ...+...+.+  +.+++..+.+.+....+.    .-..++..++....+.++...|...+.-+...+
T Consensus       251 We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ld  328 (549)
T PF07079_consen  251 WENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKILD  328 (549)
T ss_pred             HHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcC
Confidence            334444454332 2233333333  555555555554433211    123467777788888888888888887776542


Q ss_pred             CccCHHHHH-------HHHHHHHh----cCCHHHHHHHHHHHHHcCCCcCHHhHHHHH---HHHHhcCC-HHHHHHHHHH
Q 012804          283 VQLDIVSYN-------TLINLYCK----EGKLEAAYLLLDEMEKQGFECDKYTHTILI---DGLCKAGN-IKGARLHLEY  347 (456)
Q Consensus       283 ~~~~~~~~~-------~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~---~~~~~~~~-~~~a~~~~~~  347 (456)
                        |+...-.       .+....+.    .-+...-+.+|......++. .......++   .-+-+.|. -++|..+++.
T Consensus       329 --p~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiD-rqQLvh~L~~~Ak~lW~~g~~dekalnLLk~  405 (549)
T PF07079_consen  329 --PRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDID-RQQLVHYLVFGAKHLWEIGQCDEKALNLLKL  405 (549)
T ss_pred             --CcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhccc-HHHHHHHHHHHHHHHHhcCCccHHHHHHHHH
Confidence              2222111       11112221    11223334556666554332 122222222   23445555 6888999998


Q ss_pred             HHhCCCCCCHHHHHHHHH----HHHhC---CCHHHHHHHHHHhccC--------ChhhHHHHHHH--HHccCChhHHHHH
Q 012804          348 MNKIGFDSNLEAYNCIVD----RLGKD---GKIDHAINVFESMEVK--------DSFTYSSMVHN--LCKAKRLPSASKL  410 (456)
Q Consensus       348 ~~~~~~~~~~~~~~~l~~----~~~~~---g~~~~a~~~~~~~~~~--------~~~~~~~l~~~--~~~~~~~~~A~~~  410 (456)
                      +.+.. +-|...-+.+..    .|..+   ..+.+-..+-+-+...        +...-+.+..+  +...|++.++.-.
T Consensus       406 il~ft-~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~y  484 (549)
T PF07079_consen  406 ILQFT-NYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLY  484 (549)
T ss_pred             HHHhc-cccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHH
Confidence            88752 334433333222    22221   2222222222211111        33444555443  4568888887654


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHh
Q 012804          411 LLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       411 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      -.-..  .+.|++.++..++-++....++++|+.+++++..
T Consensus       485 s~WL~--~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP~  523 (549)
T PF07079_consen  485 SSWLT--KIAPSPQAYRLLGLCLMENKRYQEAWEYLQKLPP  523 (549)
T ss_pred             HHHHH--HhCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCCC
Confidence            43333  3678999999999999999999999999987754

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.29  E-value=0.1  Score=45.38  Aligned_cols=94  Identities=10%  Similarity=0.028  Sum_probs=44.4

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHHcC---CCcChhhHHHHHHHHHH---cCChHHHHHHHHHHHHCCCccCHHHHHHHHH
Q 012804          222 TIMKCCFRNRKYKLGLEILSAMKRKG---YTFDGFGYCTVIAAFVK---IGRLKEATDYMEQMVTDGVQLDIVSYNTLIN  295 (456)
Q Consensus       222 ~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  295 (456)
                      .++-+|....+++...++++.+....   +......-.....++.+   .|+.++|..++..++.....+++.++..+.+
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GR  225 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGR  225 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence            33444555555555555555555431   11112222223334444   5566666666666444444455555555555


Q ss_pred             HHHhc---------CCHHHHHHHHHHHHH
Q 012804          296 LYCKE---------GKLEAAYLLLDEMEK  315 (456)
Q Consensus       296 ~~~~~---------~~~~~a~~~~~~~~~  315 (456)
                      .|...         ...++|...|.+.-+
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgFe  254 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGFE  254 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHHc
Confidence            44321         124556655555443

>PRK15331 chaperone protein SicA; Provisional

Probab=97.28  E-value=0.036  Score=41.51  Aligned_cols=92  Identities=11%  Similarity=-0.049  Sum_probs=64.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC
Q 012804          293 LINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGK  372 (456)
Q Consensus       293 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  372 (456)
                      ...-+...|++++|..+|.-+.-.++. +..-+..|..++-..+++++|...|......+ ..|+..+-....++...|+
T Consensus        43 ~Ay~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~  120 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCC
Confidence            334455788888888888877765433 55556677777777788888888888766554 3344445566778888888


Q ss_pred             HHHHHHHHHHhccC
Q 012804          373 IDHAINVFESMEVK  386 (456)
Q Consensus       373 ~~~a~~~~~~~~~~  386 (456)
                      .+.|+..|..+...
T Consensus       121 ~~~A~~~f~~a~~~  134 (165)
T PRK15331        121 AAKARQCFELVNER  134 (165)
T ss_pred             HHHHHHHHHHHHhC
Confidence            88888888877664

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.25  E-value=0.00067  Score=44.65  Aligned_cols=59  Identities=17%  Similarity=0.189  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHhccC----------ChhhHHHHHHHHHccCChhHHHHHHHHHH
Q 012804          357 LEAYNCIVDRLGKDGKIDHAINVFESMEVK----------DSFTYSSMVHNLCKAKRLPSASKLLLSCL  415 (456)
Q Consensus       357 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  415 (456)
                      ..++..+...|...|++++|++.|+++...          ...++..++.++...|++++|++.++++.
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            467888999999999999999999987644          24578889999999999999999999885

...

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.25  E-value=0.0079  Score=45.36  Aligned_cols=31  Identities=23%  Similarity=0.176  Sum_probs=19.8

Q ss_pred             CHHhHHHHHH---HHHhcCCHHHHHHHHHHHHhC
Q 012804          321 DKYTHTILID---GLCKAGNIKGARLHLEYMNKI  351 (456)
Q Consensus       321 ~~~~~~~l~~---~~~~~~~~~~a~~~~~~~~~~  351 (456)
                      |...|..++.   .....++.+.+...++++...
T Consensus         2 D~~~F~~~~~~a~~~~~~~~~~~~~~~~~~al~l   35 (146)
T PF03704_consen    2 DVDRFEALVREARAAARAGDPEEAIELLEEALAL   35 (146)
T ss_dssp             HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            3445555533   345678888899888888764

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=97.23  E-value=0.0056  Score=43.16  Aligned_cols=86  Identities=17%  Similarity=0.084  Sum_probs=43.6

Q ss_pred             HHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHc-CCCCCHHh---HHHHHHHHHccCC
Q 012804          366 RLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS-GVRILKSA---QKAVVDGLRHSGC  438 (456)
Q Consensus       366 ~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~---~~~l~~~~~~~g~  438 (456)
                      +....|+.+.|++.|.+....   .+..|+.-..++.-+|+.++|++-+.++++. |.+ ....   |..=+..|+..|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~-trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHhCc
Confidence            344555555555555554433   4555555555555556666666555555554 222 2221   2222234555566


Q ss_pred             hHHHHHHHHHHHhc
Q 012804          439 RREAKKIQSKIRMA  452 (456)
Q Consensus       439 ~~~A~~~~~~~~~~  452 (456)
                      .+.|+.-|+..-+.
T Consensus       131 dd~AR~DFe~AA~L  144 (175)
T KOG4555|consen  131 DDAARADFEAAAQL  144 (175)
T ss_pred             hHHHHHhHHHHHHh
Confidence            66665555554443

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=97.23  E-value=0.019  Score=48.39  Aligned_cols=56  Identities=21%  Similarity=0.102  Sum_probs=25.5

Q ss_pred             HHHHHHHccCChhHHHHHHHHHHHc----CCCC-CHHhHHHHHHHHHccCChHHHHHHHHH
Q 012804          393 SMVHNLCKAKRLPSASKLLLSCLKS----GVRI-LKSAQKAVVDGLRHSGCRREAKKIQSK  448 (456)
Q Consensus       393 ~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~  448 (456)
                      .+..++...|+.-.|.+..++..+.    |-++ ....+..+++.|+..|+.+.|+.-|+.
T Consensus       211 hmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~  271 (518)
T KOG1941|consen  211 HMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQ  271 (518)
T ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHH
Confidence            3444445555555555554444322    2111 122333455555555555555554443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.22  E-value=0.12  Score=44.95  Aligned_cols=169  Identities=14%  Similarity=0.017  Sum_probs=90.5

Q ss_pred             CHHhHHHHHHHHHccCChhHHHHHHHHHHhCC---CCCCHhHHHHHHHHHHc---CCChhHHHHHHHHHHHCCCCCCHHh
Q 012804           41 DVVTYNMLIDAYCQFVSFDAGYTILNRMREAG---ISPDVVTYNSLIAGATR---NSLLSCSLDLLDEMLEMGIPPDVWS  114 (456)
Q Consensus        41 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~  114 (456)
                      +..+...++-+|....+++..+++.+.+....   +.-....-....-++.+   .|+.++|++++..+......+++.+
T Consensus       140 s~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~  219 (374)
T PF13281_consen  140 SPDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDT  219 (374)
T ss_pred             ChhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHH
Confidence            33344455566777777777777777776541   11112222223334445   6777777777777555555567777


Q ss_pred             HHHHHHHHHhc---------CChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCC-h---HHHHHHH---H-HHHhCC
Q 012804          115 YNSLMHCLFQL---------GKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRY-T---DNALRMF---R-GLQKHG  177 (456)
Q Consensus       115 ~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~---~~a~~~~---~-~~~~~~  177 (456)
                      |..+.+.|-..         ...++|...|.+.-...  |+..+--.++..+.-.|. .   .+..++-   . .+.+.|
T Consensus       220 ~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~--~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg  297 (374)
T PF13281_consen  220 LGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIE--PDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKG  297 (374)
T ss_pred             HHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCC--ccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhc
Confidence            77666655321         23567777776655442  333222122222222221 1   1222222   1 111222


Q ss_pred             ---CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC
Q 012804          178 ---FVPELVTYNILIKGLCKAGRLRTARWILKELGDS  211 (456)
Q Consensus       178 ---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  211 (456)
                         -..+-..+.+++.+..-.|+.++|.+..++|...
T Consensus       298 ~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  298 SLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             cccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence               2234555667778888888888888888888765

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.22  E-value=0.0052  Score=46.37  Aligned_cols=70  Identities=16%  Similarity=0.232  Sum_probs=33.9

Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHH-----CCCCCCHHh
Q 012804           44 TYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLE-----MGIPPDVWS  114 (456)
Q Consensus        44 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  114 (456)
                      +...++..+...|+++.|..+.+.+.... +-+...|..+|.++...|+...|.+.|+.+..     .|++|+..+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            34445555555566666666665555543 33455555566666666666666655555432     255555544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.18  E-value=0.22  Score=47.20  Aligned_cols=178  Identities=15%  Similarity=0.095  Sum_probs=111.9

Q ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCH--HhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHH
Q 012804           10 LNICVCTFCKANRLEKAEAIIIDGIRLGVLPDV--VTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGA   87 (456)
Q Consensus        10 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   87 (456)
                      ...-++.+.+..-++-|+.+...-   +..++.  .........+.+.|++++|...|-+-... +.|.     .++.-|
T Consensus       337 le~kL~iL~kK~ly~~Ai~LAk~~---~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kf  407 (933)
T KOG2114|consen  337 LETKLDILFKKNLYKVAINLAKSQ---HLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKF  407 (933)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHhc---CCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHh
Confidence            445677788888999998877653   222221  13344445567889999998887665432 2222     245556


Q ss_pred             HcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHH
Q 012804           88 TRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNAL  167 (456)
Q Consensus        88 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  167 (456)
                      ....+...-..+++.+.+.|+. +...-..|+.+|.+.++.++-.+..+.-. .|..  ..-....+..+.+.+-.+.|.
T Consensus       408 Ldaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~  483 (933)
T KOG2114|consen  408 LDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAE  483 (933)
T ss_pred             cCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHH
Confidence            6777777788888899988876 55666788999999999888777765544 2211  112344556666667777776


Q ss_pred             HHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 012804          168 RMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKEL  208 (456)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  208 (456)
                      .+-.+...     .......+   +-..+++++|++.+..+
T Consensus       484 ~LA~k~~~-----he~vl~il---le~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  484 LLATKFKK-----HEWVLDIL---LEDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHHhcc-----CHHHHHHH---HHHhcCHHHHHHHHhcC
Confidence            66554433     22222222   34556777777776654

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=97.18  E-value=0.18  Score=45.98  Aligned_cols=181  Identities=11%  Similarity=0.043  Sum_probs=90.8

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHH
Q 012804          253 FGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGL  332 (456)
Q Consensus       253 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  332 (456)
                      .+|..-+.--...|+.+.+.-+++...-- ...=...|-..+......|+.+-|..++....+-..+-.+.+-..-..-+
T Consensus       298 ~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~  376 (577)
T KOG1258|consen  298 KNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARFE  376 (577)
T ss_pred             HHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHHH
Confidence            44555555566677777777777666531 11112233344444444577777776666655432221221111111223


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhCCCHHHHH---HHHHHhccC--ChhhHHHHHHH-----HHcc
Q 012804          333 CKAGNIKGARLHLEYMNKIGFDSN-LEAYNCIVDRLGKDGKIDHAI---NVFESMEVK--DSFTYSSMVHN-----LCKA  401 (456)
Q Consensus       333 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~---~~~~~~~~~--~~~~~~~l~~~-----~~~~  401 (456)
                      -..|++..|..+++.+... . |+ ...-..-+....+.|+.+.+.   +++......  +......+.--     +.-.
T Consensus       377 e~~~n~~~A~~~lq~i~~e-~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~i~  454 (577)
T KOG1258|consen  377 ESNGNFDDAKVILQRIESE-Y-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYKIR  454 (577)
T ss_pred             HhhccHHHHHHHHHHHHhh-C-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHHHh
Confidence            4456777777777777665 2 33 233333344555666666666   333333322  22222222211     1225


Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccC
Q 012804          402 KRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSG  437 (456)
Q Consensus       402 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  437 (456)
                      ++.+.|..++.++.+. .+++...|..++..+..++
T Consensus       455 ~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  455 EDADLARIILLEANDI-LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             cCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCC
Confidence            6677777777777655 3445556666665544443

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.17  E-value=0.083  Score=42.15  Aligned_cols=19  Identities=21%  Similarity=0.134  Sum_probs=8.8

Q ss_pred             HHHHccCChhHHHHHHHHH
Q 012804          396 HNLCKAKRLPSASKLLLSC  414 (456)
Q Consensus       396 ~~~~~~~~~~~A~~~~~~~  414 (456)
                      -.+....++..|.+.++..
T Consensus       198 lv~L~~~Dyv~aekc~r~~  216 (308)
T KOG1585|consen  198 LVYLYAHDYVQAEKCYRDC  216 (308)
T ss_pred             HHHhhHHHHHHHHHHhcch
Confidence            3344444455555555443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.10  E-value=0.034  Score=46.45  Aligned_cols=153  Identities=9%  Similarity=-0.041  Sum_probs=77.2

Q ss_pred             hcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHC-C--CccCHHHHHHHHHHHHhcCCHHH
Q 012804          229 RNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTD-G--VQLDIVSYNTLINLYCKEGKLEA  305 (456)
Q Consensus       229 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~--~~~~~~~~~~l~~~~~~~~~~~~  305 (456)
                      .+|++.+|-..++++++.- |.|...+...=.+|.-.|+.+.-...++++... +  .+-....-..+..++...|-+++
T Consensus       115 ~~g~~h~a~~~wdklL~d~-PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDDY-PTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccccHHHHHHHHHHHhC-chhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            3455555555666665542 555555555556666666666666666666543 1  11112222233344455666666


Q ss_pred             HHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Q 012804          306 AYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKI---GFDSNLEAYNCIVDRLGKDGKIDHAINVFES  382 (456)
Q Consensus       306 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  382 (456)
                      |.+.-++..+.+ +.|...-......+...|++.++.++..+-...   +.-.-...|....-.+...+.++.|+++|+.
T Consensus       194 AEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  194 AEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            666666665543 224444445555555666666666655443221   0000112233333344555666666666654


Q ss_pred             h
Q 012804          383 M  383 (456)
Q Consensus       383 ~  383 (456)
                      -
T Consensus       273 e  273 (491)
T KOG2610|consen  273 E  273 (491)
T ss_pred             H
Confidence            3

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.09  E-value=0.024  Score=49.89  Aligned_cols=68  Identities=9%  Similarity=-0.116  Sum_probs=55.3

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCH---HhHHHHHHHHHccCChhHHHHHHHHHHhC
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDV---VTYNMLIDAYCQFVSFDAGYTILNRMREA   71 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   71 (456)
                      .|.++..|+.+..+|...|++++|+..|+++++.++. +.   .+|..+..+|...|+.++|++.+++..+.
T Consensus        71 dP~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd-~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         71 DVKTAEDAVNLGLSLFSKGRVKDALAQFETALELNPN-PDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-chHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4667888888888999999999999999988887643 22   35888888888899999999888888874

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.05  E-value=0.17  Score=43.53  Aligned_cols=298  Identities=13%  Similarity=0.099  Sum_probs=156.1

Q ss_pred             HHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHH
Q 012804           79 TYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLC  158 (456)
Q Consensus        79 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  158 (456)
                      .|..+.......|+..-|..+++      .+|+..-   =+..+.+.|+.+.|   +.+..+.| .||. +|..++..--
T Consensus         2 S~a~IA~~A~~~GR~~LA~~LL~------~Ep~~~~---qVplLL~m~e~e~A---L~kAi~Sg-D~DL-i~~vLl~L~~   67 (319)
T PF04840_consen    2 SYAEIARKAYEEGRPKLATKLLE------LEPRASK---QVPLLLKMGEDELA---LNKAIESG-DTDL-IYLVLLHLKR   67 (319)
T ss_pred             CHHHHHHHHHHcChHHHHHHHHH------cCCChHH---HHHHHhcCCchHHH---HHHHHHcC-CccH-HHHHHHHHHH
Confidence            35566667777888877777653      2345432   24456667776666   44555555 4443 3444444322


Q ss_pred             hcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHH
Q 012804          159 KNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLE  238 (456)
Q Consensus       159 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  238 (456)
                      +. ...   +.+. +...  .|..   ..+...|++..+.+.-..+|.+-.+    ........+-.++.. .+.+.-..
T Consensus        68 ~l-~~s---~f~~-il~~--~p~a---~~l~~~~~r~~~~~~L~~~y~q~d~----~~~~a~~~l~~~~~~-~~~~~~~~  132 (319)
T PF04840_consen   68 KL-SLS---QFFK-ILNQ--NPVA---SNLYKKYCREQDRELLKDFYYQEDR----FQELANLHLQEALSQ-KDVEEKIS  132 (319)
T ss_pred             hC-CHH---HHHH-HHHh--Ccch---HHHHHHHHHhccHHHHHHHHHhcch----HHHHHHHHHHHHHhC-CChHHHHH
Confidence            22 211   2332 2222  1221   2344556676666665555543211    011122222223222 44444444


Q ss_pred             HHHHHHHcC-CCcChhhHHHHHHHHHHcCChHHHHHHHHHH---HHC-CCccCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 012804          239 ILSAMKRKG-YTFDGFGYCTVIAAFVKIGRLKEATDYMEQM---VTD-GVQLDIVSYNTLINLYCKEGKLEAAYLLLDEM  313 (456)
Q Consensus       239 ~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~---~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  313 (456)
                      .+..+.+.- -..+......+         .++..++++.-   .+. +......+.+..+.-+...|+...|.++-.+.
T Consensus       133 ~L~~a~~~y~~~k~~~f~~~~---------~e~q~~Ll~~Q~~Le~~~~~~f~~~Sl~~Ti~~li~~~~~k~A~kl~k~F  203 (319)
T PF04840_consen  133 FLKQAQKLYSKSKNDAFEAKL---------IEEQIKLLEYQKELEEKYNTNFVGLSLNDTIRKLIEMGQEKQAEKLKKEF  203 (319)
T ss_pred             HHHHHHHHHHhcchhHHHHHH---------HHHHHHHHHHHHHHHHHhccchhcCCHHHHHHHHHHCCCHHHHHHHHHHc
Confidence            444433221 01111111111         11222222211   111 11112234455566677788877777775555


Q ss_pred             HHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCChhhHHH
Q 012804          314 EKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSS  393 (456)
Q Consensus       314 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  393 (456)
                      .    .|+...|..-+.+++..++|++...+...   .   -++..|..++.+|.+.|+..+|..+..++..      ..
T Consensus       204 k----v~dkrfw~lki~aLa~~~~w~eL~~fa~s---k---KsPIGyepFv~~~~~~~~~~eA~~yI~k~~~------~~  267 (319)
T PF04840_consen  204 K----VPDKRFWWLKIKALAENKDWDELEKFAKS---K---KSPIGYEPFVEACLKYGNKKEASKYIPKIPD------EE  267 (319)
T ss_pred             C----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---C---CCCCChHHHHHHHHHCCCHHHHHHHHHhCCh------HH
Confidence            2    36778888888888888888877765432   1   1235677788888888888888888877322      45


Q ss_pred             HHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHcc
Q 012804          394 MVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHS  436 (456)
Q Consensus       394 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  436 (456)
                      -+..|.+.|++.+|.+..-+..      |...+..+...+-..
T Consensus       268 rv~~y~~~~~~~~A~~~A~~~k------d~~~L~~i~~~~~~~  304 (319)
T PF04840_consen  268 RVEMYLKCGDYKEAAQEAFKEK------DIDLLKQILKRCPGN  304 (319)
T ss_pred             HHHHHHHCCCHHHHHHHHHHcC------CHHHHHHHHHHCCCC
Confidence            6677888888888877654442      555555555444333

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.05  E-value=0.17  Score=43.51  Aligned_cols=110  Identities=15%  Similarity=0.099  Sum_probs=81.4

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHH
Q 012804          252 GFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDG  331 (456)
Q Consensus       252 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  331 (456)
                      ..+.+.-+.-+...|+...|.++-.+..    .|+..-|...+.+++..++|++-..+...      .-++.-|..++.+
T Consensus       177 ~~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~  246 (319)
T PF04840_consen  177 GLSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEA  246 (319)
T ss_pred             cCCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHH
Confidence            3455555667778888888887766653    36888899999999999999887766432      1245678889999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHH
Q 012804          332 LCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFE  381 (456)
Q Consensus       332 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  381 (456)
                      |.+.|+..+|..+..+     +++     ..-+..|.++|++.+|.+.--
T Consensus       247 ~~~~~~~~eA~~yI~k-----~~~-----~~rv~~y~~~~~~~~A~~~A~  286 (319)
T PF04840_consen  247 CLKYGNKKEASKYIPK-----IPD-----EERVEMYLKCGDYKEAAQEAF  286 (319)
T ss_pred             HHHCCCHHHHHHHHHh-----CCh-----HHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999888776     122     344677889999998877643

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

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=97.04  E-value=0.02  Score=41.74  Aligned_cols=53  Identities=19%  Similarity=0.186  Sum_probs=23.9

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhCCCHHHHHHHHHHhccC
Q 012804          333 CKAGNIKGARLHLEYMNKIGFDS---NLEAYNCIVDRLGKDGKIDHAINVFESMEVK  386 (456)
Q Consensus       333 ~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  386 (456)
                      .+.|++++|.+.|+.+... ++.   ....--.++.+|.+.|++++|...+++.++.
T Consensus        21 l~~~~Y~~A~~~le~L~~r-yP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirL   76 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTR-YPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRL   76 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhc-CCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            3445555555555555443 111   1233333444444555555555444444443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.99  E-value=0.14  Score=41.46  Aligned_cols=129  Identities=13%  Similarity=0.017  Sum_probs=79.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CCCCCHHHHHHHH
Q 012804          290 YNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKI-----GFDSNLEAYNCIV  364 (456)
Q Consensus       290 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~  364 (456)
                      .+.++..+.-.|.+.-....+.+.++...+.++.....+++.-.+.||.+.|...|+...+.     ++..+..+.....
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            34555555556666666777777776655556666677777777777777777777755433     2222333333333


Q ss_pred             HHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          365 DRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       365 ~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      ..|.-++++.+|...+.++...   ++...+.-+-++.-.|+..+|++.++.+++..
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~  316 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQD  316 (366)
T ss_pred             hheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccC
Confidence            4455666777777777666554   44555555555556677777777777777553

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.99  E-value=0.32  Score=45.57  Aligned_cols=109  Identities=15%  Similarity=0.079  Sum_probs=69.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 012804          289 SYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLG  368 (456)
Q Consensus       289 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  368 (456)
                      +.+.-+.-+...|+..+|.++-.+.+    -||...|..-+.++...+++++-+++-+...      ++.-|.-+...|.
T Consensus       686 Sl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~  755 (829)
T KOG2280|consen  686 SLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACL  755 (829)
T ss_pred             cHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHH
Confidence            34445555666777777777665553    4677777777777777777776665544322      1234555667777


Q ss_pred             hCCCHHHHHHHHHHhccCChhhHHHHHHHHHccCChhHHHHHHH
Q 012804          369 KDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLL  412 (456)
Q Consensus       369 ~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  412 (456)
                      +.|+.++|.+++.+.....     ..+.+|.+.|++.+|.++--
T Consensus       756 ~~~n~~EA~KYiprv~~l~-----ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  756 KQGNKDEAKKYIPRVGGLQ-----EKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             hcccHHHHhhhhhccCChH-----HHHHHHHHhccHHHHHHHHH
Confidence            7888888877776655431     45667777777777766543

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.96  E-value=0.023  Score=46.26  Aligned_cols=93  Identities=16%  Similarity=0.117  Sum_probs=61.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC------ChhhHHHHH
Q 012804          324 THTILIDGLCKAGNIKGARLHLEYMNKIG--FDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK------DSFTYSSMV  395 (456)
Q Consensus       324 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------~~~~~~~l~  395 (456)
                      .|+..+.. ...|++..|...|...++..  -.-....+..|..++...|++++|..+|..+.+.      -++.+..++
T Consensus       144 ~Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            45555543 45667777777777777651  0112344556777777777777777777776654      456677777


Q ss_pred             HHHHccCChhHHHHHHHHHHHc
Q 012804          396 HNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       396 ~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      ....+.|+.++|...|+++.+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            7777777777777777777765

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.94  E-value=0.0086  Score=51.32  Aligned_cols=126  Identities=16%  Similarity=0.037  Sum_probs=91.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhC-----CCCC---------CHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---Ch
Q 012804          326 TILIDGLCKAGNIKGARLHLEYMNKI-----GFDS---------NLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DS  388 (456)
Q Consensus       326 ~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~---------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~  388 (456)
                      ..-...+.+.|++..|..-|+++...     +.++         -...+..+..++.+.+++..|++..+.+...   |.
T Consensus       212 ke~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~  291 (397)
T KOG0543|consen  212 KERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDPNNV  291 (397)
T ss_pred             HHhhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCch
Confidence            34456788999999999999997643     1111         1234566777889999999999999988766   77


Q ss_pred             hhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCCh-HHHHHHHHHHHhc
Q 012804          389 FTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCR-REAKKIQSKIRMA  452 (456)
Q Consensus       389 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~  452 (456)
                      .....-..++...|+++.|+..|+++++..+. |..+-..+..+-.+.... +...++|..|-..
T Consensus       292 KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~-Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  292 KALYRRGQALLALGEYDLARDDFQKALKLEPS-NKAARAELIKLKQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             hHHHHHHHHHHhhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            78888899999999999999999999977433 555555555554444443 3447777777543

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.92  E-value=0.21  Score=42.47  Aligned_cols=129  Identities=16%  Similarity=0.159  Sum_probs=71.1

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHC-----CCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----cCCCcCH-----
Q 012804          257 TVIAAFVKIGRLKEATDYMEQMVTD-----GVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEK----QGFECDK-----  322 (456)
Q Consensus       257 ~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~-----  322 (456)
                      .+..++...+.++++.+.|+...+.     +......++..|...|.+..|+++|.-+.....+    .++..-.     
T Consensus       127 ~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~  206 (518)
T KOG1941|consen  127 SMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRA  206 (518)
T ss_pred             hHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHH
Confidence            3555666666777777777766543     1122334566677777777777777665554432    1211101     


Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHHhcc
Q 012804          323 YTHTILIDGLCKAGNIKGARLHLEYMNK----IGFDS-NLEAYNCIVDRLGKDGKIDHAINVFESMEV  385 (456)
Q Consensus       323 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  385 (456)
                      .....+..++...|..-.|.+.-++..+    .|-.+ .......+.+.|...|+.+.|..-|+++..
T Consensus       207 ~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  207 MSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHHH
Confidence            1222334455666666666666665433    23221 133445566677777877777777765543

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.92  E-value=0.18  Score=41.70  Aligned_cols=140  Identities=16%  Similarity=0.177  Sum_probs=61.3

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHH
Q 012804          297 YCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHA  376 (456)
Q Consensus       297 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  376 (456)
                      ....|++.+|..+|+........ +...-..++.+|...|+.+.|..++..+....-.........-+..+.+.....+.
T Consensus       144 ~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~  222 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEI  222 (304)
T ss_pred             hhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCH
Confidence            34455555555555555443221 23344445555555555555555555543221011111111122233333333322


Q ss_pred             HHHHHHhccC--ChhhHHHHHHHHHccCChhHHHHHHHHHHHc--CCCCCHHhHHHHHHHHHccCC
Q 012804          377 INVFESMEVK--DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS--GVRILKSAQKAVVDGLRHSGC  438 (456)
Q Consensus       377 ~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~  438 (456)
                      ..+-.+....  |...-..+...+...|+.++|.+.+-.+++.  |.. |...-..++..+..-|.
T Consensus       223 ~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk~lle~f~~~g~  287 (304)
T COG3118         223 QDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARKTLLELFEAFGP  287 (304)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHHHHHHHHHhcCC
Confidence            2222222222  4444455555666666666666655555444  222 44444455555555553

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.90  E-value=0.0031  Score=35.78  Aligned_cols=41  Identities=15%  Similarity=0.122  Sum_probs=31.4

Q ss_pred             hhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHH
Q 012804          389 FTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVV  430 (456)
Q Consensus       389 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~  430 (456)
                      .+|..+..+|.+.|++++|+++|+++++..+. |+..+..++
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~-~~~a~~~La   42 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPD-DPEAWRALA   42 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-CHHHHHHhh
Confidence            46778888888999999999999998887543 666665554

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.81  E-value=0.16  Score=46.66  Aligned_cols=177  Identities=16%  Similarity=0.092  Sum_probs=112.2

Q ss_pred             HHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCC-CCCC-----HhHHHHHHHHHHc----CCChhHH
Q 012804           27 EAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAG-ISPD-----VVTYNSLIAGATR----NSLLSCS   96 (456)
Q Consensus        27 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~-----~~~~~~l~~~~~~----~~~~~~a   96 (456)
                      .-+|.-++.. ++|.   ...++....=.|+-+.+++.+....+.+ +...     .-.|...+..++.    ....+.+
T Consensus       177 ~G~f~L~lSl-LPp~---~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a  252 (468)
T PF10300_consen  177 FGLFNLVLSL-LPPK---VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEA  252 (468)
T ss_pred             HHHHHHHHHh-CCHH---HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHH
Confidence            3455555543 2333   4567777777888888888888776542 2111     1234555544443    4567888


Q ss_pred             HHHHHHHHHCCCCCCHHhHH-HHHHHHHhcCChhHHHHHHHHHHhCC--C-CCChhHHHHHHHHHHhcCChHHHHHHHHH
Q 012804           97 LDLLDEMLEMGIPPDVWSYN-SLMHCLFQLGKPDEANRVFQDMICGD--L-TPCTATFNIMLNGLCKNRYTDNALRMFRG  172 (456)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~--~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  172 (456)
                      .++++.+.++-  |+...|. .-.+.+...|++++|++.|++.....  . +.....+-.+...+.-.++|++|...|..
T Consensus       253 ~~lL~~~~~~y--P~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~  330 (468)
T PF10300_consen  253 EELLEEMLKRY--PNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLR  330 (468)
T ss_pred             HHHHHHHHHhC--CCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHH
Confidence            89999888863  4544443 34466777899999999999765421  1 12234455566778888999999999999


Q ss_pred             HHhCCCCCcHHHHHHHH-HHHHHcCCH-------HHHHHHHHHHhh
Q 012804          173 LQKHGFVPELVTYNILI-KGLCKAGRL-------RTARWILKELGD  210 (456)
Q Consensus       173 ~~~~~~~~~~~~~~~l~-~~~~~~~~~-------~~a~~~~~~~~~  210 (456)
                      +.+.+-- +...|.-+. .++...++.       ++|..+|.+...
T Consensus       331 L~~~s~W-Ska~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  331 LLKESKW-SKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHhcccc-HHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            8886322 444444433 344556666       888888887654

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=96.78  E-value=0.24  Score=41.04  Aligned_cols=139  Identities=14%  Similarity=0.112  Sum_probs=79.3

Q ss_pred             HHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHH
Q 012804          261 AFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKG  340 (456)
Q Consensus       261 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  340 (456)
                      .....|++.+|...|......... +......++.+|...|+.+.|..++..+...--.........-+..+.+.....+
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            345667777777777777765333 3455566777777778877777777776543111111222222334444444444


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC-----ChhhHHHHHHHHHccC
Q 012804          341 ARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK-----DSFTYSSMVHNLCKAK  402 (456)
Q Consensus       341 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~l~~~~~~~~  402 (456)
                      ...+-+..-..  +.|...-..+...+...|+.++|.+.+-.+...     +...-..++..+.--|
T Consensus       222 ~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g  286 (304)
T COG3118         222 IQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFG  286 (304)
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcC
Confidence            44444444332  446677777777788888888887776655544     3334444444444333

>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=96.77  E-value=0.036  Score=40.04  Aligned_cols=50  Identities=8%  Similarity=0.102  Sum_probs=33.3

Q ss_pred             CCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHH
Q 012804          318 FECDKYTHTILIDGLCKAGNIKGARLHLEYMNKI-GFDSNLEAYNCIVDRL  367 (456)
Q Consensus       318 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~  367 (456)
                      ..|+..++.+++.+|+..+++..|.++.+...+. +++.+..+|..|+.-.
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            4566777777777777777777777777775543 5566666776666643

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.75  E-value=0.35  Score=42.48  Aligned_cols=141  Identities=16%  Similarity=0.071  Sum_probs=98.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 012804          289 SYNTLINLYCKEGKLEAAYLLLDEMEKQG-FECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRL  367 (456)
Q Consensus       289 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  367 (456)
                      +|...+..-.+....+.|..+|-++.+.+ +.++...+++++..++ .|+...|..+|+.-... ++.+..-....+..+
T Consensus       399 v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~-f~d~~~y~~kyl~fL  476 (660)
T COG5107         399 VFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK-FPDSTLYKEKYLLFL  476 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh-CCCchHHHHHHHHHH
Confidence            44555666666777888888888888877 4566777777777554 57788888888875544 344444445566677


Q ss_pred             HhCCCHHHHHHHHHHhccC-----ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 012804          368 GKDGKIDHAINVFESMEVK-----DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGL  433 (456)
Q Consensus       368 ~~~g~~~~a~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  433 (456)
                      .+-|+-..|..+|+.....     -...|..++.--..-|+...+..+-+++.+.  -|...+.....+-|
T Consensus       477 i~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry  545 (660)
T COG5107         477 IRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRY  545 (660)
T ss_pred             HHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHH
Confidence            7888888888888866555     2567888888888888888888888888755  34554544444444

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.74  E-value=0.15  Score=38.07  Aligned_cols=126  Identities=15%  Similarity=0.183  Sum_probs=69.4

Q ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHc
Q 012804           10 LNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATR   89 (456)
Q Consensus        10 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   89 (456)
                      ...++..+...+.+.....+++.+...+. .+...++.++..|++.+ ..+..+.+..   .   .+......+++.|.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~---~---~~~yd~~~~~~~c~~   81 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN---K---SNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh---c---cccCCHHHHHHHHHH
Confidence            44566777777777777777777777653 46667777777777553 2333333331   1   223334446666666


Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhc-CChhHHHHHHHHHHhCCCCCChhHHHHHHHHHH
Q 012804           90 NSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQL-GKPDEANRVFQDMICGDLTPCTATFNIMLNGLC  158 (456)
Q Consensus        90 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  158 (456)
                      .+.++++.-++.++..         +...+..+... ++++.|.+.+.+      ..+...|..++..+.
T Consensus        82 ~~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~------~~~~~lw~~~~~~~l  136 (140)
T smart00299       82 AKLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVK------QNNPELWAEVLKALL  136 (140)
T ss_pred             cCcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHh------CCCHHHHHHHHHHHH
Confidence            6666666666655432         12223333333 566666665554      123445555555443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.73  E-value=0.023  Score=50.07  Aligned_cols=64  Identities=16%  Similarity=0.041  Sum_probs=49.8

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-H---HHHHHHHHHHHhCCCHHHHHHHHHHhccC
Q 012804          321 DKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSN-L---EAYNCIVDRLGKDGKIDHAINVFESMEVK  386 (456)
Q Consensus       321 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  386 (456)
                      +...++.+..+|...|++++|+..|++.++.  .|+ .   ..|..+..+|...|+.++|+..++++.+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4567788888888888888888888888775  344 3   34788888888888888888888887775

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.73  E-value=0.33  Score=41.85  Aligned_cols=247  Identities=12%  Similarity=0.071  Sum_probs=104.0

Q ss_pred             cCChhHHHHHHHHHHhCCCCCChhH--HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHH
Q 012804          125 LGKPDEANRVFQDMICGDLTPCTAT--FNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTAR  202 (456)
Q Consensus       125 ~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  202 (456)
                      .|+++.|.+-|+.|...   |....  ...|.-...+.|+.+.|..+-+..-.. -+.-...+...+...+..|+|+.|+
T Consensus       133 eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~-Ap~l~WA~~AtLe~r~~~gdWd~Al  208 (531)
T COG3898         133 EGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEK-APQLPWAARATLEARCAAGDWDGAL  208 (531)
T ss_pred             cCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhh-ccCCchHHHHHHHHHHhcCChHHHH
Confidence            45566666666655531   21111  111222223455555555555554443 1222344455555555666666666


Q ss_pred             HHHHHHhhCC-CCCCHHH--HHHHHHHH---HhcCchhHHHHHHHHHHHcCCCcCh-hhHHHHHHHHHHcCChHHHHHHH
Q 012804          203 WILKELGDSG-HAPNAIT--YTTIMKCC---FRNRKYKLGLEILSAMKRKGYTFDG-FGYCTVIAAFVKIGRLKEATDYM  275 (456)
Q Consensus       203 ~~~~~~~~~~-~~~~~~~--~~~l~~~~---~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~  275 (456)
                      ++++.-.... +.++..-  -..|+.+-   .-..+...|...-.+..+.  .|+- ..-.....++.+.|+..++-.++
T Consensus       209 kLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~il  286 (531)
T COG3898         209 KLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKIL  286 (531)
T ss_pred             HHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHH
Confidence            6555443321 1122111  11111111   1122334444443333333  2221 11222334555666666666666


Q ss_pred             HHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCc-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 012804          276 EQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQ-GFEC-DKYTHTILIDGLCKAGNIKGARLHLEYMNKIGF  353 (456)
Q Consensus       276 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  353 (456)
                      +.+=+..+  .+.++.  +..+.+.|+  .+..-+++.... ..+| +......+.++-...|++..|..--+...+.  
T Consensus       287 E~aWK~eP--HP~ia~--lY~~ar~gd--ta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~--  358 (531)
T COG3898         287 ETAWKAEP--HPDIAL--LYVRARSGD--TALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAARE--  358 (531)
T ss_pred             HHHHhcCC--ChHHHH--HHHHhcCCC--cHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhh--
Confidence            66555422  222221  112223333  233333332210 1122 3344445555555566665555555554442  


Q ss_pred             CCCHHHHHHHHHHHH-hCCCHHHHHHHHHHhcc
Q 012804          354 DSNLEAYNCIVDRLG-KDGKIDHAINVFESMEV  385 (456)
Q Consensus       354 ~~~~~~~~~l~~~~~-~~g~~~~a~~~~~~~~~  385 (456)
                      .|....|..+.+.-. ..|+-.++...+.+...
T Consensus       359 ~pres~~lLlAdIeeAetGDqg~vR~wlAqav~  391 (531)
T COG3898         359 APRESAYLLLADIEEAETGDQGKVRQWLAQAVK  391 (531)
T ss_pred             CchhhHHHHHHHHHhhccCchHHHHHHHHHHhc
Confidence            455555555554432 33666666666555443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.72  E-value=0.047  Score=47.06  Aligned_cols=126  Identities=17%  Similarity=0.096  Sum_probs=97.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHc-----CCCcC---------HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 012804          291 NTLINLYCKEGKLEAAYLLLDEMEKQ-----GFECD---------KYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSN  356 (456)
Q Consensus       291 ~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~---------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  356 (456)
                      ..-...|.+.|++..|...|++....     +..+.         ..++..+..++.+.+++..|+......+..+ ++|
T Consensus       212 ke~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N  290 (397)
T KOG0543|consen  212 KERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNN  290 (397)
T ss_pred             HHhhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCc
Confidence            44567899999999999999997652     12211         2357778888999999999999999999986 788


Q ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChh-HHHHHHHHHHHc
Q 012804          357 LEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLP-SASKLLLSCLKS  417 (456)
Q Consensus       357 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~-~A~~~~~~~~~~  417 (456)
                      ...+..=..++...|+++.|+..|+++.+.   |..+-..++..-.+..++. ...++|..|...
T Consensus       291 ~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  291 VKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             hhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            888888899999999999999999999887   5455555655555544443 446788888754

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.72  E-value=0.0057  Score=34.67  Aligned_cols=41  Identities=12%  Similarity=0.135  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHH
Q 012804            8 RLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLI   49 (456)
Q Consensus         8 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~   49 (456)
                      .++..+...|.+.|++++|.++|+++++..+. |...+..+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~-~~~a~~~La   42 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPD-DPEAWRALA   42 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-CHHHHHHhh
Confidence            46777888888888888888888888887653 555555443

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.64  E-value=0.26  Score=39.50  Aligned_cols=87  Identities=11%  Similarity=0.127  Sum_probs=48.2

Q ss_pred             hHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 012804            7 TRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAG   86 (456)
Q Consensus         7 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   86 (456)
                      ...|.....+|...+++++|...+.++.+. ...+...|.. .      ..++.|.-+.+++.+.  +--+..|+.....
T Consensus        31 as~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfhA-A------KayEqaamLake~~kl--sEvvdl~eKAs~l  100 (308)
T KOG1585|consen   31 ASLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFHA-A------KAYEQAAMLAKELSKL--SEVVDLYEKASEL  100 (308)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHHH-H------HHHHHHHHHHHHHHHh--HHHHHHHHHHHHH
Confidence            456777778888888898888888877642 2223322221 1      2234444555555443  1123345555556


Q ss_pred             HHcCCChhHHHHHHHHH
Q 012804           87 ATRNSLLSCSLDLLDEM  103 (456)
Q Consensus        87 ~~~~~~~~~a~~~~~~~  103 (456)
                      |...|..+.|-..+++.
T Consensus       101 Y~E~GspdtAAmaleKA  117 (308)
T KOG1585|consen  101 YVECGSPDTAAMALEKA  117 (308)
T ss_pred             HHHhCCcchHHHHHHHH
Confidence            66666666655555543

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.64  E-value=0.05  Score=44.39  Aligned_cols=97  Identities=18%  Similarity=0.139  Sum_probs=72.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC--cCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CC-CCCHHHHHHHH
Q 012804          289 SYNTLINLYCKEGKLEAAYLLLDEMEKQGFE--CDKYTHTILIDGLCKAGNIKGARLHLEYMNKI-GF-DSNLEAYNCIV  364 (456)
Q Consensus       289 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~-~~~~~~~~~l~  364 (456)
                      .|+.-+. +.+.|++..|...|...++....  -....+.+|..++...|++++|..+|..+.+. +- +.-++.+-.|.
T Consensus       144 ~Y~~A~~-~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALD-LYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHH-HHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            5665554 45677899999999988875321  13456778888999999999999999888764 11 22257778888


Q ss_pred             HHHHhCCCHHHHHHHHHHhccC
Q 012804          365 DRLGKDGKIDHAINVFESMEVK  386 (456)
Q Consensus       365 ~~~~~~g~~~~a~~~~~~~~~~  386 (456)
                      .+..+.|+.++|...|+++.+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            8888999999999999988876

>PRK11906 transcriptional regulator; Provisional

Probab=96.54  E-value=0.34  Score=43.11  Aligned_cols=145  Identities=14%  Similarity=0.017  Sum_probs=75.1

Q ss_pred             hHHHHHHHHHHHHC-CCccC-HHHHHHHHHHHHhc---------CCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcC
Q 012804          268 LKEATDYMEQMVTD-GVQLD-IVSYNTLINLYCKE---------GKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAG  336 (456)
Q Consensus       268 ~~~a~~~~~~~~~~-~~~~~-~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  336 (456)
                      .+.|..+|.+..+. ...|+ ...|..+..++...         .+..+|.++.+...+.+. .|......+..+....+
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~-~Da~a~~~~g~~~~~~~  352 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITT-VDGKILAIMGLITGLSG  352 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHhhc
Confidence            45566666666622 12222 34444444433321         123445555555555542 25666666666556666


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCChh-----hHHHHHHHHHccCChhHHHHHH
Q 012804          337 NIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSF-----TYSSMVHNLCKAKRLPSASKLL  411 (456)
Q Consensus       337 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-----~~~~l~~~~~~~~~~~~A~~~~  411 (456)
                      +++.|...|++....+ |.....|........-+|+.++|.+.+++....+|.     .....+..|+. ...++|++++
T Consensus       353 ~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~-~~~~~~~~~~  430 (458)
T PRK11906        353 QAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVP-NPLKNNIKLY  430 (458)
T ss_pred             chhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcC-CchhhhHHHH
Confidence            6777777777766653 334555555555666667777777777765555322     12222223333 3456666665


Q ss_pred             HHHH
Q 012804          412 LSCL  415 (456)
Q Consensus       412 ~~~~  415 (456)
                      .+-.
T Consensus       431 ~~~~  434 (458)
T PRK11906        431 YKET  434 (458)
T ss_pred             hhcc
Confidence            5443

>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=96.42  E-value=0.1  Score=37.80  Aligned_cols=47  Identities=13%  Similarity=0.082  Sum_probs=20.5

Q ss_pred             CCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHc-CCCcChhhHHHHHH
Q 012804          214 APNAITYTTIMKCCFRNRKYKLGLEILSAMKRK-GYTFDGFGYCTVIA  260 (456)
Q Consensus       214 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~  260 (456)
                      .|+..+..+++.+|+..+++..|.++.+...+. +++.+..+|..+++
T Consensus        49 ~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   49 YPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            344444444444444444444444444444433 33333344444443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.33  E-value=1.1  Score=42.99  Aligned_cols=150  Identities=9%  Similarity=0.080  Sum_probs=84.3

Q ss_pred             HHHHHHHHHccCChhHHHHHHHHHHhCCCCCCH--hHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHH
Q 012804           45 YNMLIDAYCQFVSFDAGYTILNRMREAGISPDV--VTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCL  122 (456)
Q Consensus        45 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  122 (456)
                      ...-+..+.+..-++-|+.+-+.   .+..++.  .........+.+.|++++|...|-+-+.. ++|.     .++.-|
T Consensus       337 le~kL~iL~kK~ly~~Ai~LAk~---~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kf  407 (933)
T KOG2114|consen  337 LETKLDILFKKNLYKVAINLAKS---QHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKF  407 (933)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHh---cCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHh
Confidence            34556666677777777666543   2212221  11222334445677788777776555432 2222     245556


Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHH
Q 012804          123 FQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTAR  202 (456)
Q Consensus       123 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  202 (456)
                      ....++.+--.+++.+.+.| -.+...-..|+.+|.+.++.++-.+..+... .|..  ..-....+..+.+.+-.++|.
T Consensus       408 Ldaq~IknLt~YLe~L~~~g-la~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~  483 (933)
T KOG2114|consen  408 LDAQRIKNLTSYLEALHKKG-LANSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAE  483 (933)
T ss_pred             cCHHHHHHHHHHHHHHHHcc-cccchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHH
Confidence            66666667777777777777 3445555677778888887777766665554 2211  112334555566666666665


Q ss_pred             HHHHH
Q 012804          203 WILKE  207 (456)
Q Consensus       203 ~~~~~  207 (456)
                      .+-..
T Consensus       484 ~LA~k  488 (933)
T KOG2114|consen  484 LLATK  488 (933)
T ss_pred             HHHHH
Confidence            55443

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.32  E-value=0.18  Score=45.58  Aligned_cols=159  Identities=13%  Similarity=0.041  Sum_probs=93.2

Q ss_pred             HHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChh
Q 012804           15 CTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLS   94 (456)
Q Consensus        15 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   94 (456)
                      ....-+|+++++.++.+.-.-. +..+....+.++..+.+.|..+.|+++-..-.            .-.....+.|+++
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll-~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~  335 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLL-PNIPKDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLD  335 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTG-GG--HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HH
T ss_pred             HHHHHcCChhhhhhhhhhhhhc-ccCChhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHH
Confidence            4455677888877766521111 11124457778888888888888876653321            1244556778887


Q ss_pred             HHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 012804           95 CSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQ  174 (456)
Q Consensus        95 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  174 (456)
                      .|.++.+++      .+...|..|.....+.|+++-|++.|.+..         -|..|+-.|.-.|+.+...++.+...
T Consensus       336 ~A~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~~~a~  400 (443)
T PF04053_consen  336 IALEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKLAKIAE  400 (443)
T ss_dssp             HHHHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHHHHHHH
Confidence            777765432      366678888888888888888888887753         34566667777788777777777766


Q ss_pred             hCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 012804          175 KHGFVPELVTYNILIKGLCKAGRLRTARWILKE  207 (456)
Q Consensus       175 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  207 (456)
                      ..|-      ++....++.-.|+.++..+++..
T Consensus       401 ~~~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  401 ERGD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HccC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            6532      44445555666777777766654

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.32  E-value=0.26  Score=36.19  Aligned_cols=82  Identities=12%  Similarity=-0.008  Sum_probs=49.6

Q ss_pred             hHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCC--CHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHH
Q 012804            7 TRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLP--DVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLI   84 (456)
Q Consensus         7 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   84 (456)
                      +..+-.-.....+.|++++|.+.|+.+..+-+..  ...+.-.++.++.+.+++++|...+++..+....-....|...+
T Consensus        10 ~~~ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~   89 (142)
T PF13512_consen   10 PQELYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYM   89 (142)
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence            3333344556667788888888888777654321  23355567777777888888888887777764322223344444


Q ss_pred             HHHH
Q 012804           85 AGAT   88 (456)
Q Consensus        85 ~~~~   88 (456)
                      .+++
T Consensus        90 ~gL~   93 (142)
T PF13512_consen   90 RGLS   93 (142)
T ss_pred             HHHH
Confidence            4443

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.23  E-value=0.23  Score=44.93  Aligned_cols=27  Identities=11%  Similarity=0.120  Sum_probs=12.9

Q ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 012804          181 ELVTYNILIKGLCKAGRLRTARWILKE  207 (456)
Q Consensus       181 ~~~~~~~l~~~~~~~~~~~~a~~~~~~  207 (456)
                      +...|..|.....+.|+++-|.+.|.+
T Consensus       346 ~~~~W~~Lg~~AL~~g~~~lAe~c~~k  372 (443)
T PF04053_consen  346 DPEKWKQLGDEALRQGNIELAEECYQK  372 (443)
T ss_dssp             THHHHHHHHHHHHHTTBHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence            334444455555555555555444443

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.22  E-value=0.33  Score=36.18  Aligned_cols=84  Identities=21%  Similarity=0.151  Sum_probs=42.5

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhc
Q 012804          256 CTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKA  335 (456)
Q Consensus       256 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  335 (456)
                      ..++..+...+.......+++.+...+. .+....+.++..|++.+ ..+....+..      ..+......++..|.+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHc
Confidence            3455555555666666666666665543 45556666666666543 2233333321      11223334455555555


Q ss_pred             CCHHHHHHHHHH
Q 012804          336 GNIKGARLHLEY  347 (456)
Q Consensus       336 ~~~~~a~~~~~~  347 (456)
                      +-++++..++.+
T Consensus        83 ~l~~~~~~l~~k   94 (140)
T smart00299       83 KLYEEAVELYKK   94 (140)
T ss_pred             CcHHHHHHHHHh
Confidence            555555555544

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.21  E-value=0.8  Score=40.44  Aligned_cols=84  Identities=4%  Similarity=-0.077  Sum_probs=61.1

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHH
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNS   82 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   82 (456)
                      .|.|..+|-.||+-+..+|.+++..++++++..-- +--..+|..-+..-...+++.....+|.+.....  .+...|..
T Consensus        38 NPtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~pf-p~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~--l~ldLW~l  114 (660)
T COG5107          38 NPTNILSYFQLIQYLETQESMDAEREMYEQLSSPF-PIMEHAWRLYMSGELARKDFRSVESLFGRCLKKS--LNLDLWML  114 (660)
T ss_pred             CchhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCC-ccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhh--ccHhHHHH
Confidence            57788999999999999999999999999986432 2233467776766666678888888888877653  34556666


Q ss_pred             HHHHHHc
Q 012804           83 LIAGATR   89 (456)
Q Consensus        83 l~~~~~~   89 (456)
                      .+....+
T Consensus       115 Yl~YIRr  121 (660)
T COG5107         115 YLEYIRR  121 (660)
T ss_pred             HHHHHHh
Confidence            5554444

>PRK11906 transcriptional regulator; Provisional

Probab=96.12  E-value=0.22  Score=44.28  Aligned_cols=159  Identities=13%  Similarity=0.064  Sum_probs=107.6

Q ss_pred             HHH--HHHHHHHHhc--C---CHHHHHHHHHHHHH-cCCCcC-HHhHHHHHHHHHhc---------CCHHHHHHHHHHHH
Q 012804          288 VSY--NTLINLYCKE--G---KLEAAYLLLDEMEK-QGFECD-KYTHTILIDGLCKA---------GNIKGARLHLEYMN  349 (456)
Q Consensus       288 ~~~--~~l~~~~~~~--~---~~~~a~~~~~~~~~-~~~~~~-~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~  349 (456)
                      ..|  ...+++....  +   ..+.|..+|.+... ....|+ ...|..+..++...         .+..+|.++.++..
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            445  4455554432  2   35678888998882 223443 44555555544321         23456778888888


Q ss_pred             hCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCC-CCHHh
Q 012804          350 KIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVR-ILKSA  425 (456)
Q Consensus       350 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~  425 (456)
                      +.+ +.|+.....+..+..-.|+++.|...|+++...   ...+|......+.-.|+.++|.+.++++++..+. .....
T Consensus       332 eld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~  410 (458)
T PRK11906        332 DIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVV  410 (458)
T ss_pred             hcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHH
Confidence            876 778888888888888889999999999998876   5567777888888999999999999998866432 12334


Q ss_pred             HHHHHHHHHccCChHHHHHHHHH
Q 012804          426 QKAVVDGLRHSGCRREAKKIQSK  448 (456)
Q Consensus       426 ~~~l~~~~~~~g~~~~A~~~~~~  448 (456)
                      ....++.|+..+ .++|.+++-+
T Consensus       411 ~~~~~~~~~~~~-~~~~~~~~~~  432 (458)
T PRK11906        411 IKECVDMYVPNP-LKNNIKLYYK  432 (458)
T ss_pred             HHHHHHHHcCCc-hhhhHHHHhh
Confidence            444445666554 5667666544

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.09  E-value=0.42  Score=36.11  Aligned_cols=131  Identities=12%  Similarity=0.116  Sum_probs=80.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHH-hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH-HHHHH
Q 012804          286 DIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKY-THTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLE-AYNCI  363 (456)
Q Consensus       286 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l  363 (456)
                      +...|...++ +.+.+..++|+.-|..+.+.|...-+. ............|+...|...|.++-.....|-.. -...|
T Consensus        58 sgd~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARl  136 (221)
T COG4649          58 SGDAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARL  136 (221)
T ss_pred             chHHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHH
Confidence            4455555444 356778888999999988876542211 12223344567788888999998887653233221 11111


Q ss_pred             --HHHHHhCCCHHHHHHHHHHhccC----ChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          364 --VDRLGKDGKIDHAINVFESMEVK----DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       364 --~~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                        ...+...|.+++...-.+.+...    ....-..|.-+-.+.|++.+|.+.|+....-
T Consensus       137 raa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         137 RAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence              22456778888877777665544    2233455666667888888888888887654

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.98  E-value=0.13  Score=36.52  Aligned_cols=55  Identities=15%  Similarity=0.050  Sum_probs=34.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 012804          296 LYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKI  351 (456)
Q Consensus       296 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  351 (456)
                      +....|+.+.|++.|.+....- +-....|+.-.+++.-.|+.++|..-+.+..+.
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleL  106 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALEL  106 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHh
Confidence            4556666777776666666542 225556666666666666666666666666554

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.79  E-value=1  Score=38.15  Aligned_cols=115  Identities=14%  Similarity=0.066  Sum_probs=48.2

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhC---CCCCChhHHHHHHHHHHhcCChHHH
Q 012804           90 NSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICG---DLTPCTATFNIMLNGLCKNRYTDNA  166 (456)
Q Consensus        90 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a  166 (456)
                      .|+..+|-..++++.+. .|.|...+...=.+|.-.|+...-...++++...   ++|-.......+.-++...|-+++|
T Consensus       116 ~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~dA  194 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            44444444444444443 2234444444444444455555444444444432   1111112222223333444555555


Q ss_pred             HHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHH
Q 012804          167 LRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILK  206 (456)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  206 (456)
                      ++.-++..+.+ +.|...-.+....+-..|++.++.++..
T Consensus       195 Ek~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~  233 (491)
T KOG2610|consen  195 EKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMY  233 (491)
T ss_pred             HHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHH
Confidence            55555444432 1233333344444444455555444443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.77  E-value=1.3  Score=39.94  Aligned_cols=59  Identities=14%  Similarity=0.018  Sum_probs=31.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhc
Q 012804          326 TILIDGLCKAGNIKGARLHLEYMNKIG-FDSNLEAYNCIVDRLGKDGKIDHAINVFESME  384 (456)
Q Consensus       326 ~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  384 (456)
                      ..+..++.+.|+.++|++.++++.+.. ...+..+...|+.++...+.+.++..++.+..
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYd  322 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYD  322 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhc
Confidence            344455556666666666666665431 11123344555666666666666666665543

The molecular function of this protein is uncertain.

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.72  E-value=0.032  Score=29.27  Aligned_cols=30  Identities=13%  Similarity=-0.093  Sum_probs=14.1

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhcccC
Q 012804          426 QKAVVDGLRHSGCRREAKKIQSKIRMAKIS  455 (456)
Q Consensus       426 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  455 (456)
                      +..++.++...|++++|++.+++..+..+.
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~l~p~   33 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALELDPN   33 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHCcC
Confidence            344444555555555555555555444443

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 ....

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=95.71  E-value=1.4  Score=39.08  Aligned_cols=405  Identities=11%  Similarity=0.047  Sum_probs=214.8

Q ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHH--HHccCChhHHHHHHHHHHhC--CCCCC---------
Q 012804           10 LNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDA--YCQFVSFDAGYTILNRMREA--GISPD---------   76 (456)
Q Consensus        10 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~--~~~~~---------   76 (456)
                      -+.++++|... +.+.-...+....+..+  + ..|-.+..+  +.+.+.+++|.+.+......  +..|.         
T Consensus        49 ~grilnAffl~-nld~Me~~l~~l~~~~~--~-s~~l~LF~~L~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l  124 (549)
T PF07079_consen   49 GGRILNAFFLN-NLDLMEKQLMELRQQFG--K-SAYLPLFKALVAYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQL  124 (549)
T ss_pred             hhHHHHHHHHh-hHHHHHHHHHHHHHhcC--C-chHHHHHHHHHHHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHH
Confidence            34566776643 44444444444444322  2 223333333  34678899999888877654  32221         


Q ss_pred             ---HhHHHHHHHHHHcCCChhHHHHHHHHHHHC----CCCCCHHhHHHHHHHHHhcC--------C-------hhHHHHH
Q 012804           77 ---VVTYNSLIAGATRNSLLSCSLDLLDEMLEM----GIPPDVWSYNSLMHCLFQLG--------K-------PDEANRV  134 (456)
Q Consensus        77 ---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~--------~-------~~~a~~~  134 (456)
                         -..=+..+.++...|++.++..+++++...    ...-+..+|+.++-.+.+.=        .       ++.+.-.
T Consensus       125 ~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY  204 (549)
T PF07079_consen  125 FSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFY  204 (549)
T ss_pred             hhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHH
Confidence               111245677888999999999998888764    33467888887665554421        1       1122222


Q ss_pred             HHHHHhC------CCCCChhHHHHHHHHHHhc--CChHHHHHHHHHHHhCCCCCcHH-HHHHHHHHHHHcCCHHHHHHHH
Q 012804          135 FQDMICG------DLTPCTATFNIMLNGLCKN--RYTDNALRMFRGLQKHGFVPELV-TYNILIKGLCKAGRLRTARWIL  205 (456)
Q Consensus       135 ~~~~~~~------~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~  205 (456)
                      ..++...      .+.|....+..++....-.  .+..--.++++.....-+.|+-. ....+...+..  +.+++..+-
T Consensus       205 ~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~c  282 (549)
T PF07079_consen  205 LKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFC  282 (549)
T ss_pred             HHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHH
Confidence            2222211      1223223333333222211  11222233333333333334422 22333333333  455555554


Q ss_pred             HHHhhCCCC----CCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHH-------HHHHHHH----HcCChHH
Q 012804          206 KELGDSGHA----PNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYC-------TVIAAFV----KIGRLKE  270 (456)
Q Consensus       206 ~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-------~l~~~~~----~~~~~~~  270 (456)
                      +.+....+.    .-..++..++....+.++...|.+.+.-+.-.+  |+...-.       .+-...+    ...+...
T Consensus       283 e~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ld--p~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~  360 (549)
T PF07079_consen  283 EAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKILD--PRISVSEKLLLSPKVLQDIVCEDDESYTKLRD  360 (549)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcC--CcchhhhhhhcCHHHHHHHHhcchHHHHHHHH
Confidence            444332211    123567778888888999999988888777553  2221111       1111111    1112333


Q ss_pred             HHHHHHHHHHCCCccCHHHHHHH---HHHHHhcCC-HHHHHHHHHHHHHcCCCcCHHh----HHHHHHHHH---hcCCHH
Q 012804          271 ATDYMEQMVTDGVQLDIVSYNTL---INLYCKEGK-LEAAYLLLDEMEKQGFECDKYT----HTILIDGLC---KAGNIK  339 (456)
Q Consensus       271 a~~~~~~~~~~~~~~~~~~~~~l---~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~----~~~l~~~~~---~~~~~~  339 (456)
                      -..+|+.+...++. ......-+   ..-+-+.|. -++|+.+++.+.+-. .-|..+    +..+=.+|.   ....+.
T Consensus       361 yL~lwe~~qs~DiD-rqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft-~yD~ec~n~v~~fvKq~Y~qaLs~~~~~  438 (549)
T PF07079_consen  361 YLNLWEEIQSYDID-RQQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFT-NYDIECENIVFLFVKQAYKQALSMHAIP  438 (549)
T ss_pred             HHHHHHHHHhhccc-HHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHHHHHHhhhhHH
Confidence            44555555554332 11112222   333455665 788999999887642 113333    222333343   234456


Q ss_pred             HHHHHHHHHHhCCCCCC----HHHHHHHHHH--HHhCCCHHHHHHH--HHHhccCChhhHHHHHHHHHccCChhHHHHHH
Q 012804          340 GARLHLEYMNKIGFDSN----LEAYNCIVDR--LGKDGKIDHAINV--FESMEVKDSFTYSSMVHNLCKAKRLPSASKLL  411 (456)
Q Consensus       340 ~a~~~~~~~~~~~~~~~----~~~~~~l~~~--~~~~g~~~~a~~~--~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  411 (456)
                      +-..+-.-+.+.|++|-    .+.-+.|.++  +...|++.++.-.  |-....+++.+|..++-++....++++|...+
T Consensus       439 rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l  518 (549)
T PF07079_consen  439 RLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAPSPQAYRLLGLCLMENKRYQEAWEYL  518 (549)
T ss_pred             HHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            66666666677787663    4455555553  4568999887643  33344458889999999999999999999998


Q ss_pred             HHHHHcCCCCCHHhHHHH
Q 012804          412 LSCLKSGVRILKSAQKAV  429 (456)
Q Consensus       412 ~~~~~~~~~~~~~~~~~l  429 (456)
                      ...     +|+..++++-
T Consensus       519 ~~L-----P~n~~~~dsk  531 (549)
T PF07079_consen  519 QKL-----PPNERMRDSK  531 (549)
T ss_pred             HhC-----CCchhhHHHH
Confidence            865     5666666643

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.61  E-value=0.54  Score=33.70  Aligned_cols=61  Identities=20%  Similarity=0.279  Sum_probs=29.0

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 012804          257 TVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGF  318 (456)
Q Consensus       257 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  318 (456)
                      ..+..+...|.-++-.+++..+.+. -.+++.....+..+|.+.|+..++.+++.+.-+.|+
T Consensus        91 ~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   91 LALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            3444455555555555555555432 234555555555566666666666666655555543

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.57  E-value=0.81  Score=35.48  Aligned_cols=145  Identities=14%  Similarity=0.029  Sum_probs=78.1

Q ss_pred             HHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhH--HHHHHHHHhcCCHHHHHHHHHHHH
Q 012804          272 TDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTH--TILIDGLCKAGNIKGARLHLEYMN  349 (456)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~  349 (456)
                      .++++.-.......-...|..++.... .+.+ +.......+...+......++  ..+...+...+++++|..-++...
T Consensus        39 W~ywq~~q~~q~~~AS~~Y~~~i~~~~-ak~~-~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l  116 (207)
T COG2976          39 WRYWQSHQVEQAQEASAQYQNAIKAVQ-AKKP-KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQAL  116 (207)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHh-cCCc-hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHH
Confidence            444444333222233445555555543 3333 444455555543212111122  223455677788888888777766


Q ss_pred             hCCCCCC--HHHHHHHHHHHHhCCCHHHHHHHHHHhccC--ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          350 KIGFDSN--LEAYNCIVDRLGKDGKIDHAINVFESMEVK--DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       350 ~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      ......+  ...--.|.......|.+|+|...++.....  .......-++++...|+.++|...|++.++.+
T Consensus       117 ~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         117 AQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESWAAIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             ccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            5311111  111223444566777777777777777666  33334455677777777777877777777664

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=95.55  E-value=1.3  Score=37.66  Aligned_cols=122  Identities=16%  Similarity=0.085  Sum_probs=66.3

Q ss_pred             HhhCcHHHHHHHHHHHHhcCCCCCHH--------hHHHHHHHHHccC-ChhHHHHHHHHHHhC--------CCCCCH---
Q 012804           18 CKANRLEKAEAIIIDGIRLGVLPDVV--------TYNMLIDAYCQFV-SFDAGYTILNRMREA--------GISPDV---   77 (456)
Q Consensus        18 ~~~g~~~~A~~~~~~~~~~~~~~~~~--------~~~~l~~~~~~~~-~~~~a~~~~~~~~~~--------~~~~~~---   77 (456)
                      .++|+++.|..++.++.......++.        .|+.-...+ ..+ +++.|..++++..+.        ...|+.   
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~-~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el   82 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLL-SKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL   82 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHH-HcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence            46899999999999887643122222        233333333 344 777777766665432        112222   


Q ss_pred             --hHHHHHHHHHHcCCChh---HHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 012804           78 --VTYNSLIAGATRNSLLS---CSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICG  141 (456)
Q Consensus        78 --~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  141 (456)
                        .++..++.++...+..+   +|.++++.+.... +-.+.++..-+..+.+.++.+.+.+.+.+|+..
T Consensus        83 r~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   83 RLSILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence              33455566666655543   3444444443332 223444444555555566677777777777654

It is also involved in sporulation [].

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.49  E-value=0.13  Score=42.11  Aligned_cols=34  Identities=18%  Similarity=0.292  Sum_probs=22.2

Q ss_pred             hHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCC
Q 012804          129 DEANRVFQDMICGDLTPCTATFNIMLNGLCKNRY  162 (456)
Q Consensus       129 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  162 (456)
                      +-+++++++|...|+.||..+-..+++++.+.+-
T Consensus       140 ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  140 NCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             hHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            3456666777766767776666666666666554

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=95.47  E-value=1.4  Score=37.49  Aligned_cols=61  Identities=11%  Similarity=0.157  Sum_probs=31.2

Q ss_pred             HHHHHHHHHhcCchh---HHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 012804          220 YTTIMKCCFRNRKYK---LGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTD  281 (456)
Q Consensus       220 ~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  281 (456)
                      +..++.++...+..+   +|..+++.+... .+-.+..+..-+..+.+.++.+.+.+.+..|+..
T Consensus        87 L~~La~~~l~~~~~~~~~ka~~~l~~l~~e-~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   87 LRLLANAYLEWDTYESVEKALNALRLLESE-YGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence            444555555555443   333444444332 1223344444455555566667777777666665

It is also involved in sporulation [].

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.47  E-value=1.1  Score=36.47  Aligned_cols=72  Identities=15%  Similarity=0.099  Sum_probs=38.2

Q ss_pred             HHcCCChhHHHHHHHHHHHCCC--CCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHH
Q 012804           87 ATRNSLLSCSLDLLDEMLEMGI--PPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLC  158 (456)
Q Consensus        87 ~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  158 (456)
                      -.+.|++++|.+.|+.+..+.+  +-...+...++.++.+.++++.|+..+++............|...+.+++
T Consensus        44 ~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs  117 (254)
T COG4105          44 ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLS  117 (254)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHH
Confidence            3456666666666666665421  12234444555566666666666666666665432222334444444444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.45  E-value=1.4  Score=37.55  Aligned_cols=132  Identities=13%  Similarity=0.236  Sum_probs=77.9

Q ss_pred             hhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHc--CC----ChhHHHHHHHHHHHCCC---CCCHHhHHHHHHHHHhcCC-
Q 012804           58 FDAGYTILNRMREAGISPDVVTYNSLIAGATR--NS----LLSCSLDLLDEMLEMGI---PPDVWSYNSLMHCLFQLGK-  127 (456)
Q Consensus        58 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~-  127 (456)
                      ++..+.+++.+.+.|+..+..+|-+.......  ..    ...++.++++.|++..+   .++..++..++..  ..++ 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            44567788888888888777666553333322  22    35678888888888642   2344455555433  3333 


Q ss_pred             ---hhHHHHHHHHHHhCCCCCChh--HHHHHHHHHHhcCC--hHHHHHHHHHHHhCCCCCcHHHHHHHHHH
Q 012804          128 ---PDEANRVFQDMICGDLTPCTA--TFNIMLNGLCKNRY--TDNALRMFRGLQKHGFVPELVTYNILIKG  191 (456)
Q Consensus       128 ---~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  191 (456)
                         .+.++.+|+.+...|...+..  ....++........  ..++.++++.+.+.|+++....|..+.-.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLL  226 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHH
Confidence               356777888888766554332  22222322222222  34778888888888888777766655433

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.44  E-value=1.2  Score=36.55  Aligned_cols=221  Identities=17%  Similarity=0.036  Sum_probs=131.2

Q ss_pred             cCCHHHHHHHHHHHhhCCCC-CCHHHHHHHHHHHHhcCchhHHHHHHHHHHHc-CCCcChhhHHHHHHHHHHcCChHHHH
Q 012804          195 AGRLRTARWILKELGDSGHA-PNAITYTTIMKCCFRNRKYKLGLEILSAMKRK-GYTFDGFGYCTVIAAFVKIGRLKEAT  272 (456)
Q Consensus       195 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~  272 (456)
                      .+....+...+......... ............+...+++..+...+...... ........+......+...++...+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            34555555555555443222 12455566666777777777777777776652 22444555556666666777777777


Q ss_pred             HHHHHHHHCCCccCHHHHHHHHH-HHHhcCCHHHHHHHHHHHHHcCC--CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012804          273 DYMEQMVTDGVQLDIVSYNTLIN-LYCKEGKLEAAYLLLDEMEKQGF--ECDKYTHTILIDGLCKAGNIKGARLHLEYMN  349 (456)
Q Consensus       273 ~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  349 (456)
                      ..+.........+ ......... .+...|+++.|...+.+......  ......+......+...++.+.+...+....
T Consensus       116 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  194 (291)
T COG0457         116 ELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKAL  194 (291)
T ss_pred             HHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHH
Confidence            7777777653332 122222223 67777888888887777754221  1123333333444556677777777777777


Q ss_pred             hCCCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHHhccCCh---hhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          350 KIGFDS-NLEAYNCIVDRLGKDGKIDHAINVFESMEVKDS---FTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       350 ~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      ... +. ....+..+...+...++++.|...+.......+   ..+..+...+...+..+++...+.+....
T Consensus       195 ~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         195 KLN-PDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             hhC-cccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            652 33 356666666777777777777777777666532   34444444555556677777777776655

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=95.41  E-value=0.026  Score=29.73  Aligned_cols=32  Identities=13%  Similarity=0.024  Sum_probs=24.2

Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHHccCChHHHH
Q 012804          411 LLSCLKSGVRILKSAQKAVVDGLRHSGCRREAK  443 (456)
Q Consensus       411 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  443 (456)
                      |+++++..+. ++..|..++.+|...|++++|+
T Consensus         2 y~kAie~~P~-n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELNPN-NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHCCC-CHHHHHHHHHHHHHCcCHHhhc
Confidence            4566666544 7788888888888888888875

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.37  E-value=0.23  Score=40.64  Aligned_cols=99  Identities=20%  Similarity=0.315  Sum_probs=65.4

Q ss_pred             CHHhHHHHHHHHHc-----cCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcC----------------CChhHHHHH
Q 012804           41 DVVTYNMLIDAYCQ-----FVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRN----------------SLLSCSLDL   99 (456)
Q Consensus        41 ~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------------~~~~~a~~~   99 (456)
                      |-.+|-..+..+..     .+..+-....+..|.+.|+..|..+|+.|+..+-+.                .+-+-++++
T Consensus        66 dK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~v  145 (406)
T KOG3941|consen   66 DKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKV  145 (406)
T ss_pred             cHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHH
Confidence            44444444444432     234555555666777777777777777777665432                233568999


Q ss_pred             HHHHHHCCCCCCHHhHHHHHHHHHhcCCh-hHHHHHHHHHH
Q 012804          100 LDEMLEMGIPPDVWSYNSLMHCLFQLGKP-DEANRVFQDMI  139 (456)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~  139 (456)
                      +++|...|+.||..+-..|+.++.+.+-. .+..++.-.|.
T Consensus       146 LeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  146 LEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             HHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhh
Confidence            99999999999999999999999887754 34444444444

>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=95.33  E-value=0.7  Score=33.18  Aligned_cols=138  Identities=14%  Similarity=0.132  Sum_probs=71.8

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhCCCHHH
Q 012804          297 YCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSN-LEAYNCIVDRLGKDGKIDH  375 (456)
Q Consensus       297 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~  375 (456)
                      ..-.|..++..+++.+....   .+..-++.++--....-+-+-..+.++.+-+. +..+ ......++.+|...|.   
T Consensus        12 ~ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGki-FDis~C~NlKrVi~C~~~~n~---   84 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKI-FDISKCGNLKRVIECYAKRNK---   84 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGG-S-GGG-S-THHHHHHHHHTT----
T ss_pred             HHHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhh-cCchhhcchHHHHHHHHHhcc---
Confidence            34467788888888777764   24555666654444444444444454444322 1110 1122333334433333   


Q ss_pred             HHHHHHHhccCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhcc
Q 012804          376 AINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAK  453 (456)
Q Consensus       376 a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  453 (456)
                                 +.......+..+..+|+-+.-.+++..+.+. -++++..+..++.||.+.|+..++-.++.+.=+.+
T Consensus        85 -----------~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   85 -----------LSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             -------------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             -----------hHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence                       2333344556667777777777777776553 35677788888888888888888888777765544

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.32  E-value=0.31  Score=40.56  Aligned_cols=80  Identities=19%  Similarity=0.123  Sum_probs=61.6

Q ss_pred             CHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHH-----CCCCCCHHhH
Q 012804           41 DVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLE-----MGIPPDVWSY  115 (456)
Q Consensus        41 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~  115 (456)
                      -..++..++..+...|+++.+.+.++.+.... +-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+.
T Consensus       152 ~~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~  230 (280)
T COG3629         152 FIKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELR  230 (280)
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHH
Confidence            34567788888888888888888888888764 45777888888888888888888888887765     4777877777


Q ss_pred             HHHHHH
Q 012804          116 NSLMHC  121 (456)
Q Consensus       116 ~~l~~~  121 (456)
                      ......
T Consensus       231 ~~y~~~  236 (280)
T COG3629         231 ALYEEI  236 (280)
T ss_pred             HHHHHH
Confidence            666655

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.31  E-value=2.7  Score=39.86  Aligned_cols=111  Identities=15%  Similarity=0.093  Sum_probs=85.5

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCChhhHHHHHHHHHccC
Q 012804          323 YTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAK  402 (456)
Q Consensus       323 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~  402 (456)
                      -+.+.-+.-+...|+..+|.++-.+..    -||-..|..-+.+++..+++++-.++-++...  |..|.-.+.+|.+.|
T Consensus       685 lSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskks--PIGy~PFVe~c~~~~  758 (829)
T KOG2280|consen  685 LSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKKS--PIGYLPFVEACLKQG  758 (829)
T ss_pred             CcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccCC--CCCchhHHHHHHhcc
Confidence            345556666778899899988876653    57778888888999999999987777665544  788888999999999


Q ss_pred             ChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHH
Q 012804          403 RLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSK  448 (456)
Q Consensus       403 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  448 (456)
                      +.++|.+++-+..  |.+       ..+.+|.+.|++.+|....-+
T Consensus       759 n~~EA~KYiprv~--~l~-------ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  759 NKDEAKKYIPRVG--GLQ-------EKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             cHHHHhhhhhccC--ChH-------HHHHHHHHhccHHHHHHHHHH
Confidence            9999999987763  111       467788889999888776443

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=95.28  E-value=0.9  Score=34.16  Aligned_cols=56  Identities=13%  Similarity=-0.111  Sum_probs=31.2

Q ss_pred             HHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhC
Q 012804           15 CTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREA   71 (456)
Q Consensus        15 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   71 (456)
                      ..-.+.++.+++..+++.+.-..|. ....-..-...+...|+|.+|+.+|+.+...
T Consensus        18 ~~al~~~~~~D~e~lL~ALrvLRP~-~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   18 SVALRLGDPDDAEALLDALRVLRPE-FPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HHHHccCChHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            3345566777777777766554332 2222222334445667777777777776554

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.24  E-value=0.96  Score=34.28  Aligned_cols=138  Identities=10%  Similarity=0.033  Sum_probs=76.9

Q ss_pred             HHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHh-HHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHH-hHH--H
Q 012804           42 VVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVV-TYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVW-SYN--S  117 (456)
Q Consensus        42 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~--~  117 (456)
                      ...|..-+.. .+.+..++|+.-|..+.+.|...-+. ............|+...|+..|+++-.....|-.. -..  .
T Consensus        59 gd~flaAL~l-A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlr  137 (221)
T COG4649          59 GDAFLAALKL-AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLR  137 (221)
T ss_pred             hHHHHHHHHH-HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHH
Confidence            3344444443 34566777777777777665432211 12223344556777777777777776543333222 111  1


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 012804          118 LMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVP  180 (456)
Q Consensus       118 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  180 (456)
                      -...+...|.++......+.+...+-+.-...-..|.-+..+.|++.+|.+.|..+......|
T Consensus       138 aa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         138 AAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence            122345667777777777766655433344445566666677777777777777766543333

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.18  E-value=0.28  Score=40.84  Aligned_cols=75  Identities=16%  Similarity=0.124  Sum_probs=49.0

Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHH-----cCCCCCHHhHHHH
Q 012804          358 EAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLK-----SGVRILKSAQKAV  429 (456)
Q Consensus       358 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~~~~~l  429 (456)
                      .++..++..+...|+.+.+.+.+++....   +...|..++.+|.+.|+...|+..|+++.+     .|+.|.+.+...+
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            34555666666667777777776666655   556677777777777777777777666643     3677777666655


Q ss_pred             HHH
Q 012804          430 VDG  432 (456)
Q Consensus       430 ~~~  432 (456)
                      ..+
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            555

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=95.08  E-value=3.5  Score=39.82  Aligned_cols=188  Identities=15%  Similarity=0.061  Sum_probs=94.0

Q ss_pred             HHcCChHHHHHHHHHHHHCCC-ccC-------HHHHHHHHHHHHhcCCHHHHHHHHH--------HHHHcCCCcCHHhHH
Q 012804          263 VKIGRLKEATDYMEQMVTDGV-QLD-------IVSYNTLINLYCKEGKLEAAYLLLD--------EMEKQGFECDKYTHT  326 (456)
Q Consensus       263 ~~~~~~~~a~~~~~~~~~~~~-~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~--------~~~~~~~~~~~~~~~  326 (456)
                      +-.+++..|...++.+.+..- .|+       +.++....-.+...|+.+.|...|.        .....+...+..++.
T Consensus       372 ~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~yL~gl~~q~~g~l~~A~~~y~~~~~~~~~~~~~~~~~~El~ila  451 (608)
T PF10345_consen  372 FIRGDWSKATQELEFMRQLCQRSPSKLYESLYPLLHYLLGLYYQSTGDLEAALYQYQKPRFLLCEAANRKSKFRELYILA  451 (608)
T ss_pred             HHCcCHHHHHHHHHHHHHHHhcCccchhhhhhHHHHHHHHHHHHHcCCHHHHHHHHhhhHHhhhhhhccCCcchHHHHHH
Confidence            356888889988888876411 111       2222222233445799999999997        333444443444333


Q ss_pred             HH--HHHHHhc--CCHHH--HHHHHHHHHhC-CCCC--CHHHHHHHH-HHHHhC--CCHHHHHHHHHHhcc--------C
Q 012804          327 IL--IDGLCKA--GNIKG--ARLHLEYMNKI-GFDS--NLEAYNCIV-DRLGKD--GKIDHAINVFESMEV--------K  386 (456)
Q Consensus       327 ~l--~~~~~~~--~~~~~--a~~~~~~~~~~-~~~~--~~~~~~~l~-~~~~~~--g~~~~a~~~~~~~~~--------~  386 (456)
                      .+  +..+...  ...++  +..+++.+... .-.|  +..++..++ .++...  -...++...+.+..+        .
T Consensus       452 ~LNl~~I~~~~~~~~~~~~~~~~l~~~i~p~~~~~~~~~~~~a~~~~~~~~~~~~~~~~ne~k~~l~~~L~~~~~~~~n~  531 (608)
T PF10345_consen  452 ALNLAIILQYESSRDDSESELNELLEQIEPLCSNSPNSYNRTAYCLVLATYNTFEPFSSNEAKRHLQEALKMANNKLGNS  531 (608)
T ss_pred             HHHHHHHhHhhcccchhhhHHHHHHHhcCccccCCccHHHHHHHHHHHHHHhhCCccccHHHHHHHHHHHHHHHHhhccc
Confidence            32  1112222  22233  66677665442 1122  233334333 222211  112233333332211        1


Q ss_pred             --ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCC---CHHhHHH-----HHHHHHccCChHHHHHHHHHHHh
Q 012804          387 --DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRI---LKSAQKA-----VVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       387 --~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~---~~~~~~~-----l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                        -..+++.+...+. .|+..+..+..........+.   ....|..     +...+...|+.++|.....+..+
T Consensus       532 ~l~~~~L~lm~~~lf-~~~~~e~~~~s~~a~~~A~k~~d~~~~LW~~v~~~~l~~~~~~~G~~~ka~~~~~~~~~  605 (608)
T PF10345_consen  532 QLLAILLNLMGHRLF-EGDVGEQAKKSARAFQLAKKSSDYSDQLWHLVASGMLADSYEVQGDRDKAEEARQQLDR  605 (608)
T ss_pred             hHHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHH
Confidence              1222333333344 788887666666554332222   3445533     33457889999999999888765

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.03  E-value=0.24  Score=38.37  Aligned_cols=91  Identities=16%  Similarity=0.013  Sum_probs=66.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH-----HHHHHHHHHHhCCCHHHHHHHHHHhccCChhhHHH---HHHHHH
Q 012804          328 LIDGLCKAGNIKGARLHLEYMNKIGFDSNLE-----AYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSS---MVHNLC  399 (456)
Q Consensus       328 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---l~~~~~  399 (456)
                      -..-+...|++++|..-|..++.. .++...     .|..-..++.+.+.++.|+.-..++++.++..-.+   -+.+|-
T Consensus       101 EGN~~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeaye  179 (271)
T KOG4234|consen  101 EGNELFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYE  179 (271)
T ss_pred             HHHHhhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHH
Confidence            344567889999999999999886 233322     23333446788899999999888888875543333   355777


Q ss_pred             ccCChhHHHHHHHHHHHcCC
Q 012804          400 KAKRLPSASKLLLSCLKSGV  419 (456)
Q Consensus       400 ~~~~~~~A~~~~~~~~~~~~  419 (456)
                      +...+++|++-|++.++..+
T Consensus       180 k~ek~eealeDyKki~E~dP  199 (271)
T KOG4234|consen  180 KMEKYEEALEDYKKILESDP  199 (271)
T ss_pred             hhhhHHHHHHHHHHHHHhCc
Confidence            88899999999999987743

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.01  E-value=0.057  Score=28.87  Aligned_cols=25  Identities=8%  Similarity=0.004  Sum_probs=15.2

Q ss_pred             HHHHHHHHHccCChhHHHHHHHHHH
Q 012804          391 YSSMVHNLCKAKRLPSASKLLLSCL  415 (456)
Q Consensus       391 ~~~l~~~~~~~~~~~~A~~~~~~~~  415 (456)
                      |..|+..|.+.|++++|++++++++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4556666666666666666666644

>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=94.95  E-value=0.56  Score=36.50  Aligned_cols=97  Identities=16%  Similarity=0.191  Sum_probs=63.9

Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHhCCCCCC--HhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHH---H
Q 012804           44 TYNMLIDAYCQFVSFDAGYTILNRMREAGISPD--VVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNS---L  118 (456)
Q Consensus        44 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---l  118 (456)
                      .+..+...|.+.|+.+.|.+.|.++.+....+.  ...+-.+|+.....+++..+...+.+....--.+.......   .
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            677888888888888888888888877643333  44567778888888888888887777655311111111111   1


Q ss_pred             H--HHHHhcCChhHHHHHHHHHHh
Q 012804          119 M--HCLFQLGKPDEANRVFQDMIC  140 (456)
Q Consensus       119 ~--~~~~~~~~~~~a~~~~~~~~~  140 (456)
                      .  -.+...+++..|-+.|-+...
T Consensus       118 ~~gL~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  118 YEGLANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHHHhchHHHHHHHHHccCc
Confidence            1  124456788888888876654

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.93  E-value=0.062  Score=28.73  Aligned_cols=25  Identities=16%  Similarity=0.060  Sum_probs=17.3

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHH
Q 012804          425 AQKAVVDGLRHSGCRREAKKIQSKI  449 (456)
Q Consensus       425 ~~~~l~~~~~~~g~~~~A~~~~~~~  449 (456)
                      ++..++.+|.+.|++++|.+++++.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3566777777777777777777773

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.72  E-value=0.069  Score=28.00  Aligned_cols=29  Identities=10%  Similarity=0.060  Sum_probs=17.4

Q ss_pred             hhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          389 FTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       389 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      .+|..++.++...|++++|+..|+++++.
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            34556666666666666666666666654

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 ....

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.61  E-value=5.7  Score=40.07  Aligned_cols=20  Identities=20%  Similarity=0.300  Sum_probs=12.6

Q ss_pred             HHHHHHHHHccCChHHHHHH
Q 012804          426 QKAVVDGLRHSGCRREAKKI  445 (456)
Q Consensus       426 ~~~l~~~~~~~g~~~~A~~~  445 (456)
                      ...++.++...|..+.|.++
T Consensus      1187 ~~~Ll~~l~~~g~~eqa~~L 1206 (1265)
T KOG1920|consen 1187 LKRLLEVLVTFGMDEQARAL 1206 (1265)
T ss_pred             HHHHHHHHHHcCCcHHHHHH
Confidence            44566666677776666654

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.43  E-value=4.7  Score=38.31  Aligned_cols=273  Identities=14%  Similarity=0.088  Sum_probs=160.8

Q ss_pred             hHHHHHHHHHHHhCCCCCcHHHHHHHHHH-----HHHcCCHHHHHHHHHHHhh-------CCCCCCHHHHHHHHHHHHhc
Q 012804          163 TDNALRMFRGLQKHGFVPELVTYNILIKG-----LCKAGRLRTARWILKELGD-------SGHAPNAITYTTIMKCCFRN  230 (456)
Q Consensus       163 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-----~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~  230 (456)
                      ...+.++++...+.|.   ......+..+     +....+.+.|+.+|+.+..       .+   .+.....+..+|.+.
T Consensus       228 ~~~a~~~~~~~a~~g~---~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g  301 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGH---SEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhcc---hHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcC
Confidence            4678888888887753   2222222222     3356689999999988765       33   333455566666664


Q ss_pred             C-----chhHHHHHHHHHHHcCCCcChhhHHHHHHHHHH-cCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHh----c
Q 012804          231 R-----KYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVK-IGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCK----E  300 (456)
Q Consensus       231 ~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~  300 (456)
                      .     +.+.|..++......+ .|+....-..+..... ..+...|.++|......|..   ..+-.+..+|..    .
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~---~A~~~la~~y~~G~gv~  377 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI---LAIYRLALCYELGLGVE  377 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh---HHHHHHHHHHHhCCCcC
Confidence            3     5677999999888887 4554443322222222 24577899999999887643   223333333322    3


Q ss_pred             CCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH---Hh----CCCH
Q 012804          301 GKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRL---GK----DGKI  373 (456)
Q Consensus       301 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---~~----~g~~  373 (456)
                      .+...|..++++..+.| .|...--...+..+.. +.++.+.-.+..+...|.......-..+....   ..    ..+.
T Consensus       378 r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~~~q~~a~~l~~~~~~~~~~~~~~~~~  455 (552)
T KOG1550|consen  378 RNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYEVAQSNAAYLLDQSEEDLFSRGVISTL  455 (552)
T ss_pred             CCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhhHHhhHHHHHHHhccccccccccccch
Confidence            47888999999998887 3332322333333444 77777777777776665332222111111111   11    2246


Q ss_pred             HHHHHHHHHhccC-ChhhHHHHHHHHHcc----CChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHc----cCChHHHHH
Q 012804          374 DHAINVFESMEVK-DSFTYSSMVHNLCKA----KRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRH----SGCRREAKK  444 (456)
Q Consensus       374 ~~a~~~~~~~~~~-~~~~~~~l~~~~~~~----~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~  444 (456)
                      ..+...+.+.... +......+...|...    .+++.|...+......+    ....-.++..+..    .. +..|.+
T Consensus       456 ~~~~~~~~~a~~~g~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~----~~~~~nlg~~~e~g~g~~~-~~~a~~  530 (552)
T KOG1550|consen  456 ERAFSLYSRAAAQGNADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG----AQALFNLGYMHEHGEGIKV-LHLAKR  530 (552)
T ss_pred             hHHHHHHHHHHhccCHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh----hHHHhhhhhHHhcCcCcch-hHHHHH
Confidence            6677777766655 677777777666543    35788888888887664    3333334444432    23 678888


Q ss_pred             HHHHHHhc
Q 012804          445 IQSKIRMA  452 (456)
Q Consensus       445 ~~~~~~~~  452 (456)
                      ++.+..+.
T Consensus       531 ~~~~~~~~  538 (552)
T KOG1550|consen  531 YYDQASEE  538 (552)
T ss_pred             HHHHHHhc
Confidence            88777654

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.41  E-value=2  Score=34.02  Aligned_cols=29  Identities=17%  Similarity=0.094  Sum_probs=17.8

Q ss_pred             hhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          389 FTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       389 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      .+|..++..+...|+.++|..+|+-++..
T Consensus       238 EtyFYL~K~~l~~G~~~~A~~LfKLaian  266 (297)
T COG4785         238 ETYFYLGKYYLSLGDLDEATALFKLAVAN  266 (297)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            45555666666666666666666665544

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.37  E-value=2.4  Score=34.70  Aligned_cols=87  Identities=20%  Similarity=0.233  Sum_probs=40.3

Q ss_pred             HhcCchhHHHHHHHHHHHcCCCc-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHH
Q 012804          228 FRNRKYKLGLEILSAMKRKGYTF-DGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAA  306 (456)
Q Consensus       228 ~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  306 (456)
                      ...++.+.+...+....... +. ....+..+...+...++++.+...+......... ....+..+...+...+..+.+
T Consensus       178 ~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  255 (291)
T COG0457         178 EALGRYEEALELLEKALKLN-PDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEA  255 (291)
T ss_pred             HHhcCHHHHHHHHHHHHhhC-cccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHH
Confidence            34444444444444444432 11 2334444444555555555555555555543211 122333333333355556666


Q ss_pred             HHHHHHHHHc
Q 012804          307 YLLLDEMEKQ  316 (456)
Q Consensus       307 ~~~~~~~~~~  316 (456)
                      ...+......
T Consensus       256 ~~~~~~~~~~  265 (291)
T COG0457         256 LEALEKALEL  265 (291)
T ss_pred             HHHHHHHHHh
Confidence            6666665553

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.36  E-value=0.15  Score=26.63  Aligned_cols=30  Identities=10%  Similarity=0.028  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHhcC
Q 012804            8 RLLNICVCTFCKANRLEKAEAIIIDGIRLG   37 (456)
Q Consensus         8 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~   37 (456)
                      .+|..+...+...|++++|+..|+++++..
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            467777777778888888888887777654

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 ....

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.30  E-value=2.1  Score=33.87  Aligned_cols=182  Identities=13%  Similarity=0.021  Sum_probs=105.8

Q ss_pred             HcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHH
Q 012804          264 KIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARL  343 (456)
Q Consensus       264 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  343 (456)
                      ..|-+.-|+--|.+.+...+. -+.+||.+.--+...|+++.|.+.|+...+.+..-+-...+.-+ ++.-.|+++-|.+
T Consensus        77 SlGL~~LAR~DftQaLai~P~-m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi-~~YY~gR~~LAq~  154 (297)
T COG4785          77 SLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGI-ALYYGGRYKLAQD  154 (297)
T ss_pred             hhhHHHHHhhhhhhhhhcCCC-cHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccce-eeeecCchHhhHH
Confidence            345555555555555554322 46778888888889999999999999988764332222222222 3345688888877


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHH--HhCCCHHHHHHHH-HHhccCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCC
Q 012804          344 HLEYMNKIGFDSNLEAYNCIVDRL--GKDGKIDHAINVF-ESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVR  420 (456)
Q Consensus       344 ~~~~~~~~~~~~~~~~~~~l~~~~--~~~g~~~~a~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  420 (456)
                      -+...-..+ +.|+  |..+ ..|  ...-++.+|..-+ ++....+..-|...+..|.- |+..+ ..+++++..- -.
T Consensus       155 d~~~fYQ~D-~~DP--fR~L-WLYl~E~k~dP~~A~tnL~qR~~~~d~e~WG~~iV~~yL-gkiS~-e~l~~~~~a~-a~  227 (297)
T COG4785         155 DLLAFYQDD-PNDP--FRSL-WLYLNEQKLDPKQAKTNLKQRAEKSDKEQWGWNIVEFYL-GKISE-ETLMERLKAD-AT  227 (297)
T ss_pred             HHHHHHhcC-CCCh--HHHH-HHHHHHhhCCHHHHHHHHHHHHHhccHhhhhHHHHHHHH-hhccH-HHHHHHHHhh-cc
Confidence            776655543 2222  2222 122  2344566665544 45555565666554443332 22211 2333443322 11


Q ss_pred             CC-------HHhHHHHHHHHHccCChHHHHHHHHHHHhccc
Q 012804          421 IL-------KSAQKAVVDGLRHSGCRREAKKIQSKIRMAKI  454 (456)
Q Consensus       421 ~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  454 (456)
                      .+       ..|+-.++.-+...|+.++|..+|+-....++
T Consensus       228 ~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiannV  268 (297)
T COG4785         228 DNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANNV  268 (297)
T ss_pred             chHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhH
Confidence            11       34677788889999999999999988766554

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=94.28  E-value=5.7  Score=38.73  Aligned_cols=188  Identities=12%  Similarity=0.061  Sum_probs=103.2

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCccCH-------HHHHHHH-HHHHhcCCHHHHHHHHHHHHHc----CCCcCHHhHHHHH
Q 012804          262 FVKIGRLKEATDYMEQMVTDGVQLDI-------VSYNTLI-NLYCKEGKLEAAYLLLDEMEKQ----GFECDKYTHTILI  329 (456)
Q Consensus       262 ~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~  329 (456)
                      .....++++|..++.++...-..|+.       ..++.+- ......|++++|.++.+.....    -..+....+..+.
T Consensus       425 ~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~  504 (894)
T COG2909         425 LASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLG  504 (894)
T ss_pred             HHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhh
Confidence            34567888999888887765222221       1233221 2234578889998888877653    1233455666777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHH--HHHhCCC--HHHHHHHHHHhccC-----C-----hhhHH
Q 012804          330 DGLCKAGNIKGARLHLEYMNKIGFDSN---LEAYNCIVD--RLGKDGK--IDHAINVFESMEVK-----D-----SFTYS  392 (456)
Q Consensus       330 ~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~--~~~~~g~--~~~a~~~~~~~~~~-----~-----~~~~~  392 (456)
                      .+..-.|++++|..+.+...+..-.-+   ...|..+..  .+...|.  ..+....|......     .     ..+..
T Consensus       505 ~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~  584 (894)
T COG2909         505 EAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRA  584 (894)
T ss_pred             HHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHH
Confidence            777788999999888887655421222   233333322  4556673  23333333333222     1     12344


Q ss_pred             HHHHHHHccCChhHHHHHHHHHHHc----CCCCCHHhHH--HHHHHHHccCChHHHHHHHHHHHhc
Q 012804          393 SMVHNLCKAKRLPSASKLLLSCLKS----GVRILKSAQK--AVVDGLRHSGCRREAKKIQSKIRMA  452 (456)
Q Consensus       393 ~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~~~~--~l~~~~~~~g~~~~A~~~~~~~~~~  452 (456)
                      .+..++.+   ++.+..-.....+.    ...|-.....  .++.+....|+.++|...+.++...
T Consensus       585 ~ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l  647 (894)
T COG2909         585 QLLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERL  647 (894)
T ss_pred             HHHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            44455544   33333333333222    2222222222  5667888899999999888887653

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=94.28  E-value=0.058  Score=28.40  Aligned_cols=32  Identities=19%  Similarity=0.272  Sum_probs=17.7

Q ss_pred             HHHHHhcCCCCCHHhHHHHHHHHHccCChhHHH
Q 012804           30 IIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGY   62 (456)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   62 (456)
                      |+++++..|. +..+|+.+..++...|++++|+
T Consensus         2 y~kAie~~P~-n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELNPN-NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHCCC-CHHHHHHHHHHHHHCcCHHhhc
Confidence            3444444432 5556666666666666666554

>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=94.22  E-value=2  Score=33.53  Aligned_cols=98  Identities=9%  Similarity=-0.032  Sum_probs=68.3

Q ss_pred             hHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCC--HHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC-ChhHHHH--
Q 012804           78 VTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPD--VWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTP-CTATFNI--  152 (456)
Q Consensus        78 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~--  152 (456)
                      ..+..+...|.+.|+.+.|.+.|.++.+....+.  ...+..+++.....+++..+...+.+....--.+ |...-+-  
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            4677889999999999999999999988754433  4456788899999999999998888766432111 1222111  


Q ss_pred             H--HHHHHhcCChHHHHHHHHHHHh
Q 012804          153 M--LNGLCKNRYTDNALRMFRGLQK  175 (456)
Q Consensus       153 l--~~~~~~~~~~~~a~~~~~~~~~  175 (456)
                      .  .-.+...+++..|-+.|-....
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccCc
Confidence            1  1223457889888888766543

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.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=94.17  E-value=0.47  Score=42.08  Aligned_cols=124  Identities=14%  Similarity=0.091  Sum_probs=74.7

Q ss_pred             HHhcCCHHHHHH-HHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHH
Q 012804          297 YCKEGKLEAAYL-LLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDH  375 (456)
Q Consensus       297 ~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  375 (456)
                      -...|+.-.|-+ ++..+....-.|+...+...+  +...|+++.+...+...... +.....+...++....+.|++++
T Consensus       299 ~~~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~i--~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~  375 (831)
T PRK15180        299 QLADGDIIAASQQLFAALRNQQQDPVLIQLRSVI--FSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWRE  375 (831)
T ss_pred             HhhccCHHHHHHHHHHHHHhCCCCchhhHHHHHH--HHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHH
Confidence            344566655544 444444443344444444333  45678888887777665543 33445667777777778888888


Q ss_pred             HHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCH
Q 012804          376 AINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILK  423 (456)
Q Consensus       376 a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  423 (456)
                      |...-.-+...   +++.........-..|-++++.-.+++....+.+.+.
T Consensus       376 a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~~~  426 (831)
T PRK15180        376 ALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPETQS  426 (831)
T ss_pred             HHHHHHHHhccccCChhheeeecccHHHHhHHHHHHHHHHHHhccCChhcc
Confidence            88877776655   4444444333444567777888888877766544333

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.15  E-value=0.14  Score=26.70  Aligned_cols=30  Identities=7%  Similarity=0.012  Sum_probs=22.6

Q ss_pred             hhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          389 FTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       389 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      ..|..++..+...|++++|++.++++++..
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~   31 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence            456777888888888888888888887653

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 ....

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.00  E-value=2.3  Score=33.12  Aligned_cols=85  Identities=14%  Similarity=0.051  Sum_probs=42.6

Q ss_pred             HHHhCCCHHHHHHHHHHhccC------ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCCh
Q 012804          366 RLGKDGKIDHAINVFESMEVK------DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCR  439 (456)
Q Consensus       366 ~~~~~g~~~~a~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  439 (456)
                      .+..+|++++|...++.....      ...+-..|.+.....|.+++|+..++...+.+.  .+.....-++++...|+.
T Consensus        98 ~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~kg~k  175 (207)
T COG2976          98 AEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAKGDK  175 (207)
T ss_pred             HHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHcCch
Confidence            455566666666666544432      112223344555556666666666554432221  222233344556666666


Q ss_pred             HHHHHHHHHHHhc
Q 012804          440 REAKKIQSKIRMA  452 (456)
Q Consensus       440 ~~A~~~~~~~~~~  452 (456)
                      ++|+.-|++..+.
T Consensus       176 ~~Ar~ay~kAl~~  188 (207)
T COG2976         176 QEARAAYEKALES  188 (207)
T ss_pred             HHHHHHHHHHHHc
Confidence            6666666555544

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=93.84  E-value=2.1  Score=32.22  Aligned_cols=52  Identities=15%  Similarity=-0.037  Sum_probs=27.2

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCcCHHhHH-HHHHHHHhcCCHHHHHHHHHHHHhC
Q 012804          298 CKEGKLEAAYLLLDEMEKQGFECDKYTHT-ILIDGLCKAGNIKGARLHLEYMNKI  351 (456)
Q Consensus       298 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~  351 (456)
                      .+.++.+.+..++..+.-.  .|...... .-...+...|++.+|..+|+.+...
T Consensus        21 l~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            3456666666666666553  23222211 1223345666666666666665544

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.83  E-value=5  Score=36.39  Aligned_cols=61  Identities=16%  Similarity=0.190  Sum_probs=40.8

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCCCc-cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 012804          256 CTVIAAFVKIGRLKEATDYMEQMVTDGVQ-LDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQ  316 (456)
Q Consensus       256 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  316 (456)
                      ..+..++-+.|+.++|.+.++++.+.... -...+...|+.++...+.+.++..++.+-.+.
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi  324 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDI  324 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccc
Confidence            34555666778888888888877765322 13345566777778888888888777776543

The molecular function of this protein is uncertain.

>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=93.81  E-value=0.0019  Score=48.55  Aligned_cols=53  Identities=11%  Similarity=0.191  Sum_probs=24.8

Q ss_pred             HHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHH
Q 012804           14 VCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILN   66 (456)
Q Consensus        14 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   66 (456)
                      +..+.+.+.++....+++.+...+...+....+.++..|++.++.+...++++
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            34444445555555555555544433344455555555555544444444443

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.

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=93.21  E-value=3  Score=31.91  Aligned_cols=30  Identities=20%  Similarity=0.511  Sum_probs=14.4

Q ss_pred             HHHHHHHCCCccCHHHHHHHHHHHHhcCCH
Q 012804          274 YMEQMVTDGVQLDIVSYNTLINLYCKEGKL  303 (456)
Q Consensus       274 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  303 (456)
                      +++.+...+++|+...+..++..+.+.|++
T Consensus        16 YirSl~~~~i~~~~~L~~lli~lLi~~~~~   45 (167)
T PF07035_consen   16 YIRSLNQHNIPVQHELYELLIDLLIRNGQF   45 (167)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCH
Confidence            333334444555555555555555555543

>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=93.20  E-value=0.25  Score=25.75  Aligned_cols=26  Identities=12%  Similarity=0.082  Sum_probs=12.8

Q ss_pred             HHHHHHHHHccCChhHHHHHHHHHHH
Q 012804          391 YSSMVHNLCKAKRLPSASKLLLSCLK  416 (456)
Q Consensus       391 ~~~l~~~~~~~~~~~~A~~~~~~~~~  416 (456)
                      |..+...|...|++++|.+.|++.++
T Consensus         4 ~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    4 YYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            44444445555555555555555443

...

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=93.05  E-value=11  Score=38.15  Aligned_cols=105  Identities=18%  Similarity=0.119  Sum_probs=56.7

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHH
Q 012804          295 NLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKID  374 (456)
Q Consensus       295 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  374 (456)
                      ..+...+.+++|.-.|+..-+         ....+.+|..+|+|.+|..+..++..-. .--..+-..|+.-+...++.-
T Consensus       947 ~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~~-de~~~~a~~L~s~L~e~~kh~ 1016 (1265)
T KOG1920|consen  947 DHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSEGK-DELVILAEELVSRLVEQRKHY 1016 (1265)
T ss_pred             HHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcCCH-HHHHHHHHHHHHHHHHcccch
Confidence            333445666666655554422         1234556677777777777766654310 001122256666777777777


Q ss_pred             HHHHHHHHhccCChhhHHHHHHHHHccCChhHHHHHHHH
Q 012804          375 HAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLS  413 (456)
Q Consensus       375 ~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  413 (456)
                      +|-++..+.......    .+..|++...+++|+++...
T Consensus      1017 eAa~il~e~~sd~~~----av~ll~ka~~~~eAlrva~~ 1051 (1265)
T KOG1920|consen 1017 EAAKILLEYLSDPEE----AVALLCKAKEWEEALRVASK 1051 (1265)
T ss_pred             hHHHHHHHHhcCHHH----HHHHHhhHhHHHHHHHHHHh
Confidence            777777766654222    22334444555555554443

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=92.90  E-value=5.5  Score=34.13  Aligned_cols=47  Identities=21%  Similarity=0.279  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHhCCCCCcHHHHHHHHHHHHH--cC----CHHHHHHHHHHHhhC
Q 012804          165 NALRMFRGLQKHGFVPELVTYNILIKGLCK--AG----RLRTARWILKELGDS  211 (456)
Q Consensus       165 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~  211 (456)
                      +.+.+++.+.+.|+.-+..+|-+.......  ..    ....+..+|+.|.+.
T Consensus        80 ~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~  132 (297)
T PF13170_consen   80 EVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKK  132 (297)
T ss_pred             HHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHh
Confidence            344555666666665554444332222221  11    234455666666554

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.75  E-value=1.1  Score=37.51  Aligned_cols=102  Identities=13%  Similarity=0.123  Sum_probs=63.6

Q ss_pred             CCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcC---CCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHH
Q 012804          213 HAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKG---YTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVS  289 (456)
Q Consensus       213 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  289 (456)
                      ......+...++..-....+++.+...+-.+....   ..++ .+...+++.+. .-++++++.++..=+..|+.||..+
T Consensus        60 ~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~-~~~~~~irlll-ky~pq~~i~~l~npIqYGiF~dqf~  137 (418)
T KOG4570|consen   60 LPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRN-WTIHTWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQFT  137 (418)
T ss_pred             CCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhcc-ccHHHHHHHHH-ccChHHHHHHHhCcchhccccchhh
Confidence            33444555555555555666777777666665431   1111 12223333333 3456677777777777788888888


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 012804          290 YNTLINLYCKEGKLEAAYLLLDEMEKQ  316 (456)
Q Consensus       290 ~~~l~~~~~~~~~~~~a~~~~~~~~~~  316 (456)
                      ++.++..+.+.+++.+|..+...|...
T Consensus       138 ~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  138 FCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            888888888888888888777777654

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=92.75  E-value=3.5  Score=31.52  Aligned_cols=134  Identities=13%  Similarity=0.167  Sum_probs=62.8

Q ss_pred             HHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 012804           98 DLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHG  177 (456)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  177 (456)
                      ++++.+.+.+++|+...+..++..+.+.|.+....++    ...++-+|.......+-.+..  ....+.++--.|..+ 
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~ql----lq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkR-   87 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQL----LQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKR-   87 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH----HhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHH-
Confidence            4455555566666666677777777776665544433    333334444444333322222  222222222222221 


Q ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHH
Q 012804          178 FVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKR  245 (456)
Q Consensus       178 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  245 (456)
                         -...+..++..+...|++-+|.++.+.....    +......++++..+.+|...-..+++-..+
T Consensus        88 ---L~~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   88 ---LGTAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             ---hhhhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               0012344556666677777776666554221    111223345555555555444444444443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=92.72  E-value=0.6  Score=31.31  Aligned_cols=45  Identities=13%  Similarity=0.003  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHH
Q 012804          406 SASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIR  450 (456)
Q Consensus       406 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  450 (456)
                      ++.+-+..+...++-|++.+..+.+.||++.+++.-|.++++-++
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            455556666666667777777777777777777777777777655

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.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=92.70  E-value=0.21  Score=25.76  Aligned_cols=25  Identities=12%  Similarity=-0.016  Sum_probs=11.6

Q ss_pred             HHHHHHccCChHHHHHHHHHHHhcc
Q 012804          429 VVDGLRHSGCRREAKKIQSKIRMAK  453 (456)
Q Consensus       429 l~~~~~~~g~~~~A~~~~~~~~~~~  453 (456)
                      ++.++.+.|++++|.+.|+++...-
T Consensus         6 ~a~~~~~~g~~~~A~~~~~~~~~~~   30 (33)
T PF13174_consen    6 LARCYYKLGDYDEAIEYFQRLIKRY   30 (33)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHC
Confidence            3444444444444444444444443

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=92.48  E-value=1.4  Score=34.55  Aligned_cols=76  Identities=13%  Similarity=0.077  Sum_probs=54.8

Q ss_pred             HHhCCCHHHHHHHHHHhccC----ChhhHHHHHHHHHccCChhHHHHHHHHHHHc---CCCCCHHhHHHHHHHHHccCCh
Q 012804          367 LGKDGKIDHAINVFESMEVK----DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS---GVRILKSAQKAVVDGLRHSGCR  439 (456)
Q Consensus       367 ~~~~g~~~~a~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~  439 (456)
                      +.+.|+ +.|.+.|-.+...    ++.....++..|. ..+.++++.++.++++.   +-.+|+..+.+|+..+.+.|++
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            455555 4566666665554    5555555555444 67889999999988876   3367899999999999999999


Q ss_pred             HHHHH
Q 012804          440 REAKK  444 (456)
Q Consensus       440 ~~A~~  444 (456)
                      +.|.-
T Consensus       195 e~AYi  199 (203)
T PF11207_consen  195 EQAYI  199 (203)
T ss_pred             hhhhh
Confidence            88853

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=92.28  E-value=3.6  Score=30.52  Aligned_cols=52  Identities=15%  Similarity=-0.043  Sum_probs=31.2

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCC-cCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 012804          298 CKEGKLEAAYLLLDEMEKQGFE-CDKYTHTILIDGLCKAGNIKGARLHLEYMNKI  351 (456)
Q Consensus       298 ~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  351 (456)
                      ...++++++..+++.|.-..+. +...++..  ..+...|++.+|..+|+.+.+.
T Consensus        21 L~~~d~~D~e~lLdALrvLrP~~~e~d~~dg--~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVLRPNLKELDMFDG--WLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHhCCCccccchhHH--HHHHHcCCHHHHHHHHHhhhcc
Confidence            3467777777777777653211 12223333  3356677777777777777665

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=92.25  E-value=1.6  Score=29.40  Aligned_cols=45  Identities=7%  Similarity=0.079  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012804          270 EATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEME  314 (456)
Q Consensus       270 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  314 (456)
                      ++.+-++.+...+..|++.+..+.+++|.+.+++..|.++++..+
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444444444443

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.

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=92.22  E-value=11  Score=35.93  Aligned_cols=275  Identities=12%  Similarity=0.052  Sum_probs=155.9

Q ss_pred             hhHHHHHHHHHHhCCCCCChhHHHHHH--HH-HHhcCChHHHHHHHHHHHh-------CCCCCcHHHHHHHHHHHHHcC-
Q 012804          128 PDEANRVFQDMICGDLTPCTATFNIML--NG-LCKNRYTDNALRMFRGLQK-------HGFVPELVTYNILIKGLCKAG-  196 (456)
Q Consensus       128 ~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~-  196 (456)
                      ...+.+.++...+.| ..........+  .+ +....+.+.|+.+|+...+       .|   .......+..+|.+.. 
T Consensus       228 ~~~a~~~~~~~a~~g-~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~  303 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLG-HSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLG  303 (552)
T ss_pred             hhHHHHHHHHHHhhc-chHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCC
Confidence            467888888887766 22222222222  22 4456789999999998876       44   2234555666666633 


Q ss_pred             ----CHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHh-cCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHH----HcCC
Q 012804          197 ----RLRTARWILKELGDSGHAPNAITYTTIMKCCFR-NRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFV----KIGR  267 (456)
Q Consensus       197 ----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~  267 (456)
                          +.+.|..++...-..|.+ +.......+..... ..+...|.++|....+.|..+   .+-.+..+|.    ...+
T Consensus       304 ~~~~d~~~A~~~~~~aA~~g~~-~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~---A~~~la~~y~~G~gv~r~  379 (552)
T KOG1550|consen  304 VEKIDYEKALKLYTKAAELGNP-DAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHIL---AIYRLALCYELGLGVERN  379 (552)
T ss_pred             CccccHHHHHHHHHHHHhcCCc-hHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChH---HHHHHHHHHHhCCCcCCC
Confidence                677899999888776643 44333322222222 246789999999999888332   2222322222    2247


Q ss_pred             hHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHH-HHH---Hh----cCCHH
Q 012804          268 LKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILI-DGL---CK----AGNIK  339 (456)
Q Consensus       268 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~---~~----~~~~~  339 (456)
                      .+.|..++.+..+.|. |....-...+..+.. ++++.+.-.+..+.+.+.+. ..+-...+ ...   ..    ..+.+
T Consensus       380 ~~~A~~~~k~aA~~g~-~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~~-~q~~a~~l~~~~~~~~~~~~~~~~~~  456 (552)
T KOG1550|consen  380 LELAFAYYKKAAEKGN-PSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYEV-AQSNAAYLLDQSEEDLFSRGVISTLE  456 (552)
T ss_pred             HHHHHHHHHHHHHccC-hhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhhH-HhhHHHHHHHhccccccccccccchh
Confidence            8889999999988873 232222223333444 77777777777777665442 22222111 111   11    12445


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhC----CCHHHHHHHHHHhccCChhhHHHHHHHHHc----cCChhHHHHHH
Q 012804          340 GARLHLEYMNKIGFDSNLEAYNCIVDRLGKD----GKIDHAINVFESMEVKDSFTYSSMVHNLCK----AKRLPSASKLL  411 (456)
Q Consensus       340 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~  411 (456)
                      .+...+.+....|   +......+.+.|...    .+++.|...+.............+...+-.    .. +..|.+++
T Consensus       457 ~~~~~~~~a~~~g---~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~~~~~~nlg~~~e~g~g~~~-~~~a~~~~  532 (552)
T KOG1550|consen  457 RAFSLYSRAAAQG---NADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQGAQALFNLGYMHEHGEGIKV-LHLAKRYY  532 (552)
T ss_pred             HHHHHHHHHHhcc---CHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhhhHHHhhhhhHHhcCcCcch-hHHHHHHH
Confidence            6666666666554   555666666655443    347777777776655543333333333321    22 56777777


Q ss_pred             HHHHHc
Q 012804          412 LSCLKS  417 (456)
Q Consensus       412 ~~~~~~  417 (456)
                      ++..+.
T Consensus       533 ~~~~~~  538 (552)
T KOG1550|consen  533 DQASEE  538 (552)
T ss_pred             HHHHhc
Confidence            777654

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.19  E-value=5.3  Score=32.23  Aligned_cols=17  Identities=18%  Similarity=0.171  Sum_probs=9.8

Q ss_pred             HhcCchhHHHHHHHHHH
Q 012804          228 FRNRKYKLGLEILSAMK  244 (456)
Q Consensus       228 ~~~~~~~~a~~~~~~~~  244 (456)
                      .-.+++++|.+++.+..
T Consensus        25 gg~~k~eeAadl~~~Aa   41 (288)
T KOG1586|consen   25 GGSNKYEEAAELYERAA   41 (288)
T ss_pred             CCCcchHHHHHHHHHHH
Confidence            34456666666665543

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=92.14  E-value=3.1  Score=32.03  Aligned_cols=28  Identities=4%  Similarity=0.044  Sum_probs=13.5

Q ss_pred             hhHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 012804          404 LPSASKLLLSCLKSGVRILKSAQKAVVDGL  433 (456)
Q Consensus       404 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  433 (456)
                      +++|.+.|+++.+.  .|+...|+.-+...
T Consensus        96 F~kA~~~FqkAv~~--~P~ne~Y~ksLe~~  123 (186)
T PF06552_consen   96 FEKATEYFQKAVDE--DPNNELYRKSLEMA  123 (186)
T ss_dssp             HHHHHHHHHHHHHH---TT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc--CCCcHHHHHHHHHH
Confidence            34455555555543  55666666555444

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=92.07  E-value=2.7  Score=28.66  Aligned_cols=42  Identities=10%  Similarity=-0.056  Sum_probs=17.7

Q ss_pred             HHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012804          308 LLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMN  349 (456)
Q Consensus       308 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  349 (456)
                      +-++.+....+.|++......+++|.+.+++..|.++++-++
T Consensus        31 rglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK   72 (108)
T PF02284_consen   31 RGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIK   72 (108)
T ss_dssp             HHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            333444444444444444444444444444444444444444

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 ....

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=92.06  E-value=3.8  Score=30.37  Aligned_cols=53  Identities=11%  Similarity=-0.131  Sum_probs=30.2

Q ss_pred             HhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhC
Q 012804           18 CKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREA   71 (456)
Q Consensus        18 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   71 (456)
                      ...++++++..+++.+.-..|+ ....-..-...+...|+|++|+.+|+.+.+.
T Consensus        21 L~~~d~~D~e~lLdALrvLrP~-~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVLRPN-LKELDMFDGWLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHhCCC-ccccchhHHHHHHHcCCHHHHHHHHHhhhcc
Confidence            4467777777777766554332 1222222233445667777777777777655

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PRK11619 lytic murein transglycosylase; Provisional

Probab=91.97  E-value=13  Score=36.13  Aligned_cols=319  Identities=10%  Similarity=0.006  Sum_probs=144.2

Q ss_pred             hHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHh--cCChhHHHHHHHHHHhCCCCCChhHHHHHHH
Q 012804           78 VTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQ--LGKPDEANRVFQDMICGDLTPCTATFNIMLN  155 (456)
Q Consensus        78 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  155 (456)
                      ..|..... ..+.|++..+.++...+...  +  ...|.........  ...+++....+++-.  +.+.....-...+.
T Consensus        35 ~~f~~A~~-a~~~g~~~~~~~~~~~l~d~--p--L~~yl~y~~L~~~l~~~~~~ev~~Fl~~~~--~~P~~~~Lr~~~l~  107 (644)
T PRK11619         35 QRYQQIKQ-AWDNRQMDVVEQLMPTLKDY--P--LYPYLEYRQLTQDLMNQPAVQVTNFIRANP--TLPPARSLQSRFVN  107 (644)
T ss_pred             HHHHHHHH-HHHCCCHHHHHHHHHhccCC--C--cHhHHHHHHHHhccccCCHHHHHHHHHHCC--CCchHHHHHHHHHH
Confidence            33444333 45677888887777766432  1  1222222222222  223454444444322  21223333344455


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhH
Q 012804          156 GLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKL  235 (456)
Q Consensus       156 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  235 (456)
                      .+.+.+++...+..+.    . .+.+...-.....+....|+.++|......+=..|.. .+.....++..+.+.|....
T Consensus       108 ~La~~~~w~~~~~~~~----~-~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g~~-~p~~cd~l~~~~~~~g~lt~  181 (644)
T PRK11619        108 ELARREDWRGLLAFSP----E-KPKPVEARCNYYYAKWATGQQQEAWQGAKELWLTGKS-LPNACDKLFSVWQQSGKQDP  181 (644)
T ss_pred             HHHHccCHHHHHHhcC----C-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC-CChHHHHHHHHHHHcCCCCH
Confidence            6667777777776331    1 2345555566777788888887777666665444433 45566666766665555443


Q ss_pred             HHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHC---------CCccCHHHHHHHHHHHH--hcCCHH
Q 012804          236 GLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTD---------GVQLDIVSYNTLINLYC--KEGKLE  304 (456)
Q Consensus       236 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------~~~~~~~~~~~l~~~~~--~~~~~~  304 (456)
                      .. ++.++...-...+......+...+.  .+.....+.+..+...         .+.++...-..++.++.  ...+.+
T Consensus       182 ~d-~w~R~~~al~~~~~~lA~~l~~~l~--~~~~~~a~a~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~l~Rlar~d~~  258 (644)
T PRK11619        182 LA-YLERIRLAMKAGNTGLVTYLAKQLP--ADYQTIASALIKLQNDPNTVETFARTTGPTDFTRQMAAVAFASVARQDAE  258 (644)
T ss_pred             HH-HHHHHHHHHHCCCHHHHHHHHHhcC--hhHHHHHHHHHHHHHCHHHHHHHhhccCCChhhHHHHHHHHHHHHHhCHH
Confidence            22 2222221111112222222222220  1111111111111110         11122211111111111  234556


Q ss_pred             HHHHHHHHHHHcC-CCcCH--HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHH
Q 012804          305 AAYLLLDEMEKQG-FECDK--YTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFE  381 (456)
Q Consensus       305 ~a~~~~~~~~~~~-~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  381 (456)
                      .|..++....... ..+..  .+...+.......+...++...+......  ..+......-+..-.+.++++.+...+.
T Consensus       259 ~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~--~~~~~~~e~r~r~Al~~~dw~~~~~~i~  336 (644)
T PRK11619        259 NARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMR--SQSTSLLERRVRMALGTGDRRGLNTWLA  336 (644)
T ss_pred             HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhcccc--cCCcHHHHHHHHHHHHccCHHHHHHHHH
Confidence            6666666654322 21111  12233333333322244555555543322  1233334444444456677777666666


Q ss_pred             HhccC---ChhhHHHHHHHHHccCChhHHHHHHHHH
Q 012804          382 SMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSC  414 (456)
Q Consensus       382 ~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~  414 (456)
                      .+...   ......-+++++...|+.++|...|+++
T Consensus       337 ~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~  372 (644)
T PRK11619        337 RLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQL  372 (644)
T ss_pred             hcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            65443   3333444566656667777777777766

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=91.96  E-value=8.4  Score=34.11  Aligned_cols=66  Identities=15%  Similarity=0.034  Sum_probs=51.2

Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc---CHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 012804          285 LDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFEC---DKYTHTILIDGLCKAGNIKGARLHLEYMNK  350 (456)
Q Consensus       285 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  350 (456)
                      ....+|..++..+.+.|.++.|...+..+...+...   .+.....-++..-..|+..+|...++....
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            356678888999999999999999999988754222   344555556677788999999999988876

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=91.95  E-value=0.47  Score=26.11  Aligned_cols=28  Identities=18%  Similarity=0.265  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHh
Q 012804            8 RLLNICVCTFCKANRLEKAEAIIIDGIR   35 (456)
Q Consensus         8 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~   35 (456)
                      .+++.+...|...|++++|+.+++++..
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4566666667777777777777666553

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=91.79  E-value=1.9  Score=29.40  Aligned_cols=60  Identities=7%  Similarity=0.066  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHH
Q 012804          270 EATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILID  330 (456)
Q Consensus       270 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  330 (456)
                      +..+-++.+...+..|++.+..+.+++|.+.+++..|.++|+.++.+ ..+....|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHH
Confidence            45566666666677778888888888888888888888888777654 2222225555553

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 ....

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=91.70  E-value=13  Score=35.85  Aligned_cols=87  Identities=11%  Similarity=0.092  Sum_probs=32.7

Q ss_pred             HHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcC-CCcChhhHHHHHHHHHHc---
Q 012804          190 KGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKG-YTFDGFGYCTVIAAFVKI---  265 (456)
Q Consensus       190 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~---  265 (456)
                      ..+.-.|+++.|.+.+-.  ......+.+++...+..|.-.+-.+...   ..+.... -.+.+..+..++..|.+.   
T Consensus       266 ~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F~~  340 (613)
T PF04097_consen  266 QVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSFEI  340 (613)
T ss_dssp             HHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTTTT
T ss_pred             HHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHHhc
Confidence            445567778877777765  1122234444444333322111111111   2222111 011124456666666653   


Q ss_pred             CChHHHHHHHHHHHHC
Q 012804          266 GRLKEATDYMEQMVTD  281 (456)
Q Consensus       266 ~~~~~a~~~~~~~~~~  281 (456)
                      .+..+|.+++--+...
T Consensus       341 td~~~Al~Y~~li~~~  356 (613)
T PF04097_consen  341 TDPREALQYLYLICLF  356 (613)
T ss_dssp             T-HHHHHHHHHGGGGS
T ss_pred             cCHHHHHHHHHHHHHc
Confidence            4566666666555443

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.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.60  E-value=9.2  Score=35.62  Aligned_cols=152  Identities=13%  Similarity=0.033  Sum_probs=95.6

Q ss_pred             HHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHH
Q 012804           17 FCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCS   96 (456)
Q Consensus        17 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   96 (456)
                      +.-.|+++.|-.++...      | -...+.+...+.++|-.++|+++-         +|+..   -.....+.|+++.|
T Consensus       596 ~vmrrd~~~a~~vLp~I------~-k~~rt~va~Fle~~g~~e~AL~~s---------~D~d~---rFelal~lgrl~iA  656 (794)
T KOG0276|consen  596 LVLRRDLEVADGVLPTI------P-KEIRTKVAHFLESQGMKEQALELS---------TDPDQ---RFELALKLGRLDIA  656 (794)
T ss_pred             HhhhccccccccccccC------c-hhhhhhHHhHhhhccchHhhhhcC---------CChhh---hhhhhhhcCcHHHH
Confidence            34456777766644332      1 234566777777777777776542         23222   12345567888888


Q ss_pred             HHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 012804           97 LDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKH  176 (456)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  176 (456)
                      .++..+..      +..-|..|.++....|++..|.+.|.+...         |..|+-.+...|+-+....+-....+.
T Consensus       657 ~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~  721 (794)
T KOG0276|consen  657 FDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQ  721 (794)
T ss_pred             HHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhh
Confidence            77765532      566688888888888888888888877653         345666666777766666665556555


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 012804          177 GFVPELVTYNILIKGLCKAGRLRTARWILKEL  208 (456)
Q Consensus       177 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  208 (456)
                      |.. |     ...-+|...|+++++.+++..-
T Consensus       722 g~~-N-----~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  722 GKN-N-----LAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             ccc-c-----hHHHHHHHcCCHHHHHHHHHhc
Confidence            432 2     2334566778888888777553

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=91.43  E-value=6.4  Score=35.54  Aligned_cols=45  Identities=4%  Similarity=-0.192  Sum_probs=32.4

Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHc
Q 012804          390 TYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRH  435 (456)
Q Consensus       390 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  435 (456)
                      ......-.|...|++-.|.+.|.+.... +..++..|..+..+|..
T Consensus       337 ilYNcG~~~Lh~grPl~AfqCf~~av~v-fh~nPrlWLRlAEcCim  381 (696)
T KOG2471|consen  337 ILYNCGLLYLHSGRPLLAFQCFQKAVHV-FHRNPRLWLRLAECCIM  381 (696)
T ss_pred             hHHhhhHHHHhcCCcHHHHHHHHHHHHH-HhcCcHHHHHHHHHHHH
Confidence            3445566777888888888888877665 45577888888887765

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=90.91  E-value=4.2  Score=31.87  Aligned_cols=92  Identities=9%  Similarity=0.090  Sum_probs=59.3

Q ss_pred             HHHHHccCChhHHHHHHHHHHhCCCCCC-----HhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHH
Q 012804           49 IDAYCQFVSFDAGYTILNRMREAGISPD-----VVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLF  123 (456)
Q Consensus        49 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  123 (456)
                      .+-+.+.|++++|..-|......- ++.     ...|..-..++.+.+.++.|++-..+.++.++. .......-..+|.
T Consensus       102 GN~~F~ngdyeeA~skY~~Ale~c-p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeaye  179 (271)
T KOG4234|consen  102 GNELFKNGDYEEANSKYQEALESC-PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYE  179 (271)
T ss_pred             HHHhhhcccHHHHHHHHHHHHHhC-ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHH
Confidence            344556788888887777777652 211     233555556777788888888877777775532 2333333455677


Q ss_pred             hcCChhHHHHHHHHHHhCC
Q 012804          124 QLGKPDEANRVFQDMICGD  142 (456)
Q Consensus       124 ~~~~~~~a~~~~~~~~~~~  142 (456)
                      +...+++|+.=|..+....
T Consensus       180 k~ek~eealeDyKki~E~d  198 (271)
T KOG4234|consen  180 KMEKYEEALEDYKKILESD  198 (271)
T ss_pred             hhhhHHHHHHHHHHHHHhC
Confidence            7788888888888887663

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=90.89  E-value=13  Score=34.06  Aligned_cols=96  Identities=16%  Similarity=0.112  Sum_probs=43.4

Q ss_pred             cChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHH
Q 012804          250 FDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILI  329 (456)
Q Consensus       250 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  329 (456)
                      .|.....+++..+.....+.-.+.+..+|+..|  .+...+..++++|... ..+.-..+|+++.+..+. |...-..|+
T Consensus        64 l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa  139 (711)
T COG1747          64 LDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELA  139 (711)
T ss_pred             ccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHH
Confidence            344444445555555445555555555555432  2344445555555554 334445555555544322 222223333


Q ss_pred             HHHHhcCCHHHHHHHHHHHHh
Q 012804          330 DGLCKAGNIKGARLHLEYMNK  350 (456)
Q Consensus       330 ~~~~~~~~~~~a~~~~~~~~~  350 (456)
                      ..|.+ ++.+.+..+|.++..
T Consensus       140 ~~yEk-ik~sk~a~~f~Ka~y  159 (711)
T COG1747         140 DKYEK-IKKSKAAEFFGKALY  159 (711)
T ss_pred             HHHHH-hchhhHHHHHHHHHH
Confidence            33322 444555555555443

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=90.82  E-value=0.61  Score=25.61  Aligned_cols=28  Identities=18%  Similarity=0.198  Sum_probs=17.1

Q ss_pred             hhHHHHHHHHHccCChhHHHHHHHHHHH
Q 012804          389 FTYSSMVHNLCKAKRLPSASKLLLSCLK  416 (456)
Q Consensus       389 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~  416 (456)
                      .+++.++..|...|++++|..+++++++
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            3455666666666666666666666643

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.79  E-value=8.3  Score=31.83  Aligned_cols=173  Identities=13%  Similarity=0.078  Sum_probs=93.3

Q ss_pred             CCCCChhHHHHHHHHH-HhcCChHHHHHHHHHHHhCCCCCc---HHHHHHHHHHHHHcCCHHHHHHHHHHHhh---CC--
Q 012804          142 DLTPCTATFNIMLNGL-CKNRYTDNALRMFRGLQKHGFVPE---LVTYNILIKGLCKAGRLRTARWILKELGD---SG--  212 (456)
Q Consensus       142 ~~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~--  212 (456)
                      +..||+..=|..-.+- .+...+++|+.-|.+..+......   -.....++....+.+++++....+.++..   +.  
T Consensus        21 ~sEpdVDlENQYYnsK~l~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVT  100 (440)
T KOG1464|consen   21 NSEPDVDLENQYYNSKGLKEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVT  100 (440)
T ss_pred             CCCCCcchHhhhhccccccccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHh
Confidence            3456655444332211 234578888888888877532222   23445677888888888888888887753   11  


Q ss_pred             CCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHc-CCCcC----hhhHHHHHHHHHHcCChHHHHHHHHHHHHC-----C
Q 012804          213 HAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRK-GYTFD----GFGYCTVIAAFVKIGRLKEATDYMEQMVTD-----G  282 (456)
Q Consensus       213 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~  282 (456)
                      ..-+..+.+.++.......+.+...++++.-.+. .-..+    -.+-..+...|...+.+....+++.++...     |
T Consensus       101 rNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edG  180 (440)
T KOG1464|consen  101 RNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDG  180 (440)
T ss_pred             ccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccC
Confidence            1124455666666666566665555555543321 00011    112234555566666666666666666543     1


Q ss_pred             Cc------cCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012804          283 VQ------LDIVSYNTLINLYCKEGKLEAAYLLLDEME  314 (456)
Q Consensus       283 ~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  314 (456)
                      -.      .-...|..-|+.|....+-.+-..++++..
T Consensus       181 edD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqal  218 (440)
T KOG1464|consen  181 EDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQAL  218 (440)
T ss_pred             chhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHH
Confidence            00      012345555566666666565566666544

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=90.73  E-value=11  Score=33.29  Aligned_cols=66  Identities=15%  Similarity=0.047  Sum_probs=51.9

Q ss_pred             cChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCcc---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012804          250 FDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQL---DIVSYNTLINLYCKEGKLEAAYLLLDEMEK  315 (456)
Q Consensus       250 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  315 (456)
                      ....++..+...+.+.|.++.|...+..+...+...   .+.....-++.....|+..+|+..++....
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345677788899999999999999999988753211   345555567778889999999999998887

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=90.15  E-value=0.86  Score=23.63  Aligned_cols=31  Identities=16%  Similarity=-0.083  Sum_probs=23.3

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHhcccC
Q 012804          425 AQKAVVDGLRHSGCRREAKKIQSKIRMAKIS  455 (456)
Q Consensus       425 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  455 (456)
                      +|..++..+...|++++|...|++..+.++.
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~   33 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNPD   33 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            4566777888888888888888887776654

...

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=89.79  E-value=1.1  Score=22.92  Aligned_cols=27  Identities=11%  Similarity=-0.039  Sum_probs=18.2

Q ss_pred             HHHHHHHHhhCcHHHHHHHHHHHHhcC
Q 012804           11 NICVCTFCKANRLEKAEAIIIDGIRLG   37 (456)
Q Consensus        11 ~~l~~~~~~~g~~~~A~~~~~~~~~~~   37 (456)
                      -.+..++.+.|++++|.+.|+++++..
T Consensus         4 ~~~a~~~~~~g~~~~A~~~~~~~~~~~   30 (33)
T PF13174_consen    4 YRLARCYYKLGDYDEAIEYFQRLIKRY   30 (33)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            345566667777777777777776654

>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=89.76  E-value=0.24  Score=37.06  Aligned_cols=54  Identities=26%  Similarity=0.348  Sum_probs=26.6

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 012804          258 VIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLD  311 (456)
Q Consensus       258 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  311 (456)
                      ++..+.+.+.++....+++.+...+...+....+.++..|++.++.++..++++
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            344444455555555555555544433445555555555555554444444443

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.

>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=89.70  E-value=0.52  Score=22.83  Aligned_cols=14  Identities=29%  Similarity=0.323  Sum_probs=5.4

Q ss_pred             HHHHccCChHHHHH
Q 012804          431 DGLRHSGCRREAKK  444 (456)
Q Consensus       431 ~~~~~~g~~~~A~~  444 (456)
                      .++...|+.++|+.
T Consensus         9 ~~~~~~G~~~eA~~   22 (26)
T PF07721_consen    9 RALLAQGDPDEAER   22 (26)
T ss_pred             HHHHHcCCHHHHHH
Confidence            33333333333333

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

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=89.58  E-value=7.7  Score=30.62  Aligned_cols=79  Identities=9%  Similarity=-0.078  Sum_probs=58.6

Q ss_pred             HHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhC---CCCCChhHHHHHHHHHHhcCCh
Q 012804           87 ATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICG---DLTPCTATFNIMLNGLCKNRYT  163 (456)
Q Consensus        87 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~  163 (456)
                      +.+.|+ +.|.+.|-.+...+.--++.....|...|. ..+.+++.+++.+..+.   +-.+|+..+..|+..+.+.|++
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            455555 567777777777765546666666665555 67889999999887764   2367889999999999999999


Q ss_pred             HHHH
Q 012804          164 DNAL  167 (456)
Q Consensus       164 ~~a~  167 (456)
                      +.|.
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            8875

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=89.46  E-value=3.9  Score=32.54  Aligned_cols=76  Identities=17%  Similarity=0.195  Sum_probs=52.3

Q ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCC--CCCCHhHHHHHHHH
Q 012804           10 LNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAG--ISPDVVTYNSLIAG   86 (456)
Q Consensus        10 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~   86 (456)
                      .+..++.+.+.++..+++...+.-++..+. |...-..++..++-.|+|++|..-++..-+..  ..+-...|..++.+
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            445567778888888888888888877643 66677778888888888888877666665542  12334556666654

>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=89.37  E-value=0.65  Score=22.50  Aligned_cols=23  Identities=9%  Similarity=0.002  Sum_probs=14.3

Q ss_pred             HHHHHHHHHHhhCcHHHHHHHHH
Q 012804            9 LLNICVCTFCKANRLEKAEAIII   31 (456)
Q Consensus         9 ~~~~l~~~~~~~g~~~~A~~~~~   31 (456)
                      ....+...+...|++++|+.+++
T Consensus         3 a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    3 ARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHh
Confidence            34455666666677777666654

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

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=89.33  E-value=1.4  Score=37.50  Aligned_cols=91  Identities=13%  Similarity=-0.143  Sum_probs=68.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCC
Q 012804          327 ILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKR  403 (456)
Q Consensus       327 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~  403 (456)
                      .-...|.+.|.+++|+..+....... +-|...+..-..+|.+..++..|..-...+...   -...|..-+.+-...|.
T Consensus       102 E~GN~yFKQgKy~EAIDCYs~~ia~~-P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~  180 (536)
T KOG4648|consen  102 ERGNTYFKQGKYEEAIDCYSTAIAVY-PHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGN  180 (536)
T ss_pred             HhhhhhhhccchhHHHHHhhhhhccC-CCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhh
Confidence            34566889999999999999987752 447788888888999999999888877777665   23455555555566778


Q ss_pred             hhHHHHHHHHHHHcC
Q 012804          404 LPSASKLLLSCLKSG  418 (456)
Q Consensus       404 ~~~A~~~~~~~~~~~  418 (456)
                      ..+|.+-++..++..
T Consensus       181 ~~EAKkD~E~vL~LE  195 (536)
T KOG4648|consen  181 NMEAKKDCETVLALE  195 (536)
T ss_pred             HHHHHHhHHHHHhhC
Confidence            888888888888653

>PRK09687 putative lyase; Provisional

Probab=89.28  E-value=13  Score=31.71  Aligned_cols=136  Identities=13%  Similarity=-0.048  Sum_probs=73.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 012804          286 DIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAG-NIKGARLHLEYMNKIGFDSNLEAYNCIV  364 (456)
Q Consensus       286 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~  364 (456)
                      +..+-...+.++.+.++. .+...+-.+.+.   ++..+-...+.++...+ +.+.+...+..+..   .++..+-...+
T Consensus       141 ~~~VR~~a~~aLg~~~~~-~ai~~L~~~L~d---~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~  213 (280)
T PRK09687        141 STNVRFAVAFALSVINDE-AAIPLLINLLKD---PNGDVRNWAAFALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAI  213 (280)
T ss_pred             CHHHHHHHHHHHhccCCH-HHHHHHHHHhcC---CCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHH
Confidence            444555566666666653 455555444442   34445555555555442 13345555555543   34556666666


Q ss_pred             HHHHhCCCHHHHHHHHHHhccCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 012804          365 DRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGL  433 (456)
Q Consensus       365 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  433 (456)
                      .++.+.|+. .|...+-...+.+. .....+.++...|.. +|+..+.++.+.  .||..+......+|
T Consensus       214 ~aLg~~~~~-~av~~Li~~L~~~~-~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~  277 (280)
T PRK09687        214 IGLALRKDK-RVLSVLIKELKKGT-VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKL  277 (280)
T ss_pred             HHHHccCCh-hHHHHHHHHHcCCc-hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHH
Confidence            667776663 44444444444322 334566777777774 677777777654  33666555555554

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.96  E-value=12  Score=34.98  Aligned_cols=99  Identities=16%  Similarity=0.174  Sum_probs=52.0

Q ss_pred             HHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHH
Q 012804          193 CKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEAT  272 (456)
Q Consensus       193 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  272 (456)
                      .+.|+++.|.++..+..      +..-|..|.++....+++..|.+.+.+....         ..|+-.+...|+.+...
T Consensus       648 l~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d~---------~~LlLl~t~~g~~~~l~  712 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARDL---------GSLLLLYTSSGNAEGLA  712 (794)
T ss_pred             hhcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcch---------hhhhhhhhhcCChhHHH
Confidence            45566666655544332      4455666666666666666666666554432         23444555555555444


Q ss_pred             HHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012804          273 DYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDE  312 (456)
Q Consensus       273 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  312 (456)
                      .+-....+.|..      |....+|...|+++++.+++..
T Consensus       713 ~la~~~~~~g~~------N~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  713 VLASLAKKQGKN------NLAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             HHHHHHHhhccc------chHHHHHHHcCCHHHHHHHHHh
Confidence            444444443321      2233345556666666665543

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.89  E-value=12  Score=31.83  Aligned_cols=127  Identities=15%  Similarity=0.198  Sum_probs=84.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHh----------CCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCC---CCCCHHH
Q 012804          153 MLNGLCKNRYTDNALRMFRGLQK----------HGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSG---HAPNAIT  219 (456)
Q Consensus       153 l~~~~~~~~~~~~a~~~~~~~~~----------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~  219 (456)
                      +..+|.....|+.-....-.+-.          .|.+.+..+...++..-....+++.+...+-+++.+.   ..|+...
T Consensus        25 LsS~fs~e~~w~~r~~~~~kla~~g~~~~kkF~~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~  104 (418)
T KOG4570|consen   25 LSSAFSDEHKWEAREKEHYKLADLGSLMDKKFERGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTI  104 (418)
T ss_pred             hHHHhhhhhhhhHHHHHHHHHhcccccchhhhhcCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccH
Confidence            44566666666554433323222          2344455555666665566778889988888877542   1122222


Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 012804          220 YTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTD  281 (456)
Q Consensus       220 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  281 (456)
                      + ..++. +-.-++++++.++..=++-|+-||..+++.++..+.+.+++.+|..+.-.|...
T Consensus       105 ~-~~irl-llky~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  105 H-TWIRL-LLKYDPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             H-HHHHH-HHccChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            2 22332 234567788888888888999999999999999999999999999888777654

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=88.57  E-value=25  Score=34.13  Aligned_cols=89  Identities=13%  Similarity=0.041  Sum_probs=49.9

Q ss_pred             HhcCCHHHHHHHHHHHHHcCC-CcC-----HHhHHHHHH--HHHhcCCHHHHHHHHH--------HHHhCCCCCCHHHHH
Q 012804          298 CKEGKLEAAYLLLDEMEKQGF-ECD-----KYTHTILID--GLCKAGNIKGARLHLE--------YMNKIGFDSNLEAYN  361 (456)
Q Consensus       298 ~~~~~~~~a~~~~~~~~~~~~-~~~-----~~~~~~l~~--~~~~~~~~~~a~~~~~--------~~~~~~~~~~~~~~~  361 (456)
                      +-.+++..|...+..+..... .|+     ...+..++.  .+-..|+.+.|...|.        .....+...+..++.
T Consensus       372 ~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~yL~gl~~q~~g~l~~A~~~y~~~~~~~~~~~~~~~~~~El~ila  451 (608)
T PF10345_consen  372 FIRGDWSKATQELEFMRQLCQRSPSKLYESLYPLLHYLLGLYYQSTGDLEAALYQYQKPRFLLCEAANRKSKFRELYILA  451 (608)
T ss_pred             HHCcCHHHHHHHHHHHHHHHhcCccchhhhhhHHHHHHHHHHHHHcCCHHHHHHHHhhhHHhhhhhhccCCcchHHHHHH
Confidence            347899999999998875321 111     222333333  3456799999999998        444444344444443


Q ss_pred             HH--HHHHHhCCC--HHH--HHHHHHHhccC
Q 012804          362 CI--VDRLGKDGK--IDH--AINVFESMEVK  386 (456)
Q Consensus       362 ~l--~~~~~~~g~--~~~--a~~~~~~~~~~  386 (456)
                      .+  +..+...+.  .++  +.++++.+...
T Consensus       452 ~LNl~~I~~~~~~~~~~~~~~~~l~~~i~p~  482 (608)
T PF10345_consen  452 ALNLAIILQYESSRDDSESELNELLEQIEPL  482 (608)
T ss_pred             HHHHHHHhHhhcccchhhhHHHHHHHhcCcc
Confidence            32  122222232  223  77788776654

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=88.47  E-value=12  Score=30.41  Aligned_cols=81  Identities=15%  Similarity=-0.033  Sum_probs=38.8

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCcCHH-hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhCCCHHHH
Q 012804          299 KEGKLEAAYLLLDEMEKQGFECDKY-THTILIDGLCKAGNIKGARLHLEYMNKIGFDSNL-EAYNCIVDRLGKDGKIDHA  376 (456)
Q Consensus       299 ~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a  376 (456)
                      ....++.|...+.+.+..  .|+.. -|..-+..+.+..+++.+..--++.++.  .||. .....+..+......+++|
T Consensus        22 ~~k~y~~ai~~y~raI~~--nP~~~~Y~tnralchlk~~~~~~v~~dcrralql--~~N~vk~h~flg~~~l~s~~~~ea   97 (284)
T KOG4642|consen   22 IPKRYDDAIDCYSRAICI--NPTVASYYTNRALCHLKLKHWEPVEEDCRRALQL--DPNLVKAHYFLGQWLLQSKGYDEA   97 (284)
T ss_pred             chhhhchHHHHHHHHHhc--CCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhc--ChHHHHHHHHHHHHHHhhccccHH
Confidence            334455566555554443  33332 2333444455555665555555555443  3332 2233334444555555666


Q ss_pred             HHHHHHh
Q 012804          377 INVFESM  383 (456)
Q Consensus       377 ~~~~~~~  383 (456)
                      +..+.++
T Consensus        98 I~~Lqra  104 (284)
T KOG4642|consen   98 IKVLQRA  104 (284)
T ss_pred             HHHHHHH
Confidence            6555554

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=88.35  E-value=47  Score=37.03  Aligned_cols=318  Identities=12%  Similarity=0.049  Sum_probs=158.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCC--CCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHH
Q 012804          117 SLMHCLFQLGKPDEANRVFQDMICGDL--TPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCK  194 (456)
Q Consensus       117 ~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  194 (456)
                      .+..+-.+++.+.+|...++.-.....  ......+..+...|..-+++|....+...-..     +...+ .-|.....
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a-----~~sl~-~qil~~e~ 1461 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFA-----DPSLY-QQILEHEA 1461 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhc-----CccHH-HHHHHHHh
Confidence            455566778889999988887311110  11223344444588899999888877764111     22222 33445678


Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhh-HHHHHHHHHHcCChHHHHH
Q 012804          195 AGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFG-YCTVIAAFVKIGRLKEATD  273 (456)
Q Consensus       195 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~  273 (456)
                      .|+++.|..-|+.+.+.+.. ...+++.++......+.++......+-..... .+.... ++.-..+--+.++++....
T Consensus      1462 ~g~~~da~~Cye~~~q~~p~-~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~-se~~~~~~s~~~eaaW~l~qwD~~e~ 1539 (2382)
T KOG0890|consen 1462 SGNWADAAACYERLIQKDPD-KEKHHSGVLKSMLAIQHLSTEILHLDGLIINR-SEEVDELNSLGVEAAWRLSQWDLLES 1539 (2382)
T ss_pred             hccHHHHHHHHHHhhcCCCc-cccchhhHHHhhhcccchhHHHhhhcchhhcc-CHHHHHHHHHHHHHHhhhcchhhhhh
Confidence            89999999999999876432 46667777777777777777776555554432 222222 2222333345666766666


Q ss_pred             HHHHHHHCCCccCHHHHHH--HHHHHHhc--CCHHHHHHHHHHHHHcCCCc---------CHHhHHHHHHHHHhcCCHHH
Q 012804          274 YMEQMVTDGVQLDIVSYNT--LINLYCKE--GKLEAAYLLLDEMEKQGFEC---------DKYTHTILIDGLCKAGNIKG  340 (456)
Q Consensus       274 ~~~~~~~~~~~~~~~~~~~--l~~~~~~~--~~~~~a~~~~~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~  340 (456)
                      .+.   ..    +..+|..  ++....+.  .+.-.-.+.++.+.+.-+.|         -...|..++....-.. .+.
T Consensus      1540 ~l~---~~----n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~e-l~~ 1611 (2382)
T KOG0890|consen 1540 YLS---DR----NIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLLE-LEN 1611 (2382)
T ss_pred             hhh---cc----cccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHHH-HHH
Confidence            554   11    1122221  22222222  12111112222222210110         0123333333222111 011


Q ss_pred             HHHHHHHHH-hCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHH----h--c----cCChhhHHHHHHHHHccCChhHHHH
Q 012804          341 ARLHLEYMN-KIGFDSNLEAYNCIVDRLGKDGKIDHAINVFES----M--E----VKDSFTYSSMVHNLCKAKRLPSASK  409 (456)
Q Consensus       341 a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~----~--~----~~~~~~~~~l~~~~~~~~~~~~A~~  409 (456)
                      -.+.+.... ......+...|..-+..-....+..+-+--+++    .  .    ..-...|...++.....|+++.|..
T Consensus      1612 ~~~~l~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~n 1691 (2382)
T KOG0890|consen 1612 SIEELKKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQN 1691 (2382)
T ss_pred             HHHHhhccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHHH
Confidence            111111100 000011111222222111111111111111111    1  1    1145678888888888888888888


Q ss_pred             HHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhcc
Q 012804          410 LLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAK  453 (456)
Q Consensus       410 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  453 (456)
                      .+-.+.+.+   -+..+...+.-++..|+...|..++++....+
T Consensus      1692 all~A~e~r---~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1692 ALLNAKESR---LPEIVLERAKLLWQTGDELNALSVLQEILSKN 1732 (2382)
T ss_pred             HHHhhhhcc---cchHHHHHHHHHHhhccHHHHHHHHHHHHHhh
Confidence            877776654   33445556677888888888888888877543

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=88.21  E-value=20  Score=32.69  Aligned_cols=89  Identities=11%  Similarity=0.151  Sum_probs=55.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH---HhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHH
Q 012804          326 TILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRL---GKDGKIDHAINVFESMEVK---DSFTYSSMVHNLC  399 (456)
Q Consensus       326 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~  399 (456)
                      +.++.-+.+.|-+++|...+..+.... +|+...+..++..-   ..+| ...++..++.+...   ++..|......-.
T Consensus       464 s~~l~~~~e~~~~~~ark~y~~l~~lp-p~sl~l~r~miq~e~~~~sc~-l~~~r~~yd~a~~~fg~d~~lw~~y~~~e~  541 (568)
T KOG2396|consen  464 SKYLDWAYESGGYKKARKVYKSLQELP-PFSLDLFRKMIQFEKEQESCN-LANIREYYDRALREFGADSDLWMDYMKEEL  541 (568)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHhCC-CccHHHHHHHHHHHhhHhhcC-chHHHHHHHHHHHHhCCChHHHHHHHHhhc
Confidence            345566667777777888777777653 56666666666532   2233 56666666666554   6666666666556


Q ss_pred             ccCChhHHHHHHHHHHH
Q 012804          400 KAKRLPSASKLLLSCLK  416 (456)
Q Consensus       400 ~~~~~~~A~~~~~~~~~  416 (456)
                      ..|+.+.+-.++.++.+
T Consensus       542 ~~g~~en~~~~~~ra~k  558 (568)
T KOG2396|consen  542 PLGRPENCGQIYWRAMK  558 (568)
T ss_pred             cCCCcccccHHHHHHHH
Confidence            66776666666666554

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=87.64  E-value=2.3  Score=39.06  Aligned_cols=99  Identities=13%  Similarity=0.022  Sum_probs=70.5

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHH
Q 012804          332 LCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSAS  408 (456)
Q Consensus       332 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~  408 (456)
                      +...|+...|...+..+..............|.....+.|-..+|-.++.+....   .+.++..+++++.-..+.++|+
T Consensus       617 wr~~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~~sepl~~~~~g~~~l~l~~i~~a~  696 (886)
T KOG4507|consen  617 WRAVGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAINSSEPLTFLSLGNAYLALKNISGAL  696 (886)
T ss_pred             eeecCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhcccCchHHHhcchhHHHHhhhHHHH
Confidence            3456888888888887765422222334556677777888888888888776554   6677788888899899999999


Q ss_pred             HHHHHHHHcCCCCCHHhHHHHHH
Q 012804          409 KLLLSCLKSGVRILKSAQKAVVD  431 (456)
Q Consensus       409 ~~~~~~~~~~~~~~~~~~~~l~~  431 (456)
                      +.|+++.+.... ++++-+.+..
T Consensus       697 ~~~~~a~~~~~~-~~~~~~~l~~  718 (886)
T KOG4507|consen  697 EAFRQALKLTTK-CPECENSLKL  718 (886)
T ss_pred             HHHHHHHhcCCC-ChhhHHHHHH
Confidence            999999877544 5665555544

>PRK09687 putative lyase; Provisional

Probab=87.50  E-value=17  Score=30.98  Aligned_cols=235  Identities=10%  Similarity=-0.049  Sum_probs=139.0

Q ss_pred             CCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCCh----hHHHHHHHHHHHCCCCCCHHh
Q 012804           39 LPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLL----SCSLDLLDEMLEMGIPPDVWS  114 (456)
Q Consensus        39 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~  114 (456)
                      .++.......+.++...|.. .+...+..+...   +|...-...+.++...|+.    .++...+..+....  ++..+
T Consensus        34 d~d~~vR~~A~~aL~~~~~~-~~~~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~D--~d~~V  107 (280)
T PRK09687         34 DHNSLKRISSIRVLQLRGGQ-DVFRLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALED--KSACV  107 (280)
T ss_pred             CCCHHHHHHHHHHHHhcCcc-hHHHHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhcC--CCHHH
Confidence            35666677777777777653 344444444442   4666666667777777763    45777777664432  55555


Q ss_pred             HHHHHHHHHhcCCh-----hHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHH
Q 012804          115 YNSLMHCLFQLGKP-----DEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILI  189 (456)
Q Consensus       115 ~~~l~~~~~~~~~~-----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  189 (456)
                      -...+.++...+..     ..+...+.....   .++..+-...+.++.+.++ ..++..+-.+.+.   ++...-...+
T Consensus       108 R~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~  180 (280)
T PRK09687        108 RASAINATGHRCKKNPLYSPKIVEQSQITAF---DKSTNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAA  180 (280)
T ss_pred             HHHHHHHHhcccccccccchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHH
Confidence            55566665555421     233444433332   3355666667777777776 4566666666553   3555555556


Q ss_pred             HHHHHcC-CHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCCh
Q 012804          190 KGLCKAG-RLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRL  268 (456)
Q Consensus       190 ~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  268 (456)
                      .++.+.+ ....+...+..+..   .++..+-...+.++.+.++. .+...+-...+.+   +  .....+.++...|+.
T Consensus       181 ~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~  251 (280)
T PRK09687        181 FALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAIIGLALRKDK-RVLSVLIKELKKG---T--VGDLIIEAAGELGDK  251 (280)
T ss_pred             HHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHHHHHccCCh-hHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH
Confidence            6666543 23456666666554   35667777777788887774 4555555555443   1  234677788888885


Q ss_pred             HHHHHHHHHHHHCCCccCHHHHHHHHHHHH
Q 012804          269 KEATDYMEQMVTDGVQLDIVSYNTLINLYC  298 (456)
Q Consensus       269 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  298 (456)
                       +|...+..+.+.  .||..+-...+.++.
T Consensus       252 -~a~p~L~~l~~~--~~d~~v~~~a~~a~~  278 (280)
T PRK09687        252 -TLLPVLDTLLYK--FDDNEIITKAIDKLK  278 (280)
T ss_pred             -hHHHHHHHHHhh--CCChhHHHHHHHHHh
Confidence             688888887764  346666666565553

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=87.10  E-value=6.7  Score=31.73  Aligned_cols=24  Identities=25%  Similarity=0.133  Sum_probs=12.7

Q ss_pred             HHHHHHHccCChHHHHHHHHHHHh
Q 012804          428 AVVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       428 ~l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      .++....+.|+.++|.++|.++..
T Consensus       170 LigeL~rrlg~~~eA~~~fs~vi~  193 (214)
T PF09986_consen  170 LIGELNRRLGNYDEAKRWFSRVIG  193 (214)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHc
Confidence            344455555555555555555544

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=86.97  E-value=1.7  Score=24.42  Aligned_cols=26  Identities=19%  Similarity=0.325  Sum_probs=18.5

Q ss_pred             HHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          393 SMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       393 ~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      .+..+|...|+.+.|.+++++.+..|
T Consensus         4 dLA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         4 DLARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcC
Confidence            46677777777777777777777543

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=86.88  E-value=2.6  Score=35.92  Aligned_cols=91  Identities=18%  Similarity=0.018  Sum_probs=62.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCc-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC
Q 012804          293 LINLYCKEGKLEAAYLLLDEMEKQGFEC-DKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDG  371 (456)
Q Consensus       293 l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  371 (456)
                      -..-|.++|.+++|+..|......  .| +..++..-..+|.+...+..|+.-...++..+ ..-...|+.-+.+-...|
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg  179 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLG  179 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHh
Confidence            345799999999999999988775  34 78888888889999999988887777766542 111223333333333445


Q ss_pred             CHHHHHHHHHHhccC
Q 012804          372 KIDHAINVFESMEVK  386 (456)
Q Consensus       372 ~~~~a~~~~~~~~~~  386 (456)
                      ...+|.+-++.+...
T Consensus       180 ~~~EAKkD~E~vL~L  194 (536)
T KOG4648|consen  180 NNMEAKKDCETVLAL  194 (536)
T ss_pred             hHHHHHHhHHHHHhh
Confidence            666666666655544

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=86.82  E-value=1.8  Score=24.40  Aligned_cols=24  Identities=17%  Similarity=0.207  Sum_probs=16.4

Q ss_pred             HHHHHHhhCcHHHHHHHHHHHHhc
Q 012804           13 CVCTFCKANRLEKAEAIIIDGIRL   36 (456)
Q Consensus        13 l~~~~~~~g~~~~A~~~~~~~~~~   36 (456)
                      +..+|...|+.+.|.+++++....
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~   28 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEE   28 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHc
Confidence            556677777777777777776653

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=86.69  E-value=21  Score=31.21  Aligned_cols=99  Identities=10%  Similarity=-0.123  Sum_probs=51.7

Q ss_pred             CcChhhHHHHHHHHHHcCC------------hHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 012804          249 TFDGFGYCTVIAAFVKIGR------------LKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQ  316 (456)
Q Consensus       249 ~~~~~~~~~l~~~~~~~~~------------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  316 (456)
                      |-|..+|-.++..--..-.            .+.-..+++++++.++ .+......++..+.+..+.++..+-++++...
T Consensus        16 P~di~~Wl~li~~Qd~~~~~~~~~~~~~~a~~E~klsilerAL~~np-~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~   94 (321)
T PF08424_consen   16 PHDIEAWLELIEFQDELFRLQSSSKAERRALAERKLSILERALKHNP-DSERLLLGYLEEGEKVWDSEKLAKKWEELLFK   94 (321)
T ss_pred             cccHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            5566666666554332211            2334455666665533 35556666666666666666666666666654


Q ss_pred             CCCcCHHhHHHHHHHHHh---cCCHHHHHHHHHHHH
Q 012804          317 GFECDKYTHTILIDGLCK---AGNIKGARLHLEYMN  349 (456)
Q Consensus       317 ~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~  349 (456)
                      .. -+...|...+.....   .-.++....+|.+.+
T Consensus        95 ~~-~~~~LW~~yL~~~q~~~~~f~v~~~~~~y~~~l  129 (321)
T PF08424_consen   95 NP-GSPELWREYLDFRQSNFASFTVSDVRDVYEKCL  129 (321)
T ss_pred             CC-CChHHHHHHHHHHHHHhccCcHHHHHHHHHHHH
Confidence            22 144555555544332   223455555555543

>smart00028 TPR Tetratricopeptide repeats

Probab=86.45  E-value=1.9  Score=21.33  Aligned_cols=29  Identities=14%  Similarity=0.075  Sum_probs=20.0

Q ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHhc
Q 012804            8 RLLNICVCTFCKANRLEKAEAIIIDGIRL   36 (456)
Q Consensus         8 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~   36 (456)
                      ..|..+...+...|++++|...++..++.
T Consensus         2 ~~~~~~a~~~~~~~~~~~a~~~~~~~~~~   30 (34)
T smart00028        2 EALYNLGNAYLKLGDYDEALEYYEKALEL   30 (34)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            34566667777777777777777776654

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=86.10  E-value=3.8  Score=29.72  Aligned_cols=65  Identities=9%  Similarity=0.076  Sum_probs=45.9

Q ss_pred             CCCHHHHHHHHHHHHhCCC---HHHHHHHHHHhccC-----ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          354 DSNLEAYNCIVDRLGKDGK---IDHAINVFESMEVK-----DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       354 ~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      .++..+--.+..++.+..+   ..+.+.+++...+.     .......|.-++.+.++++++.++.+.+++..
T Consensus        29 ~~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e  101 (149)
T KOG3364|consen   29 DVSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETE  101 (149)
T ss_pred             cchHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            5566666667777777655   45567777776642     34445567778888999999999988888663

>smart00028 TPR Tetratricopeptide repeats

Probab=86.04  E-value=1.4  Score=21.85  Aligned_cols=27  Identities=11%  Similarity=0.041  Sum_probs=17.0

Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHH
Q 012804          390 TYSSMVHNLCKAKRLPSASKLLLSCLK  416 (456)
Q Consensus       390 ~~~~l~~~~~~~~~~~~A~~~~~~~~~  416 (456)
                      .|..++..+...|++++|...+++.++
T Consensus         3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~   29 (34)
T smart00028        3 ALYNLGNAYLKLGDYDEALEYYEKALE   29 (34)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            455566666666666666666666654

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=85.90  E-value=9.7  Score=30.45  Aligned_cols=56  Identities=9%  Similarity=0.081  Sum_probs=31.0

Q ss_pred             HHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Q 012804          224 MKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVT  280 (456)
Q Consensus       224 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  280 (456)
                      +..+.+.+...+++...+.-.+.. |.+......+++.++-.|++++|..-++-.-.
T Consensus         8 ~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~   63 (273)
T COG4455           8 ISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAAT   63 (273)
T ss_pred             HHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhh
Confidence            344445555666666555555543 44455555556666666666666655554443

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=85.66  E-value=14  Score=29.87  Aligned_cols=29  Identities=7%  Similarity=-0.074  Sum_probs=21.5

Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          390 TYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       390 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      ....++....+.|+.++|.+.|.+++..+
T Consensus       167 l~YLigeL~rrlg~~~eA~~~fs~vi~~~  195 (214)
T PF09986_consen  167 LLYLIGELNRRLGNYDEAKRWFSRVIGSK  195 (214)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHcCC
Confidence            34455666678888888888888888664

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=85.32  E-value=13  Score=27.64  Aligned_cols=83  Identities=14%  Similarity=0.188  Sum_probs=47.3

Q ss_pred             HhHHHHHHHHHccCChhHHHHHHHHHHhCC-----CCCCHhHHHHHHHHHHcCCC-hhHHHHHHHHHHHCCCCCCHHhHH
Q 012804           43 VTYNMLIDAYCQFVSFDAGYTILNRMREAG-----ISPDVVTYNSLIAGATRNSL-LSCSLDLLDEMLEMGIPPDVWSYN  116 (456)
Q Consensus        43 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~  116 (456)
                      ...|.++.-....+++...+.+++.+....     -..+...|..++.+...... --.+..+|..|.+.+.++++.-|.
T Consensus        40 ~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~  119 (145)
T PF13762_consen   40 IFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYS  119 (145)
T ss_pred             HHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            344555555555555555555555553221     02345567777777655444 334556666676666677777777


Q ss_pred             HHHHHHHhc
Q 012804          117 SLMHCLFQL  125 (456)
Q Consensus       117 ~l~~~~~~~  125 (456)
                      .++.++.+-
T Consensus       120 ~li~~~l~g  128 (145)
T PF13762_consen  120 CLIKAALRG  128 (145)
T ss_pred             HHHHHHHcC
Confidence            777766554

>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=84.65  E-value=74  Score=35.69  Aligned_cols=150  Identities=15%  Similarity=0.092  Sum_probs=89.7

Q ss_pred             HHHHHHHcCCChhHHHHHHHHH----HHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHH
Q 012804           82 SLIAGATRNSLLSCSLDLLDEM----LEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGL  157 (456)
Q Consensus        82 ~l~~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  157 (456)
                      .+..+-.+.+.+.+|.-.++.-    .+.  ......|..+...|...++++...-+......   .|  .. ..-+...
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~--~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a---~~--sl-~~qil~~ 1459 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEK--ETEEALYFLLQNLYGSIHDPDGVEGVSARRFA---DP--SL-YQQILEH 1459 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchh--HHHHHHHHHHHHHHHhcCCcchhhhHHHHhhc---Cc--cH-HHHHHHH
Confidence            3445556778888888888873    221  11233344555589999999988877764211   22  22 2334456


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHH-HHHHHhcCchhHH
Q 012804          158 CKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTI-MKCCFRNRKYKLG  236 (456)
Q Consensus       158 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a  236 (456)
                      ...|+++.|...|+.+.+.+ ++...+++-++......+.++...-..+-.... ..+....++.+ ..+.-+.++++..
T Consensus      1460 e~~g~~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~-~se~~~~~~s~~~eaaW~l~qwD~~ 1537 (2382)
T KOG0890|consen 1460 EASGNWADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIIN-RSEEVDELNSLGVEAAWRLSQWDLL 1537 (2382)
T ss_pred             HhhccHHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcchhhc-cCHHHHHHHHHHHHHHhhhcchhhh
Confidence            67899999999999998873 334667777777767777777776655544332 12222223222 2333456666666


Q ss_pred             HHHHH
Q 012804          237 LEILS  241 (456)
Q Consensus       237 ~~~~~  241 (456)
                      .....
T Consensus      1538 e~~l~ 1542 (2382)
T KOG0890|consen 1538 ESYLS 1542 (2382)
T ss_pred             hhhhh
Confidence            55544

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=84.32  E-value=17  Score=28.14  Aligned_cols=40  Identities=10%  Similarity=-0.071  Sum_probs=19.6

Q ss_pred             HHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 012804          304 EAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKI  351 (456)
Q Consensus       304 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  351 (456)
                      ++|...|+...+.  .|+..+|+.-+...      .+|-.+..++.+.
T Consensus        97 ~kA~~~FqkAv~~--~P~ne~Y~ksLe~~------~kap~lh~e~~~~  136 (186)
T PF06552_consen   97 EKATEYFQKAVDE--DPNNELYRKSLEMA------AKAPELHMEIHKQ  136 (186)
T ss_dssp             HHHHHHHHHHHHH---TT-HHHHHHHHHH------HTHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhc--CCCcHHHHHHHHHH------HhhHHHHHHHHHH
Confidence            3444444444443  56666776666554      2345555555444

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=84.18  E-value=33  Score=31.24  Aligned_cols=126  Identities=11%  Similarity=0.074  Sum_probs=83.9

Q ss_pred             HHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCCh
Q 012804           14 VCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLL   93 (456)
Q Consensus        14 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   93 (456)
                      |.--...|+.-.|-+-+...++..+ .++.............|+++.+.+.+...... +.....+...+++...+.|++
T Consensus       296 i~k~~~~gd~~aas~~~~~~lr~~~-~~p~~i~l~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~  373 (831)
T PRK15180        296 ITKQLADGDIIAASQQLFAALRNQQ-QDPVLIQLRSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARW  373 (831)
T ss_pred             HHHHhhccCHHHHHHHHHHHHHhCC-CCchhhHHHHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhH
Confidence            3344456777766655555555432 23333334445556789999998888776543 334566778888888899999


Q ss_pred             hHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 012804           94 SCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGD  142 (456)
Q Consensus        94 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  142 (456)
                      ++|..+-+-|....++ ++..........-..|-++++.-.++++...+
T Consensus       374 ~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~  421 (831)
T PRK15180        374 REALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLN  421 (831)
T ss_pred             HHHHHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccC
Confidence            9999998888877666 44444444444556677888888888877654

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=84.05  E-value=20  Score=30.00  Aligned_cols=56  Identities=14%  Similarity=0.014  Sum_probs=23.6

Q ss_pred             HHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHH
Q 012804          189 IKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMK  244 (456)
Q Consensus       189 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  244 (456)
                      |.+++..++|.++..+.-+--+..-+..+.....-|-.|.+.+.+..+.++-+.-.
T Consensus        90 IQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL  145 (309)
T PF07163_consen   90 IQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWL  145 (309)
T ss_pred             HHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            44455555555554443333222112223333333334445555554444444444

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=83.79  E-value=44  Score=32.44  Aligned_cols=43  Identities=19%  Similarity=0.217  Sum_probs=27.2

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhc
Q 012804          117 SLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKN  160 (456)
Q Consensus       117 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  160 (456)
                      .++-.|.++|++++|.++....... .......+...+..+...
T Consensus       116 a~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s  158 (613)
T PF04097_consen  116 ALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASS  158 (613)
T ss_dssp             HHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTT
T ss_pred             HHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhC
Confidence            5677788888888888888554432 244455666667666654

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.

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=83.71  E-value=25  Score=29.49  Aligned_cols=129  Identities=12%  Similarity=0.094  Sum_probs=73.6

Q ss_pred             CchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcC-----CCCC--------HHhHHHHHHHHHccCChhHHHHHHHHHHhC
Q 012804            5 LSTRLLNICVCTFCKANRLEKAEAIIIDGIRLG-----VLPD--------VVTYNMLIDAYCQFVSFDAGYTILNRMREA   71 (456)
Q Consensus         5 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----~~~~--------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   71 (456)
                      |-+.......+.+.-..||..|++.-++..+.=     ...+        ......-|.+++..++|.++..+.-+--+.
T Consensus        33 ~a~~lLe~Aad~LvV~rdF~aal~tCerglqsL~~~a~~ee~~~~~~evK~sLcvvGIQALAEmnrWreVLsWvlqyYq~  112 (309)
T PF07163_consen   33 PAVSLLEEAADLLVVHRDFQAALETCERGLQSLASDADAEEPAGSSLEVKCSLCVVGIQALAEMNRWREVLSWVLQYYQV  112 (309)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchhhhhhhhhhhhHHHHHHHhhHHHHHHHHHHHhcC
Confidence            344555566666777888999888888766531     0111        112344567777788887777665444322


Q ss_pred             --CCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHh-----cCChhHHHHHH
Q 012804           72 --GISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQ-----LGKPDEANRVF  135 (456)
Q Consensus        72 --~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~  135 (456)
                        .++|.+-  ..=|-.|.+.++...+.++-..-...--.-+...|..++..|..     .|.+++|+++.
T Consensus       113 pEklPpkIl--eLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  113 PEKLPPKIL--ELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLLPLGHFSEAEELV  181 (309)
T ss_pred             cccCCHHHH--HHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHhccccHHHHHHHH
Confidence              1333333  33344467777777777776665553111122335555555443     47777777765

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=83.70  E-value=3.8  Score=26.45  Aligned_cols=45  Identities=11%  Similarity=0.021  Sum_probs=24.1

Q ss_pred             hhCcHHHHHHHHHHHHhcCCCCCH--HhHHHHHHHHHccCChhHHHH
Q 012804           19 KANRLEKAEAIIIDGIRLGVLPDV--VTYNMLIDAYCQFVSFDAGYT   63 (456)
Q Consensus        19 ~~g~~~~A~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~   63 (456)
                      .+++.++|+..|..+++.-..+..  .++..++.+++..|++.++++
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~   64 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLA   64 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555666666666666654333221  144555555666666555544

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human

Probab=83.52  E-value=44  Score=32.15  Aligned_cols=76  Identities=8%  Similarity=0.016  Sum_probs=28.1

Q ss_pred             HHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012804          272 TDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMN  349 (456)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  349 (456)
                      ....+.++.+-+..+......++..|.+.|-.+.|.++.+.+-.+-.  ...-|...+.-+.+.|+......+...+.
T Consensus       390 ~~~i~~lL~~~p~~t~~~~~k~l~iC~~~~L~~~a~~I~~~~~~~~~--~~~~~g~AL~~~~ra~d~~~v~~i~~~ll  465 (566)
T PF07575_consen  390 RERIEELLPRVPLDTNDDAEKLLEICAELGLEDVAREICKILGQRLL--KEGRYGEALSWFIRAGDYSLVTRIADRLL  465 (566)
T ss_dssp             HHHHHHHGGG----SHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHH--HHHHHHHHHHHHH----------------
T ss_pred             HHHHHHHHhhCCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH--HCCCHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            33444444432333445556666666677766666666665543311  12234444444555555555444444443

Nup85 Nucleoporin is an essential component of the nuclear pore complex (NPC) that seems to be required for NPC assembly and maintenance. As part of the NPC Nup107-160 subcomplex plays a role in RNA export and in tethering NUP98/Nup98 and NUP153 to the nucleus. The Nup107-160 complex seems to be required for spindle assembly during mitosis. NUP85 is required for membrane clustering of CCL2-activated CCR2. Seems to be involved in CCR2-mediated chemotaxis of monocytes and may link activated CCR2 to the phosphatidyl-inositol-3-kinase-Rac-lammellipodium protrusion cascade [, , ]. ; PDB: 3F3F_D 3F3P_G 3F3G_G 3EWE_B.

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=83.23  E-value=12  Score=26.92  Aligned_cols=43  Identities=5%  Similarity=0.076  Sum_probs=20.1

Q ss_pred             HHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012804          272 TDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEME  314 (456)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  314 (456)
                      .+-++.+...++.|++......++++.+.+|+..|.++|+-++
T Consensus        69 rkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK  111 (149)
T KOG4077|consen   69 RKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIK  111 (149)
T ss_pred             HHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            3333444444444444444444444444445444444444444

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=83.23  E-value=5.2  Score=28.55  Aligned_cols=43  Identities=16%  Similarity=0.032  Sum_probs=24.7

Q ss_pred             HHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHh
Q 012804          409 KLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       409 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      +-+..+...++-|++......+++|++.+++..|.++|+-++.
T Consensus        70 kglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~  112 (149)
T KOG4077|consen   70 KGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKD  112 (149)
T ss_pred             HHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            3344444445556666666666666666666666666665543

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=83.08  E-value=12  Score=25.53  Aligned_cols=76  Identities=13%  Similarity=0.086  Sum_probs=39.3

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHH--HHHHhCCCHHHHHHHHHHhccCChhhHHHHHHHHHccCChhHHHHHHHHHH
Q 012804          338 IKGARLHLEYMNKIGFDSNLEAYNCIV--DRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCL  415 (456)
Q Consensus       338 ~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  415 (456)
                      .++|..+-+-+...+   +..-...+|  ..+...|++++|..+.+...-+|...|.++  +-.+.|-.+++..-+-++-
T Consensus        21 HqEA~tIAdwL~~~~---~~~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~AL--ce~rlGl~s~l~~rl~rla   95 (115)
T TIGR02508        21 HQEANTIADWLHLKG---ESEEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLAL--CEWRLGLGSALESRLNRLA   95 (115)
T ss_pred             HHHHHHHHHHHhcCC---chHHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHH--HHHhhccHHHHHHHHHHHH
Confidence            356666655555432   111112222  245566777777777666655566655544  2245555555555555554


Q ss_pred             HcC
Q 012804          416 KSG  418 (456)
Q Consensus       416 ~~~  418 (456)
                      ..|
T Consensus        96 ~sg   98 (115)
T TIGR02508        96 ASG   98 (115)
T ss_pred             hCC
Confidence            443

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.

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.06  E-value=55  Score=32.94  Aligned_cols=62  Identities=5%  Similarity=-0.024  Sum_probs=40.3

Q ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHH-hHHHHHH---HHHccCChhHHHHHHHHHHhC
Q 012804           10 LNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVV-TYNMLID---AYCQFVSFDAGYTILNRMREA   71 (456)
Q Consensus        10 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~l~~---~~~~~~~~~~a~~~~~~~~~~   71 (456)
                      +..=+..+....++++|..+.+.....++.-... .+.....   -+..+|++++|.+.|.++...
T Consensus       310 ~~~qi~~lL~~k~fe~ai~L~e~~~~~~p~~~~~i~~~~~l~~a~~lf~q~~f~ea~~~F~~~~~d  375 (877)
T KOG2063|consen  310 FEKQIQDLLQEKSFEEAISLAEILDSPNPKEKRQISCIKILIDAFELFLQKQFEEAMSLFEKSEID  375 (877)
T ss_pred             hHHHHHHHHHhhhHHHHHHHHhccCCCChHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhhccC
Confidence            6666788888899999999888665433221111 1111112   245688999999999988753

>PRK11619 lytic murein transglycosylase; Provisional

Probab=82.92  E-value=49  Score=32.30  Aligned_cols=250  Identities=12%  Similarity=0.037  Sum_probs=125.5

Q ss_pred             HHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCC
Q 012804           83 LIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRY  162 (456)
Q Consensus        83 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  162 (456)
                      .+..+.+.+++....+.+.     ..+.+...-.....+....|+.++|......+-..| ...+.....++..+.+.|.
T Consensus       105 ~l~~La~~~~w~~~~~~~~-----~~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g-~~~p~~cd~l~~~~~~~g~  178 (644)
T PRK11619        105 FVNELARREDWRGLLAFSP-----EKPKPVEARCNYYYAKWATGQQQEAWQGAKELWLTG-KSLPNACDKLFSVWQQSGK  178 (644)
T ss_pred             HHHHHHHccCHHHHHHhcC-----CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-CCCChHHHHHHHHHHHcCC
Confidence            3444555666665555221     123455555566777777888777777766665555 4445666677777765554


Q ss_pred             hHHH--HHHHHHHHhCCCCCcHHHHHHHHHHHH------------HcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH-
Q 012804          163 TDNA--LRMFRGLQKHGFVPELVTYNILIKGLC------------KAGRLRTARWILKELGDSGHAPNAITYTTIMKCC-  227 (456)
Q Consensus       163 ~~~a--~~~~~~~~~~~~~~~~~~~~~l~~~~~------------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-  227 (456)
                      ....  .+-++.+...|   +...-..+.....            -..+...+...+..     +.++...-..++.++ 
T Consensus       179 lt~~d~w~R~~~al~~~---~~~lA~~l~~~l~~~~~~~a~a~~al~~~p~~~~~~~~~-----~~~~~~~~~~~~~~l~  250 (644)
T PRK11619        179 QDPLAYLERIRLAMKAG---NTGLVTYLAKQLPADYQTIASALIKLQNDPNTVETFART-----TGPTDFTRQMAAVAFA  250 (644)
T ss_pred             CCHHHHHHHHHHHHHCC---CHHHHHHHHHhcChhHHHHHHHHHHHHHCHHHHHHHhhc-----cCCChhhHHHHHHHHH
Confidence            4332  22222222222   1111111111110            00111111111111     112221111111111 


Q ss_pred             -HhcCchhHHHHHHHHHHHcC-CCcCh--hhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCH
Q 012804          228 -FRNRKYKLGLEILSAMKRKG-YTFDG--FGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKL  303 (456)
Q Consensus       228 -~~~~~~~~a~~~~~~~~~~~-~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  303 (456)
                       ....+.+.|...+....... ..+..  .....+.......+..+++...+.......  .+......-+..-...+++
T Consensus       251 Rlar~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~~--~~~~~~e~r~r~Al~~~dw  328 (644)
T PRK11619        251 SVARQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMRS--QSTSLLERRVRMALGTGDR  328 (644)
T ss_pred             HHHHhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccccc--CCcHHHHHHHHHHHHccCH
Confidence             23455678888888765443 22111  122333333333322556666666554332  2444455555566688899


Q ss_pred             HHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012804          304 EAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMN  349 (456)
Q Consensus       304 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  349 (456)
                      +.+...+..|.... .-...-.-.+.+++...|+.++|..+|+.+.
T Consensus       329 ~~~~~~i~~L~~~~-~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a  373 (644)
T PRK11619        329 RGLNTWLARLPMEA-KEKDEWRYWQADLLLEQGRKAEAEEILRQLM  373 (644)
T ss_pred             HHHHHHHHhcCHhh-ccCHhhHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            88888888875532 2244455667777777899999999998874

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=82.72  E-value=28  Score=29.39  Aligned_cols=175  Identities=14%  Similarity=0.074  Sum_probs=87.8

Q ss_pred             hHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHH----Hc----CCCcCHHhHHHHHHHH-H----h
Q 012804          268 LKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEME----KQ----GFECDKYTHTILIDGL-C----K  334 (456)
Q Consensus       268 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~----~~~~~~~~~~~l~~~~-~----~  334 (456)
                      ..+|+++|.-++.+.-+  ..+-+.++..+....+..+|...+....    +.    +.. ...+...  +.| .    -
T Consensus       149 s~KA~ELFayLv~hkgk--~v~~~~~ie~lwpe~D~kka~s~lhTtvyqlRKaLs~L~~n-e~vts~d--~~Ykld~~~~  223 (361)
T COG3947         149 SRKALELFAYLVEHKGK--EVTSWEAIEALWPEKDEKKASSLLHTTVYQLRKALSRLNAN-EAVTSQD--RKYKLDAGLP  223 (361)
T ss_pred             hhHHHHHHHHHHHhcCC--cccHhHHHHHHccccchhhHHHHHHHHHHHHHHHhchhccC-ceEEEcC--CceEEecCCc
Confidence            35788888888876322  3344567777888888888877665432    10    000 0000000  000 0    0


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHH-----HhccCChhhHHHHHHHHHccCChhHHHH
Q 012804          335 AGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFE-----SMEVKDSFTYSSMVHNLCKAKRLPSASK  409 (456)
Q Consensus       335 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~A~~  409 (456)
                      .-++.+-+...+.+...  ..+..-+..++..| +-+-++++.-.|.     ...+.-...+......|...|.+.+|.+
T Consensus       224 k~Dv~e~es~~rqi~~i--nltide~kelv~~y-kgdyl~e~~y~Waedererle~ly~kllgkva~~yle~g~~neAi~  300 (361)
T COG3947         224 KYDVQEYESLARQIEAI--NLTIDELKELVGQY-KGDYLPEADYPWAEDERERLEQLYMKLLGKVARAYLEAGKPNEAIQ  300 (361)
T ss_pred             cccHHHHHHHhhhhhcc--ccCHHHHHHHHHHh-cCCcCCccccccccchHHHHHHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            01222333333333322  23334444444333 1111111111111     1111122344455677778888888888


Q ss_pred             HHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHh
Q 012804          410 LLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       410 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      +.++.+..+ +.+...+..+...+...|+--.|.+-++++.+
T Consensus       301 l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya~  341 (361)
T COG3947         301 LHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYAE  341 (361)
T ss_pred             HHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHHH
Confidence            888887664 33666777777888888887777776666543

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=82.33  E-value=13  Score=25.11  Aligned_cols=52  Identities=13%  Similarity=0.009  Sum_probs=25.3

Q ss_pred             CHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCC-CHhHHHHHHHHHHcCCC
Q 012804           41 DVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISP-DVVTYNSLIAGATRNSL   92 (456)
Q Consensus        41 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~   92 (456)
                      |......+...+...|+++.|++.+-.+.+..... +...-..++..+.-.|.
T Consensus        21 D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~dr~~~~~~ar~~ll~~f~~lg~   73 (90)
T PF14561_consen   21 DLDARYALADALLAAGDYEEALDQLLELVRRDRDYEDDAARKRLLDIFELLGP   73 (90)
T ss_dssp             -HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-TTCCCCHHHHHHHHHHHHH-T
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccccccHHHHHHHHHHHHcCC
Confidence            55555556666666666666666666665543221 23334445555544444

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.13  E-value=52  Score=32.08  Aligned_cols=103  Identities=9%  Similarity=-0.032  Sum_probs=68.1

Q ss_pred             HHHHHHhhCcHHHHHHHHHHHHhcCCCC---CHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHc
Q 012804           13 CVCTFCKANRLEKAEAIIIDGIRLGVLP---DVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATR   89 (456)
Q Consensus        13 l~~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   89 (456)
                      =++.+.+.+.+++|+...+....  ..|   -.......+..+.-.|++++|-...-.|...    +..-|..-+..+..
T Consensus       362 hi~Wll~~k~yeeAl~~~k~~~~--~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn----~~~eWe~~V~~f~e  435 (846)
T KOG2066|consen  362 HIDWLLEKKKYEEALDAAKASIG--NEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGN----NAAEWELWVFKFAE  435 (846)
T ss_pred             hHHHHHHhhHHHHHHHHHHhccC--CccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcc----hHHHHHHHHHHhcc
Confidence            36788899999999998775432  222   2335677888888889999998888887743    56667666666666


Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHh
Q 012804           90 NSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQ  124 (456)
Q Consensus        90 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  124 (456)
                      .++......   -+.......+...|..++..+..
T Consensus       436 ~~~l~~Ia~---~lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  436 LDQLTDIAP---YLPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             ccccchhhc---cCCCCCcccCchHHHHHHHHHHH
Confidence            665443322   22322222456678888777776

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=82.01  E-value=4  Score=24.11  Aligned_cols=37  Identities=8%  Similarity=-0.028  Sum_probs=25.7

Q ss_pred             HHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHH
Q 012804          391 YSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAV  429 (456)
Q Consensus       391 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l  429 (456)
                      ...+.-++.+.|++++|.+..+.+++.  .|+..-...|
T Consensus         4 lY~lAig~ykl~~Y~~A~~~~~~lL~~--eP~N~Qa~~L   40 (53)
T PF14853_consen    4 LYYLAIGHYKLGEYEKARRYCDALLEI--EPDNRQAQSL   40 (53)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHH--TTS-HHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhh--CCCcHHHHHH
Confidence            345677888999999999999998866  5665554444

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=81.97  E-value=28  Score=28.91  Aligned_cols=207  Identities=15%  Similarity=0.061  Sum_probs=131.5

Q ss_pred             CCCCCHHhHHHHHHH-HHhcCChhHHHHHHHHHHhCCCCCChh---HHHHHHHHHHhcCChHHHHHHHHHHHhC---CC-
Q 012804          107 GIPPDVWSYNSLMHC-LFQLGKPDEANRVFQDMICGDLTPCTA---TFNIMLNGLCKNRYTDNALRMFRGLQKH---GF-  178 (456)
Q Consensus       107 ~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~-  178 (456)
                      +-+||+..=+..-.. -.+..++++|+.-|++..+..-.....   ..-.++....+.+++++....+.++..-   .+ 
T Consensus        21 ~sEpdVDlENQYYnsK~l~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVT  100 (440)
T KOG1464|consen   21 NSEPDVDLENQYYNSKGLKEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVT  100 (440)
T ss_pred             CCCCCcchHhhhhccccccccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHh
Confidence            455666554432221 124457899999999988763233333   3345688899999999999999888642   11 


Q ss_pred             -CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhh-----CCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCc--
Q 012804          179 -VPELVTYNILIKGLCKAGRLRTARWILKELGD-----SGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTF--  250 (456)
Q Consensus       179 -~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--  250 (456)
                       .-+..+.|.++.......+.+-....++.-..     .+-..--.|-..+...|...+.+....+++.++.......  
T Consensus       101 rNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edG  180 (440)
T KOG1464|consen  101 RNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDG  180 (440)
T ss_pred             ccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccC
Confidence             12455677777776666676666666654322     1112222344567788889999999999999887542111  


Q ss_pred             ---------ChhhHHHHHHHHHHcCChHHHHHHHHHHHHC-CCccCHHHHHHHH----HHHHhcCCHHHHHHHHHHH
Q 012804          251 ---------DGFGYCTVIAAFVKIGRLKEATDYMEQMVTD-GVQLDIVSYNTLI----NLYCKEGKLEAAYLLLDEM  313 (456)
Q Consensus       251 ---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~----~~~~~~~~~~~a~~~~~~~  313 (456)
                               -...|..-++.|....+-.....++++.+.. ..-|.+.....+-    ..+.+.|++++|..-|-+.
T Consensus       181 edD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGKMHlreg~fe~AhTDFFEA  257 (440)
T KOG1464|consen  181 EDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGKMHLREGEFEKAHTDFFEA  257 (440)
T ss_pred             chhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCccccccchHHHHHhHHHHH
Confidence                     1245677788888888888888888877653 2345555444332    2345678888886544443

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=81.77  E-value=4.4  Score=26.17  Aligned_cols=46  Identities=11%  Similarity=-0.051  Sum_probs=29.9

Q ss_pred             ccCChhHHHHHHHHHHHcCCCCC--HHhHHHHHHHHHccCChHHHHHH
Q 012804          400 KAKRLPSASKLLLSCLKSGVRIL--KSAQKAVVDGLRHSGCRREAKKI  445 (456)
Q Consensus       400 ~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~  445 (456)
                      ...+.++|+..++++++.-..|.  ..++..+..++...|++.+++++
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66677777777777776633322  23455666777778887777665

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=81.23  E-value=37  Score=29.72  Aligned_cols=98  Identities=13%  Similarity=0.008  Sum_probs=59.5

Q ss_pred             cCHHHHHHHHHHHHhcCC------------HHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 012804          285 LDIVSYNTLINLYCKEGK------------LEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIG  352 (456)
Q Consensus       285 ~~~~~~~~l~~~~~~~~~------------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  352 (456)
                      -|+.+|..++..--..-.            .+.-+.+++++.+.+. -+......++..+.+..+.+...+-++.+....
T Consensus        17 ~di~~Wl~li~~Qd~~~~~~~~~~~~~~a~~E~klsilerAL~~np-~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~   95 (321)
T PF08424_consen   17 HDIEAWLELIEFQDELFRLQSSSKAERRALAERKLSILERALKHNP-DSERLLLGYLEEGEKVWDSEKLAKKWEELLFKN   95 (321)
T ss_pred             ccHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence            378888877764333211            2344566777666632 355566667777777777777777777777652


Q ss_pred             CCCCHHHHHHHHHHHHh---CCCHHHHHHHHHHhc
Q 012804          353 FDSNLEAYNCIVDRLGK---DGKIDHAINVFESME  384 (456)
Q Consensus       353 ~~~~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~  384 (456)
                       +.+...|...+.....   .-.++....+|.+..
T Consensus        96 -~~~~~LW~~yL~~~q~~~~~f~v~~~~~~y~~~l  129 (321)
T PF08424_consen   96 -PGSPELWREYLDFRQSNFASFTVSDVRDVYEKCL  129 (321)
T ss_pred             -CCChHHHHHHHHHHHHHhccCcHHHHHHHHHHHH
Confidence             4466777777765433   234556666665443

>PRK12798 chemotaxis protein; Reviewed

Probab=81.05  E-value=41  Score=30.16  Aligned_cols=153  Identities=12%  Similarity=0.055  Sum_probs=74.9

Q ss_pred             cCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHH-hcCCHHHHHHHHHHHHHc--CCCcCHHhHHHHHHHHHhcCCHHHH
Q 012804          265 IGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYC-KEGKLEAAYLLLDEMEKQ--GFECDKYTHTILIDGLCKAGNIKGA  341 (456)
Q Consensus       265 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a  341 (456)
                      .|+..++.+.+..+.....++....+..|+.+-. ...++.+|+.+|+...-.  |--........-+......|+.++.
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            4666666666666665555555555555555433 344666677766665432  1111122333344445566666665


Q ss_pred             HHHHHHHHhC-CCCCCHH-HHHHHHHHHHh---CCCHHHHHHHHHHhccC-ChhhHHHHHHHHHccCChhHHHHHHHHHH
Q 012804          342 RLHLEYMNKI-GFDSNLE-AYNCIVDRLGK---DGKIDHAINVFESMEVK-DSFTYSSMVHNLCKAKRLPSASKLLLSCL  415 (456)
Q Consensus       342 ~~~~~~~~~~-~~~~~~~-~~~~l~~~~~~---~g~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  415 (456)
                      ..+-....++ ...|=.. .+..+...+.+   .-..+.-..++..|... ....|..+.+.-.-.|+.+-|.-.-+++.
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            5555444332 1122111 11222222222   22233334444444333 44566666666666777766666666665


Q ss_pred             Hc
Q 012804          416 KS  417 (456)
Q Consensus       416 ~~  417 (456)
                      ..
T Consensus       285 ~L  286 (421)
T PRK12798        285 KL  286 (421)
T ss_pred             Hh
Confidence            44

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=80.88  E-value=33  Score=28.89  Aligned_cols=34  Identities=18%  Similarity=0.086  Sum_probs=20.4

Q ss_pred             HHHHHHHccCChhHHHHHHHHH----HHcCCCCCHHhH
Q 012804          393 SMVHNLCKAKRLPSASKLLLSC----LKSGVRILKSAQ  426 (456)
Q Consensus       393 ~l~~~~~~~~~~~~A~~~~~~~----~~~~~~~~~~~~  426 (456)
                      .++.++.+.|.+.+|+.++...    .+.+-+|+-.+.
T Consensus       130 Kli~l~y~~~~YsdalalIn~ll~ElKk~DDK~~Li~v  167 (421)
T COG5159         130 KLIYLLYKTGKYSDALALINPLLHELKKYDDKINLITV  167 (421)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHHHHHhhcCccceeeh
Confidence            4667777888888887665443    333445544443

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=80.74  E-value=34  Score=28.96  Aligned_cols=70  Identities=17%  Similarity=0.205  Sum_probs=46.3

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-----HcCCCcCHHhH
Q 012804          255 YCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEME-----KQGFECDKYTH  325 (456)
Q Consensus       255 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~~  325 (456)
                      +......|..+|.+.+|..+.+.....+ +.+...+-.++..+...|+--.+.+-++.+.     +.|+..+...+
T Consensus       282 lgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsie  356 (361)
T COG3947         282 LGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSIE  356 (361)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhHH
Confidence            3445667777888888888888777764 3366667777788888887666666666653     23555544433

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=80.53  E-value=34  Score=28.93  Aligned_cols=116  Identities=11%  Similarity=0.127  Sum_probs=65.4

Q ss_pred             CHHHHHHHHHHHhh-CCCCCCHHHHHHHHHHHHh-cC-chhHHHHHHHHHHHc-CCCcChhhHHHHHHHHHHcCChHHHH
Q 012804          197 RLRTARWILKELGD-SGHAPNAITYTTIMKCCFR-NR-KYKLGLEILSAMKRK-GYTFDGFGYCTVIAAFVKIGRLKEAT  272 (456)
Q Consensus       197 ~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~-~~-~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~  272 (456)
                      ...+|+.+|+.... ..+.-|..+...+++.... .+ ....-.++.+-+... +..++..+...++..++..+++..-.
T Consensus       143 ~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~  222 (292)
T PF13929_consen  143 IVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLF  222 (292)
T ss_pred             HHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHH
Confidence            34555566553222 2233466666666665544 11 222222333333322 23556666667777777777777777


Q ss_pred             HHHHHHHHC-CCccCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012804          273 DYMEQMVTD-GVQLDIVSYNTLINLYCKEGKLEAAYLLLDE  312 (456)
Q Consensus       273 ~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  312 (456)
                      ++++..... +...|...|...+......|+..-...+.++
T Consensus       223 ~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  223 QFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             HHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            777766654 4555677777777777777776655555543

---

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	456
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-17
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-16
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-15
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-15
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	1e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 83.3 bits (204), Expect = 4e-17
 Identities = 32/261 (12%), Positives = 76/261 (29%), Gaps = 33/261 (12%)

Query: 63  TILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCL 122
            + +  R+A  SP       L+  A     L        +  +  +        +   C 
Sbjct: 78  CLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCC 137

Query: 123 FQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPEL 182
               +   A+ +                                L +  G ++   +  L
Sbjct: 138 LLTDQLPLAHHL--------------------------------LVVHHGQRQKRKLLTL 165

Query: 183 VTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFR-NRKYKLGLEILS 241
             YN ++ G  + G  +   ++L  + D+G  P+ ++Y   ++C  R ++        L 
Sbjct: 166 DMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLE 225

Query: 242 AMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEG 301
            M ++G          +++   +   LK                  V+ + L+     + 
Sbjct: 226 QMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKD 285

Query: 302 KLEAAYLLLDEMEKQGFECDK 322
              +   L   ++      +K
Sbjct: 286 GRVSYPKLHLPLKTLQCLFEK 306

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 79.5 bits (194), Expect = 8e-16
 Identities = 21/180 (11%), Positives = 54/180 (30%), Gaps = 4/180 (2%)

Query: 19  KANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMRE---AGISP 75
               L+  +A      +  +                       + +L             
Sbjct: 104 GKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLL 163

Query: 76  DVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEA-NRV 134
            +  YN+++ G  R       + +L  + + G+ PD+ SY + + C+ +  +      R 
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERC 223

Query: 135 FQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCK 194
            + M    L        ++L+   +        ++         +P  V  + L++ +  
Sbjct: 224 LEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYA 283

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 78.3 bits (191), Expect = 1e-15
 Identities = 21/166 (12%), Positives = 59/166 (35%), Gaps = 8/166 (4%)

Query: 9   LLNICVCTFCKANRLEKAEAIII---DGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTIL 65
               C       ++L  A  +++      +   L  +  YN ++  + +  +F     +L
Sbjct: 133 FFKCC----LLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVL 188

Query: 66  NRMREAGISPDVVTYNSLIAGATR-NSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQ 124
             +++AG++PD+++Y + +    R +         L++M + G+         L+    +
Sbjct: 189 FMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDR 248

Query: 125 LGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMF 170
                  ++V          P     + +L  +       +  ++ 
Sbjct: 249 ATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLH 294

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 77.9 bits (190), Expect = 2e-15
 Identities = 29/254 (11%), Positives = 71/254 (27%), Gaps = 11/254 (4%)

Query: 168 RMFRGLQKHGFVPELVTYNILIKGLCKAGRL---RTARWILKELGDSGHAPNAITYTTIM 224
           RM R   K     +   +  L + L    RL   + A  +      +  +P       ++
Sbjct: 40  RMQRLKAKLQMPFQSGEFKALTRRLQVEPRLLSKQMAGCLEDCTRQAPESPWEEQLARLL 99

Query: 225 KCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEA---TDYMEQMVTD 281
           +         +         +   +             +   +L  A             
Sbjct: 100 QEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQK 159

Query: 282 GVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGA 341
              L +  YN ++  + ++G  +    +L  ++  G   D  ++   +  + +     G 
Sbjct: 160 RKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGT 219

Query: 342 RLH-LEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESME----VKDSFTYSSMVH 396
               LE M++ G          ++    +   +     V  +      +      S ++ 
Sbjct: 220 IERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLR 279

Query: 397 NLCKAKRLPSASKL 410
           ++       S  KL
Sbjct: 280 DVYAKDGRVSYPKL 293

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 54.4 bits (129), Expect = 6e-08
 Identities = 14/144 (9%), Positives = 46/144 (31%), Gaps = 1/144 (0%)

Query: 5   LSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGY-T 63
           L+  + N  +  + +    ++   ++      G+ PD+++Y   +    +          
Sbjct: 163 LTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIER 222

Query: 64  ILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLF 123
            L +M + G+    +    L++   R ++L     +          P   + + L+  ++
Sbjct: 223 CLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVY 282

Query: 124 QLGKPDEANRVFQDMICGDLTPCT 147
                    ++   +         
Sbjct: 283 AKDGRVSYPKLHLPLKTLQCLFEK 306

>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 = 59.5 bits (143), Expect = 1e-09
 Identities = 64/410 (15%), Positives = 116/410 (28%), Gaps = 132/410 (32%)

Query: 120 HCLFQLGKPDEANR----VFQDMICGDLTPCTATFNIMLNGLCKNRYTD---------NA 166
           H  F+ G+     +    VF+D    +   C    ++  + L K                
Sbjct: 6   HMDFETGEHQYQYKDILSVFEDAFVDNFD-CKDVQDMPKSILSKEEIDHIIMSKDAVSGT 64

Query: 167 LRMFRGLQKHG------FVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITY 220
           LR+F  L          FV E++  N               ++++  +      P+ +T 
Sbjct: 65  LRLFWTLLSKQEEMVQKFVEEVLRINY--------------KFLMSPIKTEQRQPSMMTR 110

Query: 221 TTIMKCCFRNR---------KY-----KLGLEILSAMKR----KGYTFDGFGYC--TVIA 260
             I +   R+R         KY     +  L++  A+      K    DG      T +A
Sbjct: 111 MYIEQ---RDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVA 167

Query: 261 A----------------F-VKIGRLKEATDYMEQMVTDGVQLD-----IVSYNTLINLYC 298
                            F + +         +E +     Q+D        +++ I L  
Sbjct: 168 LDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI 227

Query: 299 KEGKLEAAYLLLDEMEKQGFECDKYTHTILI-DGLCKAGNIKGARLHLEYMNKIGFDSNL 357
              + E   LL  +          Y + +L+   +  A                 F+   
Sbjct: 228 HSIQAELRRLLKSK---------PYENCLLVLLNVQNAKAWN------------AFN--- 263

Query: 358 EAYNC----------IVDRLG----KDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKR 403
              +C          + D L         +DH        EVK        +   C+ + 
Sbjct: 264 --LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL--LKYLD--CRPQD 317

Query: 404 LPSASK----LLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKI 449
           LP          LS +   +R       A  D  +H  C +    I+S +
Sbjct: 318 LPREVLTTNPRRLSIIAESIRD----GLATWDNWKHVNCDKLTTIIESSL 363

>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 = 58.3 bits (140), Expect = 4e-09
 Identities = 59/370 (15%), Positives = 100/370 (27%), Gaps = 123/370 (33%)

Query: 89  RNSLLSCSLDLLDEMLEMGIPPDVWSYNSL----MHCLFQLGKPDEANRVF---QDMICG 141
            N LL     +L          +V +  +     + C           ++    +     
Sbjct: 244 ENCLL-----VLL---------NVQNAKAWNAFNLSC-----------KILLTTRFKQVT 278

Query: 142 DLTPCTATFNIMLNGLCKNRYTDNALRMFR---GLQKHGFVPELVTYNILIKGLCKAGRL 198
           D      T +I L+        D    +       +      E++T N     +     +
Sbjct: 279 DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAE-SI 337

Query: 199 R--TARWI-LKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGY 255
           R   A W   K +       N    TTI++           L +L   + +      F  
Sbjct: 338 RDGLATWDNWKHV-------NCDKLTTIIESS---------LNVLEPAEYRKM----FDR 377

Query: 256 CTVIAAFVKI-----GRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLL 310
            +V      I       +       + M        +V  N L             Y L+
Sbjct: 378 LSVFPPSAHIPTILLSLIWFDVIKSDVM-------VVV--NKLHK-----------YSLV 417

Query: 311 DEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKD 370
              EKQ  E      +I ++   K  N     LH      I     ++ YN        D
Sbjct: 418 ---EKQPKESTISIPSIYLELKVKLENE--YALH----RSI-----VDHYNIPKTFDSDD 463

Query: 371 GKIDHAINVFESMEVKDSFTYSSMVHNLCKA---KRLPSASKLLLSCLKSGVRILKSAQK 427
               +           D + YS + H+L      +R+     + L       R L+  QK
Sbjct: 464 LIPPYL----------DQYFYSHIGHHLKNIEHPERMTLFRMVFLD-----FRFLE--QK 506

Query: 428 AVVDGLRHSG 437
                +RH  
Sbjct: 507 -----IRHDS 511

>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 = 49.5 bits (117), Expect = 2e-06
 Identities = 72/409 (17%), Positives = 131/409 (32%), Gaps = 121/409 (29%)

Query: 23  LEKAEAIIIDGIRLGVLPDVVTYNMLIDAYC--------QFV--SFDAGYT-ILNRMREA 71
           L K E   ID I +     V     L             +FV       Y  +++ ++  
Sbjct: 46  LSKEE---IDHI-IMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTE 101

Query: 72  GISPDVVT--YNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWS---YNSLMHCLFQLG 126
              P ++T  Y        R+ L + +        ++    +V     Y  L   L +L 
Sbjct: 102 QRQPSMMTRMYIE-----QRDRLYNDN--------QVFAKYNVSRLQPYLKLRQALLEL- 147

Query: 127 KPDEANRVFQDMI-CG-----------DLTPCTATFNIM-LN-GLCKNRYTDNALRMFRG 172
           +P   N +   ++  G               C   F I  LN   C +   +  L M   
Sbjct: 148 RP-AKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNS--PETVLEM--- 201

Query: 173 LQK--HGFVPELVTYNILIKGLCKAGRLRT--ARWILKELGDSGHAPNAITYTTIMKCCF 228
           LQK  +   P   + +     +    +LR    +  L+ L                    
Sbjct: 202 LQKLLYQIDPNWTSRSDHSSNI----KLRIHSIQAELRRL-------------------L 238

Query: 229 RNRKYKLGLEILSAMKRKGYTFDGFGY-CTVIAAFVKIGRLKEATDYMEQMVTDGVQLDI 287
           +++ Y+  L +L  ++     ++ F   C ++       R K+ TD++    T  + LD 
Sbjct: 239 KSKPYENCLLVLLNVQNAK-AWNAFNLSCKILL----TTRFKQVTDFLSAATTTHISLD- 292

Query: 288 VSYNTLINLYCKEGK-LEAAYLLLD------EMEKQGFECDKYTHTILIDGLCKAGNIKG 340
              +  + L   E K L   YL         E+          T+   +       +I  
Sbjct: 293 ---HHSMTLTPDEVKSLLLKYLDCRPQDLPREVLT--------TNPRRL-------SIIA 334

Query: 341 ARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSF 389
             +  + +       N +  NC  D+L     I+ ++NV E  E +  F
Sbjct: 335 ESIR-DGLATW---DNWKHVNC--DKLTT--IIESSLNVLEPAEYRKMF 375

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 43.3 bits (102), Expect = 1e-04
 Identities = 28/208 (13%), Positives = 59/208 (28%), Gaps = 14/208 (6%)

Query: 105 EMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTD 164
           + GI  +             L   D A   +++ +  D     A   ++ N L       
Sbjct: 193 DGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEW 252

Query: 165 NALRMFRGLQKHGFVPELVT--YNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTT 222
           + +               +   Y + +        LR A   L  +  +G   ++     
Sbjct: 253 DLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSI--NGLEKSSDLLLC 310

Query: 223 IMKCCFRNRKYKLGLEILS-AMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTD 281
                F   ++   L I +  ++   Y  D   Y   +A+  + G   +       +   
Sbjct: 311 KADTLFVRSRFIDVLAITTKILEIDPYNLD--VYPLHLASLHESGEKNKLYLISNDL--- 365

Query: 282 GVQLD---IVSYNTLINLYCKEGKLEAA 306
            V       V++  +   Y    K+  A
Sbjct: 366 -VDRHPEKAVTWLAVGIYYLCVNKISEA 392

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	456
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	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.97
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.96
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.96
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.96
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.96
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.94
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.93
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.93
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.92
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.92
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.92
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.92
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.91
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.91
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.88
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.88
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.86
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.86
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.86
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.86
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.85
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.85
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.85
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.85
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.85
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.84
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.83
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.83
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.81
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.78
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.77
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.77
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.77
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.77
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.77
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.76
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.75
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.75
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.75
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.75
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.75
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.74
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.74
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.72
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.72
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.72
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.71
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.71
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.71
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.71
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.7
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.7
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.68
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.68
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.67
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.66
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.66
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.66
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.65
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.65
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.64
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.64
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.63
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.62
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.62
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.59
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.57
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.56
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.55
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.54
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.53
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.52
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.51
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.51
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.51
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.49
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.49
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.48
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.41
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.41
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.38
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.37
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.36
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.34
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.33
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.32
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.31
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.31
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.28
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.28
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.27
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.27
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.27
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.25
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.24
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.23
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.23
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.22
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.21
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.21
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.21
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.18
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.18
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.18
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.17
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.16
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.14
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.12
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.12
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.1
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.08
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.03
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.03
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.02
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.02
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.01
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.0
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.99
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.99
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.98
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.98
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.97
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.97
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.96
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.95
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.94
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.93
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.92
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.91
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.91
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.89
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.89
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.89
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.88
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.88
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.87
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.87
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.87
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.86
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.85
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.83
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.81
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.81
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.8
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.79
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.79
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.79
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.77
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.76
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.76
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.75
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.74
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.73
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.72
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.71
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.69
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.68
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.68
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.67
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.67
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.64
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.64
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.63
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.62
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.61
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.58
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.57
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.56
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.55
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.54
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.53
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.53
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.48
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.47
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.46
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.46
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.44
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.44
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.44
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.42
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.42
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.4
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.39
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.38
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.35
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.3
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.29
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.27
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.26
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.25
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.23
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.16
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.13
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.1
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.09
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.08
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.04
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.03
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.98
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.93
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.93
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.92
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.68
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.67
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.67
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.52
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.46
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.44
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.38
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.38
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.38
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.35
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.35
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.29
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.27
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.26
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.21
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	97.15
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.92
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.69
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.55
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.55
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.54
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.5
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.49
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	96.4
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.08
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.99
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.93
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	95.83
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	95.39
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.34
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	95.19
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	95.05
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	94.8
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.62
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	94.53
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	94.48
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.18
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.12
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	94.01
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	93.81
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	93.23
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	93.12
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.01
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	92.73
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	91.71
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	90.99
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	90.54
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	90.51
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	88.49
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	88.15
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	88.01
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	86.34
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	85.71
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	85.63
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	85.05
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	84.98
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	83.86
4b4t_S	523	RPN3, 26S proteasome regulatory subunit RPN3; hydr	83.17
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	81.81
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	80.58

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=7.1e-43  Score=330.64  Aligned_cols=440  Identities=13%  Similarity=0.028  Sum_probs=387.9

Q ss_pred             CCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHH
Q 012804            4 KLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSL   83 (456)
Q Consensus         4 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   83 (456)
                      .+++..|+.++..|.+.|++++|+.+|+++...  .|+..++..++.+|.+.|++++|..+|+.+...  +++..+++.+
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l  156 (597)
T 2xpi_A           81 LSREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLA  156 (597)
T ss_dssp             -CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHH
Confidence            368889999999999999999999999999865  467788999999999999999999999988654  6789999999


Q ss_pred             HHHHHcCCChhHHHHHHHHHHHC---------------CCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChh
Q 012804           84 IAGATRNSLLSCSLDLLDEMLEM---------------GIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTA  148 (456)
Q Consensus        84 ~~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  148 (456)
                      +.+|.+.|++++|.++|+++...               +.+++..+|+.++.+|.+.|++++|.++|+++...+ +.+..
T Consensus       157 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~  235 (597)
T 2xpi_A          157 AFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVD-AKCYE  235 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-chhhH
Confidence            99999999999999999853322               223468899999999999999999999999998765 33444


Q ss_pred             HHHHH--------------------------------------HHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHH
Q 012804          149 TFNIM--------------------------------------LNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIK  190 (456)
Q Consensus       149 ~~~~l--------------------------------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  190 (456)
                      .+..+                                      +..|.+.|++++|.++|+++.+.  +++..+++.++.
T Consensus       236 ~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~  313 (597)
T 2xpi_A          236 AFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKAD  313 (597)
T ss_dssp             HHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHH
T ss_pred             HHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHH
Confidence            43333                                      44556788999999999998875  579999999999


Q ss_pred             HHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHH
Q 012804          191 GLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKE  270 (456)
Q Consensus       191 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  270 (456)
                      .|.+.|++++|..+|+++...+.. +..++..++.++...|++++|..+++.+.+.. +.+..++..++..|.+.|++++
T Consensus       314 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~  391 (597)
T 2xpi_A          314 TLFVRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISE  391 (597)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHH
Confidence            999999999999999999876543 77889999999999999999999999999765 6778899999999999999999


Q ss_pred             HHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 012804          271 ATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNK  350 (456)
Q Consensus       271 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  350 (456)
                      |.++|+++.+... .+..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..++..++.+|.+.|++++|..+|+++.+
T Consensus       392 A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  469 (597)
T 2xpi_A          392 ARRYFSKSSTMDP-QFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYA  469 (597)
T ss_dssp             HHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999999988643 378899999999999999999999999999864 34788999999999999999999999999998


Q ss_pred             CCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC--------C--hhhHHHHHHHHHccCChhHHHHHHHHHHHcCCC
Q 012804          351 IGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK--------D--SFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVR  420 (456)
Q Consensus       351 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--------~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  420 (456)
                      .. +.+..+|..++..|.+.|++++|.++|+++...        +  ..+|..++.+|.+.|++++|.+.++++.+.+ +
T Consensus       470 ~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p  547 (597)
T 2xpi_A          470 LF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-T  547 (597)
T ss_dssp             HC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-S
T ss_pred             hC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-C
Confidence            74 667899999999999999999999999998653        2  5689999999999999999999999999886 3


Q ss_pred             CCHHhHHHHHHHHHccCChHHHHHHHHHHHhcccCC
Q 012804          421 ILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKISH  456 (456)
Q Consensus       421 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  456 (456)
                      .+..+|..++.+|.+.|++++|.++++++.+.++.+
T Consensus       548 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~  583 (597)
T 2xpi_A          548 NDANVHTAIALVYLHKKIPGLAITHLHESLAISPNE  583 (597)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             CChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCC
Confidence            488999999999999999999999999999877653

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=3.7e-39  Score=305.22  Aligned_cols=419  Identities=11%  Similarity=0.009  Sum_probs=366.0

Q ss_pred             CchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhC-------------
Q 012804            5 LSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREA-------------   71 (456)
Q Consensus         5 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------------   71 (456)
                      |+..++..++..|.+.|++++|+.+|+.+...  +++..+++.++.+|.+.|++++|.++|+++...             
T Consensus       115 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  192 (597)
T 2xpi_A          115 GNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQ  192 (597)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CC
T ss_pred             CCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCcccccccccccccc
Confidence            57788999999999999999999999998653  578899999999999999999999999853221             


Q ss_pred             --CCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHH-------------------------------
Q 012804           72 --GISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSL-------------------------------  118 (456)
Q Consensus        72 --~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------------------------------  118 (456)
                        +.+++..+|+.++.+|.+.|++++|.++|+++.+.++. +...+..+                               
T Consensus       193 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  271 (597)
T 2xpi_A          193 DGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAK-CYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFL  271 (597)
T ss_dssp             CSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHH
T ss_pred             ccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCch-hhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHH
Confidence              22346889999999999999999999999999986533 33333333                               


Q ss_pred             -------HHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHH
Q 012804          119 -------MHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKG  191 (456)
Q Consensus       119 -------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  191 (456)
                             +..|.+.|++++|.++|+++...  +++..+|+.++..+.+.|++++|+.+|+++.+.+ +.+..++..++.+
T Consensus       272 ~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~  348 (597)
T 2xpi_A          272 RSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLAS  348 (597)
T ss_dssp             HHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHH
T ss_pred             HHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHH
Confidence                   44556788999999999998865  6889999999999999999999999999998764 3477889999999


Q ss_pred             HHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHH
Q 012804          192 LCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEA  271 (456)
Q Consensus       192 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  271 (456)
                      +.+.|++++|..+++.+.... +.+..++..++.+|.+.|++++|.++|+++.+.. +.+..++..++.++.+.|++++|
T Consensus       349 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A  426 (597)
T 2xpi_A          349 LHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQA  426 (597)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            999999999999999998653 3478899999999999999999999999999875 56788999999999999999999


Q ss_pred             HHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 012804          272 TDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKI  351 (456)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  351 (456)
                      .++|+++.+.+. .+..++..++.+|.+.|++++|.++|+++.+.. +.+..+|..++..|.+.|++++|..+|+++.+.
T Consensus       427 ~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  504 (597)
T 2xpi_A          427 ISAYTTAARLFQ-GTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLL  504 (597)
T ss_dssp             HHHHHHHHHTTT-TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCc-cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            999999998743 478899999999999999999999999999864 347889999999999999999999999999876


Q ss_pred             ----CCCCC--HHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCC
Q 012804          352 ----GFDSN--LEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRIL  422 (456)
Q Consensus       352 ----~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~  422 (456)
                          +..|+  ..+|..++.+|.+.|++++|.+.|+++...   +..+|..++.+|.+.|++++|.+.++++++..+. +
T Consensus       505 ~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~-~  583 (597)
T 2xpi_A          505 VKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISPN-E  583 (597)
T ss_dssp             HHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-C
T ss_pred             hhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC-C
Confidence                55777  789999999999999999999999998764   7889999999999999999999999999988644 6


Q ss_pred             HHhHHHHHHHHH
Q 012804          423 KSAQKAVVDGLR  434 (456)
Q Consensus       423 ~~~~~~l~~~~~  434 (456)
                      +..+..+..+|.
T Consensus       584 ~~~~~~l~~~~~  595 (597)
T 2xpi_A          584 IMASDLLKRALE  595 (597)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHh
Confidence            777777776654

>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=100.00  E-value=4.1e-31  Score=236.22  Aligned_cols=380  Identities=12%  Similarity=0.029  Sum_probs=234.9

Q ss_pred             HHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCC
Q 012804           13 CVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSL   92 (456)
Q Consensus        13 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   92 (456)
                      +...+.+.|++++|++.++.+.+..+. +...+..+...+...|++++|...++...+.. +.+..+|..+...+.+.|+
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQEPD-NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCC
Confidence            345677788888888888887776543 55667777777777888888888887777653 4466777777888888888


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHH
Q 012804           93 LSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRG  172 (456)
Q Consensus        93 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  172 (456)
                      +++|.+.|+++.+..+ .+..+|..+..++.+.|++++|.+.|+++.+.+ +.+...+..+...+...|++++|.+.|++
T Consensus        83 ~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  160 (388)
T 1w3b_A           83 LQEAIEHYRHALRLKP-DFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCc-chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            8888888887776532 245567777777777777777777777777654 44455566666677777777777777777


Q ss_pred             HHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcCh
Q 012804          173 LQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDG  252 (456)
Q Consensus       173 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  252 (456)
                      +.+.. +.+..+|..+...+...|++++|...|+++...++. +...+..+...+...|++++|...+++..+.. +.  
T Consensus       161 al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~--  235 (388)
T 1w3b_A          161 AIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PN--  235 (388)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TT--
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cC--
Confidence            66542 234556666666666666666666666665553221 33444444444444455555444444444432 22  


Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHH
Q 012804          253 FGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGL  332 (456)
Q Consensus       253 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  332 (456)
                                                       +..++..+..+|...|++++|...++++.+.+. .+..++..+...+
T Consensus       236 ---------------------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~  281 (388)
T 1w3b_A          236 ---------------------------------HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANAL  281 (388)
T ss_dssp             ---------------------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHH
T ss_pred             ---------------------------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHHH
Confidence                                             344455555555555555555555555554321 1344555555555


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHH
Q 012804          333 CKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASK  409 (456)
Q Consensus       333 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~  409 (456)
                      .+.|++++|...++++.+.. +.+..++..++..+.+.|++++|.+.++++...   +..++..++.++.+.|++++|.+
T Consensus       282 ~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~  360 (388)
T 1w3b_A          282 KEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALM  360 (388)
T ss_dssp             HHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHH
Confidence            55556666665555555542 445555666666666666666666666655544   34556666666677777777777


Q ss_pred             HHHHHHHcCCCCCHHhHHHHHHHHHccC
Q 012804          410 LLLSCLKSGVRILKSAQKAVVDGLRHSG  437 (456)
Q Consensus       410 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g  437 (456)
                      .++++++..+. +...+..++.++...|
T Consensus       361 ~~~~a~~~~p~-~~~a~~~lg~~~~~~~  387 (388)
T 1w3b_A          361 HYKEAIRISPT-FADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             HHHHHHTTCTT-CHHHHHHHHHHHHHTC
T ss_pred             HHHHHHhhCCC-CHHHHHhHHHHHHHcc
Confidence            77777655322 5566666666665554

>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=100.00  E-value=5.2e-31  Score=235.53  Aligned_cols=362  Identities=12%  Similarity=0.002  Sum_probs=280.3

Q ss_pred             HHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChH
Q 012804           85 AGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTD  164 (456)
Q Consensus        85 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  164 (456)
                      ..+.+.|++++|.+.++.+.+..+ .+...+..+...+...|++++|...++...... +.+..+|..+...+.+.|+++
T Consensus         7 ~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~   84 (388)
T 1w3b_A            7 HREYQAGDFEAAERHCMQLWRQEP-DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHH
Confidence            445556666666666666655432 244455555666666666777766666666554 555666667777777777777


Q ss_pred             HHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHH
Q 012804          165 NALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMK  244 (456)
Q Consensus       165 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  244 (456)
                      +|+..|+++.+.. +.+..++..+..++...|++++|...|+++....+. +...+..+...+...|++++|...++++.
T Consensus        85 ~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al  162 (388)
T 1w3b_A           85 EAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            7777777666542 234556667777777777777777777776654322 44556666777777788888888888877


Q ss_pred             HcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHh
Q 012804          245 RKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYT  324 (456)
Q Consensus       245 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  324 (456)
                      +.. +.+..++..+...+...|++++|...|+++.+.++. +...+..+...+...|++++|...+++...... .+..+
T Consensus       163 ~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~  239 (388)
T 1w3b_A          163 ETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVV  239 (388)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHH
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-CCHHH
Confidence            764 556677888888888888999999999888886433 677888999999999999999999999987642 36788


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHcc
Q 012804          325 HTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKA  401 (456)
Q Consensus       325 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~  401 (456)
                      +..+...+...|++++|...++++.+.. +.+..++..++.++.+.|++++|.+.|+++...   +..++..++..+...
T Consensus       240 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  318 (388)
T 1w3b_A          240 HGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQ  318 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHc
Confidence            9999999999999999999999999874 556889999999999999999999999998765   778899999999999


Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhcccC
Q 012804          402 KRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKIS  455 (456)
Q Consensus       402 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  455 (456)
                      |++++|.+.++++++.. +.+..++..++.++.+.|++++|...++++.+..+.
T Consensus       319 g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~  371 (388)
T 1w3b_A          319 GNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT  371 (388)
T ss_dssp             TCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTT
T ss_pred             CCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            99999999999998764 347889999999999999999999999999887654

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=8.7e-32  Score=243.76  Aligned_cols=206  Identities=15%  Similarity=0.174  Sum_probs=175.3

Q ss_pred             HHHHHHHHHHhcCCCCCHH-hHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCC---------hh
Q 012804           25 KAEAIIIDGIRLGVLPDVV-TYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSL---------LS   94 (456)
Q Consensus        25 ~A~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~   94 (456)
                      .+..+.+.+.+.+..+.+. .++.+|.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.+.         ++
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            4455666676666655544 5888899999999999999999999999999999999999999987654         67


Q ss_pred             HHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 012804           95 CSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQ  174 (456)
Q Consensus        95 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  174 (456)
                      .|.++|++|...|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|.
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            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhc
Q 012804          175 KHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRN  230 (456)
Q Consensus       175 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  230 (456)
                      +.|+.||..+|+.|+.+|++.|++++|.+++++|.+.+..|+..||+.++..+...
T Consensus       168 ~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          168 ESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             hcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999998888753

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=1.9e-31  Score=241.58  Aligned_cols=189  Identities=17%  Similarity=0.241  Sum_probs=182.0

Q ss_pred             hHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCC---------hhHHHHHHHHHHhCCCCCCH
Q 012804            7 TRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVS---------FDAGYTILNRMREAGISPDV   77 (456)
Q Consensus         7 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~~a~~~~~~~~~~~~~~~~   77 (456)
                      ...++.+|++|++.|++++|+++|++|.+.|+.||..+||.+|.+|++.+.         .+.|.++|++|.+.|+.||.
T Consensus        26 e~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~  105 (501)
T 4g26_A           26 EALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNE  105 (501)
T ss_dssp             HHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCH
Confidence            346888999999999999999999999999999999999999999987664         67899999999999999999


Q ss_pred             hHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHH
Q 012804           78 VTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGL  157 (456)
Q Consensus        78 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  157 (456)
                      .+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.|+.+|
T Consensus       106 ~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~  185 (501)
T 4g26_A          106 ATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVS  185 (501)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHc
Q 012804          158 CKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKA  195 (456)
Q Consensus       158 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  195 (456)
                      ++.|+.++|.+++++|.+.|..|+..||+.++..|...
T Consensus       186 ~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          186 MDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             hhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999988764

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.97  E-value=7e-28  Score=223.77  Aligned_cols=404  Identities=10%  Similarity=-0.034  Sum_probs=293.3

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIA   85 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   85 (456)
                      .+..+......+.+.|++++|+..|+++++.+  |+..++..+..++.+.|++++|.+.++.+.+.+ +.+..++..+..
T Consensus         5 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~   81 (514)
T 2gw1_A            5 YALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRAS   81 (514)
T ss_dssp             HHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHH
Confidence            45678888999999999999999999999976  588999999999999999999999999999875 446788999999


Q ss_pred             HHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhC------------------------
Q 012804           86 GATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICG------------------------  141 (456)
Q Consensus        86 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------------------------  141 (456)
                      ++...|++++|.+.|+++...+.. +......++..+........+.+.+..+...                        
T Consensus        82 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (514)
T 2gw1_A           82 ANEGLGKFADAMFDLSVLSLNGDF-NDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPS  160 (514)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSSSC-CGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCC
T ss_pred             HHHHHhhHHHHHHHHHHHHhcCCC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCch
Confidence            999999999999999999987643 4444444444444332222222222111100                        


Q ss_pred             -----------CC---------CCChhHHHHHHHHHHh---cCChHHHHHHHHHHHh-----CCC--------CCcHHHH
Q 012804          142 -----------DL---------TPCTATFNIMLNGLCK---NRYTDNALRMFRGLQK-----HGF--------VPELVTY  185 (456)
Q Consensus       142 -----------~~---------~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~~~--------~~~~~~~  185 (456)
                                 ..         +.+...+......+..   .|++++|...++++.+     ...        +.+...+
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  240 (514)
T 2gw1_A          161 VTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISL  240 (514)
T ss_dssp             HHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHH
Confidence                       00         0113334444444443   7888888888888776     311        1234566


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHc
Q 012804          186 NILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKI  265 (456)
Q Consensus       186 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  265 (456)
                      ..+...+...|++++|...++.+......  ...+..+..++...|++++|...++.+.+.. +.+...+..+..++...
T Consensus       241 ~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  317 (514)
T 2gw1_A          241 EHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFIL  317 (514)
T ss_dssp             HHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHh
Confidence            77777888888888888888887765433  6777777888888888888888888887765 55666777778888888


Q ss_pred             CChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHH
Q 012804          266 GRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHL  345 (456)
Q Consensus       266 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  345 (456)
                      |++++|...++++...... +...+..+...+...|++++|...++.+.+.. +.+..++..+...+...|++++|...+
T Consensus       318 ~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~  395 (514)
T 2gw1_A          318 QNYDQAGKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQY  395 (514)
T ss_dssp             TCTTHHHHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            8888888888888776433 56677777888888888888888888877653 225667777788888888888888888


Q ss_pred             HHHHhCCC-CCC----HHHHHHHHHHHHh---CCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHH
Q 012804          346 EYMNKIGF-DSN----LEAYNCIVDRLGK---DGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSC  414 (456)
Q Consensus       346 ~~~~~~~~-~~~----~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~  414 (456)
                      +.+.+... .++    ...+..++.++..   .|++++|.+.++++...   +..++..++.++...|++++|.+.++++
T Consensus       396 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  475 (514)
T 2gw1_A          396 DLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEES  475 (514)
T ss_dssp             HHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            88765421 111    2367777788888   88888888888877654   5667777888888888888888888888


Q ss_pred             HHcC
Q 012804          415 LKSG  418 (456)
Q Consensus       415 ~~~~  418 (456)
                      ++..
T Consensus       476 ~~~~  479 (514)
T 2gw1_A          476 ADLA  479 (514)
T ss_dssp             HHHC
T ss_pred             HHhc
Confidence            7764

>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=99.96  E-value=1.4e-26  Score=216.20  Aligned_cols=427  Identities=11%  Similarity=0.027  Sum_probs=229.5

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIA   85 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   85 (456)
                      .+..|..+...+.+.|++++|+..|+++++..+ .++.++..+..++.+.|++++|++.|+++.+.+ +.+..++..+..
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~  101 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELDP-NEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRAS  101 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHH
Confidence            356778888999999999999999999998875 478899999999999999999999999998875 446788888999


Q ss_pred             HHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCC------CCCChhHHHHHHHHHHh
Q 012804           86 GATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGD------LTPCTATFNIMLNGLCK  159 (456)
Q Consensus        86 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~  159 (456)
                      ++...|++++|.+.|+.+ ...  |+.  ....+..+...+...+|...++.+....      ..|+..    .+..+..
T Consensus       102 ~~~~~g~~~~A~~~~~~~-~~~--~~~--~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~----~~~~~~~  172 (537)
T 3fp2_A          102 ANESLGNFTDAMFDLSVL-SLN--GDF--DGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNT----SLASFFG  172 (537)
T ss_dssp             HHHHHTCHHHHHHHHHHH-C---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHH----HHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHH-hcC--CCC--ChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHh----HHHHHHH
Confidence            999999999999999633 322  222  2223445555666678888888876531      112222    2222333


Q ss_pred             cCChHHHHHHHHHHHhCCCCCcHH-HHHHHHHHHH--------HcCCHHHHHHHHHHHhhCCCCCCH-------HHHHHH
Q 012804          160 NRYTDNALRMFRGLQKHGFVPELV-TYNILIKGLC--------KAGRLRTARWILKELGDSGHAPNA-------ITYTTI  223 (456)
Q Consensus       160 ~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~--------~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l  223 (456)
                      ..+.+.+...+......  .+... ....+...+.        ..|++++|..+++.+....+. +.       .++..+
T Consensus       173 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~  249 (537)
T 3fp2_A          173 IFDSHLEVSSVNTSSNY--DTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTV-DDPLRENAALALCYT  249 (537)
T ss_dssp             TSCHHHHHHTSCCCCSS--CSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CC-CHHHHHHHHHHHHHH
T ss_pred             hcChHHHHHHHhhcccc--ccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCC-cchhhHHHHHHHHHH
Confidence            33333333222221111  11111 1111111111        112455555555555443221 11       123334


Q ss_pred             HHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCH
Q 012804          224 MKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKL  303 (456)
Q Consensus       224 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  303 (456)
                      ...+...|++++|...++.+.+..  |+...+..+...+...|++++|...++++.+... .+..++..+...+...|++
T Consensus       250 g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~  326 (537)
T 3fp2_A          250 GIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLNP-EYPPTYYHRGQMYFILQDY  326 (537)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCC-CCHHHHHHHHHHHHhcCCH
Confidence            444455555555555555555542  2244455555555555555555555555554422 2444555555555555555


Q ss_pred             HHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHh
Q 012804          304 EAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESM  383 (456)
Q Consensus       304 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  383 (456)
                      ++|...++++.+... .+...+..+...+...|++++|...++.+.+.. +.+...+..++..+...|++++|.+.|+++
T Consensus       327 ~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  404 (537)
T 3fp2_A          327 KNAKEDFQKAQSLNP-ENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIA  404 (537)
T ss_dssp             HHHHHHHHHHHHHCT-TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            555555555554321 133445555555555555555555555555442 333445555555555555555555555554


Q ss_pred             ccC---------ChhhHHHHHHHHHcc----------CChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHH
Q 012804          384 EVK---------DSFTYSSMVHNLCKA----------KRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKK  444 (456)
Q Consensus       384 ~~~---------~~~~~~~l~~~~~~~----------~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  444 (456)
                      ...         ....+.....++...          |++++|+..++++++..+ .+..++..++.++...|++++|..
T Consensus       405 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~l~~~~~~~g~~~~A~~  483 (537)
T 3fp2_A          405 KRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDP-RSEQAKIGLAQLKLQMEKIDEAIE  483 (537)
T ss_dssp             HHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccHHHHHH
Confidence            433         111122333444444          555555555555554432 244555555555555555555555


Q ss_pred             HHHHHHhc
Q 012804          445 IQSKIRMA  452 (456)
Q Consensus       445 ~~~~~~~~  452 (456)
                      .+++..+.
T Consensus       484 ~~~~al~~  491 (537)
T 3fp2_A          484 LFEDSAIL  491 (537)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            55555443

>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=99.96  E-value=2.4e-25  Score=203.01  Aligned_cols=387  Identities=10%  Similarity=0.019  Sum_probs=214.3

Q ss_pred             HHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHH
Q 012804           24 EKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEM  103 (456)
Q Consensus        24 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  103 (456)
                      ..+...+.++....+ .+...+..+...+.+.|++++|+.+|+.+.+.. +.+..++..+..++...|++++|.+.++++
T Consensus         9 ~~~~~~~~~~~~~~p-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a   86 (450)
T 2y4t_A            9 SGVDLGTENLYFQSM-ADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKV   86 (450)
T ss_dssp             --------------C-HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ccccccccccccccH-HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            344455555555543 366677888888888888888888888887653 346777788888888888888888888888


Q ss_pred             HHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCh---hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 012804          104 LEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCT---ATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVP  180 (456)
Q Consensus       104 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  180 (456)
                      .+.+.. +..++..+..+|.+.|++++|.+.|+++.... +.+.   ..+..+...+..                     
T Consensus        87 l~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~---------------------  143 (450)
T 2y4t_A           87 IQLKMD-FTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEM---------------------  143 (450)
T ss_dssp             HHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHH---------------------
T ss_pred             HhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHH---------------------
Confidence            776533 56777778888888888888888888887654 3334   555555433100                     


Q ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHH
Q 012804          181 ELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIA  260 (456)
Q Consensus       181 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  260 (456)
                        ..+..+...+...|++++|...++.+..... .+...+..+..++...|++++|...++++.+.. +.+..++..+..
T Consensus       144 --~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  219 (450)
T 2y4t_A          144 --QRLRSQALNAFGSGDYTAAIAFLDKILEVCV-WDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKIST  219 (450)
T ss_dssp             --HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence              0111122334444555555555554444321 234444445555555555555555555554442 334444555555


Q ss_pred             HHHHcCChHHHHHHHHHHHHCCCccCHHHHHHH------------HHHHHhcCCHHHHHHHHHHHHHcCCCcC-----HH
Q 012804          261 AFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTL------------INLYCKEGKLEAAYLLLDEMEKQGFECD-----KY  323 (456)
Q Consensus       261 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~  323 (456)
                      ++...|++++|...++++....+. +...+..+            +..+...|++++|...++++.+..  |+     ..
T Consensus       220 ~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~  296 (450)
T 2y4t_A          220 LYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVR  296 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-hHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHH
Confidence            555555555555555555443211 22222222            555666666666666666665532  22     23


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHH---
Q 012804          324 THTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHN---  397 (456)
Q Consensus       324 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~---  397 (456)
                      .+..++..+.+.|++++|...++.+.+.. +.+...+..++.+|...|++++|...++++...   ++..+..+..+   
T Consensus       297 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  375 (450)
T 2y4t_A          297 SKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRL  375 (450)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHH
Confidence            45555666666666666666666665542 345566666666666666666666666665544   34444444422   


Q ss_pred             ---------HHccC-----ChhHHHHHHHH-HHHcCCC--CCH-------HhHHHHHHHHHccCChHHHH
Q 012804          398 ---------LCKAK-----RLPSASKLLLS-CLKSGVR--ILK-------SAQKAVVDGLRHSGCRREAK  443 (456)
Q Consensus       398 ---------~~~~~-----~~~~A~~~~~~-~~~~~~~--~~~-------~~~~~l~~~~~~~g~~~~A~  443 (456)
                               |...|     +.+++.+.+++ .++..+.  |+.       ..+..+..+|...|+.+.+.
T Consensus       376 ~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l~~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~~~r~  445 (450)
T 2y4t_A          376 LKQSQKRDYYKILGVKRNAKKQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPEMRK  445 (450)
T ss_dssp             HHHHHSCCSGGGSCSSTTCCTTHHHHHHHHHHHHSCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGGGGC-
T ss_pred             hhcccchhHHHHhCCCccCCHHHHHHHHHHHHHHhCCCCCCCchHHHHHHHHHHHHHHHHHHhCCHHHHH
Confidence                     33333     56777888886 4433221  222       25666777777777766544

>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=99.96  E-value=5e-25  Score=200.97  Aligned_cols=306  Identities=9%  Similarity=-0.020  Sum_probs=237.1

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHH
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNS   82 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   82 (456)
                      .|.++..+..+...+.+.|++++|+.+|+.+.+..+ .+..++..+..++...|++++|...|+++.+.+ +.+..++..
T Consensus        22 ~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~   99 (450)
T 2y4t_A           22 SMADVEKHLELGKKLLAAGQLADALSQFHAAVDGDP-DNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQ   99 (450)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHH
Confidence            567889999999999999999999999999998764 478899999999999999999999999999875 446788999


Q ss_pred             HHHHHHcCCChhHHHHHHHHHHHCCCCCCH---HhHHHH------------HHHHHhcCChhHHHHHHHHHHhCCCCCCh
Q 012804           83 LIAGATRNSLLSCSLDLLDEMLEMGIPPDV---WSYNSL------------MHCLFQLGKPDEANRVFQDMICGDLTPCT  147 (456)
Q Consensus        83 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  147 (456)
                      +..++...|++++|.+.|+++.+.... +.   ..+..+            ...+...|++++|...|+++.... +.+.
T Consensus       100 l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~  177 (450)
T 2y4t_A          100 RGHLLLKQGKLDEAEDDFKKVLKSNPS-ENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDA  177 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCh
Confidence            999999999999999999999986432 33   455555            444888999999999999988765 5677


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHH----
Q 012804          148 ATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTI----  223 (456)
Q Consensus       148 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l----  223 (456)
                      ..+..+..++.+.|++++|+..|+++.+. .+.+..++..+..++...|++++|...|+++...... +...+..+    
T Consensus       178 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~~~~~~  255 (450)
T 2y4t_A          178 ELRELRAECFIKEGEPRKAISDLKAASKL-KNDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVK  255 (450)
T ss_dssp             HHHHHHHHHHHHTTCGGGGHHHHHHHHHH-HCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-hHHHHHHHHHHH
Confidence            88889999999999999999999998775 2446788888999999999999999999988764322 33334333    


Q ss_pred             --------HHHHHhcCchhHHHHHHHHHHHcCCCcC----hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHH
Q 012804          224 --------MKCCFRNRKYKLGLEILSAMKRKGYTFD----GFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYN  291 (456)
Q Consensus       224 --------~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  291 (456)
                              ...+...|++++|...++.+.+.. +.+    ...+..+..++.+.|++++|...++.+.... +.+...+.
T Consensus       256 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~  333 (450)
T 2y4t_A          256 KLNKLIESAEELIRDGRYTDATSKYESVMKTE-PSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALK  333 (450)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHH
Confidence                    566667777777777777776653 222    2345566666677777777777777766542 22566666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHc
Q 012804          292 TLINLYCKEGKLEAAYLLLDEMEKQ  316 (456)
Q Consensus       292 ~l~~~~~~~~~~~~a~~~~~~~~~~  316 (456)
                      .+..+|...|++++|...++++.+.
T Consensus       334 ~l~~~~~~~~~~~~A~~~~~~al~~  358 (450)
T 2y4t_A          334 DRAEAYLIEEMYDEAIQDYETAQEH  358 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            7777777777777777777777664

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.96  E-value=1.5e-25  Score=208.08  Aligned_cols=374  Identities=10%  Similarity=-0.023  Sum_probs=299.6

Q ss_pred             CchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHH
Q 012804            5 LSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLI   84 (456)
Q Consensus         5 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   84 (456)
                      |++.+|..+..++.+.|++++|+..++++++.++ .+..++..+..++...|++++|...|+.+.+.+ +++......++
T Consensus        37 p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~  114 (514)
T 2gw1_A           37 EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKP-DYSKVLLRRASANEGLGKFADAMFDLSVLSLNG-DFNDASIEPML  114 (514)
T ss_dssp             CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSS-SCCGGGTHHHH
T ss_pred             ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccCh-HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCccchHHHHH
Confidence            5889999999999999999999999999999875 477899999999999999999999999999875 33444444444


Q ss_pred             HHHHcCCChhHHHHHHHHH-----------------------------------HHCCC---------CCCHHhHHHHHH
Q 012804           85 AGATRNSLLSCSLDLLDEM-----------------------------------LEMGI---------PPDVWSYNSLMH  120 (456)
Q Consensus        85 ~~~~~~~~~~~a~~~~~~~-----------------------------------~~~~~---------~~~~~~~~~l~~  120 (456)
                      ..+........+.+.+..+                                   .....         +.+...+.....
T Consensus       115 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (514)
T 2gw1_A          115 ERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGL  194 (514)
T ss_dssp             HHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHH
Confidence            4443322222222222111                                   11000         111444444555


Q ss_pred             HHHh---cCChhHHHHHHHHHHh-----CCC--------CCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHH
Q 012804          121 CLFQ---LGKPDEANRVFQDMIC-----GDL--------TPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVT  184 (456)
Q Consensus       121 ~~~~---~~~~~~a~~~~~~~~~-----~~~--------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  184 (456)
                      .+..   .|++++|...|+++..     ...        +.+..++..+...+...|++++|...++++.+..  |+...
T Consensus       195 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~  272 (514)
T 2gw1_A          195 SNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNS  272 (514)
T ss_dssp             HHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHH
T ss_pred             HHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHH
Confidence            5554   8999999999999987     311        2235678888899999999999999999998874  33888


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHH
Q 012804          185 YNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVK  264 (456)
Q Consensus       185 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  264 (456)
                      +..+...+...|++++|...++.+...... +...+..+..++...|++++|...++.+.+.. +.+...+..+...+..
T Consensus       273 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  350 (514)
T 2gw1_A          273 YIYMALIMADRNDSTEYYNYFDKALKLDSN-NSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYR  350 (514)
T ss_dssp             HHHHHHHHHTSSCCTTGGGHHHHHHTTCTT-CTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhhcCcC-CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHH
Confidence            889999999999999999999999876443 67788899999999999999999999999876 5567788889999999


Q ss_pred             cCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-cC----HHhHHHHHHHHHh---cC
Q 012804          265 IGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFE-CD----KYTHTILIDGLCK---AG  336 (456)
Q Consensus       265 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~---~~  336 (456)
                      .|++++|...++.+.+... .+...+..+...+...|++++|...++++.+.... ++    ...+..+...+..   .|
T Consensus       351 ~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  429 (514)
T 2gw1_A          351 ENKFDDCETLFSEAKRKFP-EAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVE  429 (514)
T ss_dssp             TTCHHHHHHHHHHHHHHST-TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTT
T ss_pred             cCCHHHHHHHHHHHHHHcc-cCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcC
Confidence            9999999999999988643 36778899999999999999999999998764221 11    3388899999999   99


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC
Q 012804          337 NIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK  386 (456)
Q Consensus       337 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  386 (456)
                      ++++|...++.+.... +.+...+..++.++.+.|++++|.+.|+++...
T Consensus       430 ~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  478 (514)
T 2gw1_A          430 NFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLFEESADL  478 (514)
T ss_dssp             HHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            9999999999998874 667888999999999999999999999998876

>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=99.94  E-value=3.4e-23  Score=193.33  Aligned_cols=400  Identities=11%  Similarity=0.061  Sum_probs=296.7

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHH
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNS   82 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   82 (456)
                      .|.++.+|..+...+.+.|++++|++.++++++.++. +..++..+..++...|++++|...|+.+ ..  .|+.  ...
T Consensus        55 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~-~~--~~~~--~~~  128 (537)
T 3fp2_A           55 DPNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPD-HSKALLRRASANESLGNFTDAMFDLSVL-SL--NGDF--DGA  128 (537)
T ss_dssp             CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHH-C------------
T ss_pred             CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-hHHHHHHHHHHHHHcCCHHHHHHHHHHH-hc--CCCC--ChH
Confidence            5778999999999999999999999999999998754 7889999999999999999999999743 32  2322  222


Q ss_pred             HHHHHHcCCChhHHHHHHHHHHHCC------CCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChh-HHHHHHH
Q 012804           83 LIAGATRNSLLSCSLDLLDEMLEMG------IPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTA-TFNIMLN  155 (456)
Q Consensus        83 l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~  155 (456)
                      .+..+...+....+.+.++.+....      ..|+.    ..+..+....+.+.+...+......  .+... ....+..
T Consensus       129 ~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~  202 (537)
T 3fp2_A          129 SIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSN----TSLASFFGIFDSHLEVSSVNTSSNY--DTAYALLSDALQR  202 (537)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHCC-------CCCCCH----HHHHHHHHTSCHHHHHHTSCCCCSS--CSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCccccccccchH----hHHHHHHHhcChHHHHHHHhhcccc--ccHHHHHHHHHHH
Confidence            3444555566678999998886641      22333    3344455666666655544433322  22211 2222222


Q ss_pred             HHHh--------cCChHHHHHHHHHHHhCCCCCc-------HHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHH
Q 012804          156 GLCK--------NRYTDNALRMFRGLQKHGFVPE-------LVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITY  220 (456)
Q Consensus       156 ~~~~--------~~~~~~a~~~~~~~~~~~~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  220 (456)
                      .+..        .|++++|..+++++.+... .+       ..++..+...+...|++++|...++.+....  |+...+
T Consensus       203 ~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~  279 (537)
T 3fp2_A          203 LYSATDEGYLVANDLLTKSTDMYHSLLSANT-VDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSY  279 (537)
T ss_dssp             HHTCSHHHHHHHHHHHHHHHHHHHHHHC--C-CCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHH
T ss_pred             HHHhhhhhhHHHHHHHHHHHHHHHHHHHHCC-CcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHH
Confidence            2221        2478899999999887632 22       2346667778888999999999999988753  457788


Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhc
Q 012804          221 TTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKE  300 (456)
Q Consensus       221 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  300 (456)
                      ..+...+...|++++|...++.+.+.. +.+..++..+..++...|++++|...++++.+..+. +...+..+...+...
T Consensus       280 ~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~  357 (537)
T 3fp2_A          280 IFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPE-NVYPYIQLACLLYKQ  357 (537)
T ss_dssp             HHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHc
Confidence            888899999999999999999998876 567788888999999999999999999999886433 567888899999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-----CCCCHHHHHHHHHHHHhC-----
Q 012804          301 GKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIG-----FDSNLEAYNCIVDRLGKD-----  370 (456)
Q Consensus       301 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~-----  370 (456)
                      |++++|...++++.+.. +.+...+..+...+...|++++|...++.+.+..     .......+.....++...     
T Consensus       358 g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  436 (537)
T 3fp2_A          358 GKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDP  436 (537)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC--
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccc
Confidence            99999999999998864 3366788888999999999999999999987642     111222344555677777     


Q ss_pred             -----CCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCC
Q 012804          371 -----GKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVR  420 (456)
Q Consensus       371 -----g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  420 (456)
                           |++++|...|+++...   +..++..++.++...|++++|.+.|+++++..+.
T Consensus       437 ~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~  494 (537)
T 3fp2_A          437 TQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILART  494 (537)
T ss_dssp             --CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--
T ss_pred             hhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC
Confidence                 9999999999988765   6778899999999999999999999999887543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.93  E-value=8.3e-22  Score=173.94  Aligned_cols=332  Identities=9%  Similarity=-0.025  Sum_probs=218.3

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIA   85 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   85 (456)
                      |+..+..+...+...|++++|+..|+.+++..+ .+..++..+..++...|++++|...++++.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDP-DNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            567888899999999999999999999998765 377889999999999999999999999998764 336778888999


Q ss_pred             HHHcCCChhHHHHHHHHHHHCCCC--CCHHhHHHH------------HHHHHhcCChhHHHHHHHHHHhCCCCCChhHHH
Q 012804           86 GATRNSLLSCSLDLLDEMLEMGIP--PDVWSYNSL------------MHCLFQLGKPDEANRVFQDMICGDLTPCTATFN  151 (456)
Q Consensus        86 ~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  151 (456)
                      .+...|++++|.+.++++.+....  .+...+..+            ...+...|++++|.+.++++.... +.+...+.
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  158 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRE  158 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHH
Confidence            999999999999999999886420  134444444            355666666666666666666554 44555666


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcC
Q 012804          152 IMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNR  231 (456)
Q Consensus       152 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  231 (456)
                      .+...+...|++++|...++++.+. .+.+...+..+...+...|++++|...++........ +...+..+...     
T Consensus       159 ~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~-----  231 (359)
T 3ieg_A          159 LRAECFIKEGEPRKAISDLKAASKL-KSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQV-----  231 (359)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTT-CSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH-----
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-chHHHHHHHHH-----
Confidence            6666666666666666666666654 2335556666666666666666666666665543221 22211111000     


Q ss_pred             chhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCH----HHHHHHHHHHHhcCCHHHHH
Q 012804          232 KYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDI----VSYNTLINLYCKEGKLEAAY  307 (456)
Q Consensus       232 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~  307 (456)
                                  .      .......+...+...|++++|...++++.+.... +.    ..+..+..++...|++++|.
T Consensus       232 ------------~------~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~  292 (359)
T 3ieg_A          232 ------------K------KLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAI  292 (359)
T ss_dssp             ------------H------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ------------H------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHH
Confidence                        0      0001112245566677777777777777664322 22    22445666777777777777


Q ss_pred             HHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 012804          308 LLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLG  368 (456)
Q Consensus       308 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  368 (456)
                      ..+++..+.. +.+..++..+...+...|++++|...++++.+.. +.+...+..+..+..
T Consensus       293 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~  351 (359)
T 3ieg_A          293 RICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHN-ENDQQIREGLEKAQR  351 (359)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChHHHHHHHHHHH
Confidence            7777776652 2256677777777777777777777777777653 444555555555443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.93  E-value=6.2e-22  Score=174.74  Aligned_cols=329  Identities=15%  Similarity=0.076  Sum_probs=221.6

Q ss_pred             CHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHH
Q 012804           76 DVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLN  155 (456)
Q Consensus        76 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  155 (456)
                      ++..+..+...+...|++++|.+.|+++.+..+ .+..++..+..++...|++++|...++++.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDP-DNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            345566667777777777777777777776543 256667777777777777777777777776654 445566777777


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCC--CcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCch
Q 012804          156 GLCKNRYTDNALRMFRGLQKHGFV--PELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKY  233 (456)
Q Consensus       156 ~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  233 (456)
                      .+...|++++|...++++.+....  .+...+..+.....                       ...+..+...+...|++
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-----------------------~~~~~~~a~~~~~~~~~  136 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADE-----------------------MQRLRSQALDAFDGADY  136 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTTCH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHccCH
Confidence            777777777777777777665210  12233322211100                       01122235566777777


Q ss_pred             hHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 012804          234 KLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEM  313 (456)
Q Consensus       234 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  313 (456)
                      ++|...++.+.+.. +.+...+..+..++...|++++|...++.+.... +.+...+..+...+...|++++|...++..
T Consensus       137 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  214 (359)
T 3ieg_A          137 TAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVREC  214 (359)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            88887777777664 5566677777777778888888888888777763 336677777778888888888888888877


Q ss_pred             HHcCCCcCHHhHH------------HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhCCCHHHHH
Q 012804          314 EKQGFECDKYTHT------------ILIDGLCKAGNIKGARLHLEYMNKIGFDSNL----EAYNCIVDRLGKDGKIDHAI  377 (456)
Q Consensus       314 ~~~~~~~~~~~~~------------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~  377 (456)
                      .+.... +...+.            .+...+...|++++|...++.+.+.. +.+.    ..+..+..++...|++++|.
T Consensus       215 ~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~~~~~~A~  292 (359)
T 3ieg_A          215 LKLDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE-PSVAEYTVRSKERICHCFSKDEKPVEAI  292 (359)
T ss_dssp             HHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSSHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhhCcc-chHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHHHHHccCHHHHH
Confidence            765321 233222            23556788888889988888887763 3333    23445677888889999999


Q ss_pred             HHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHH
Q 012804          378 NVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLR  434 (456)
Q Consensus       378 ~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  434 (456)
                      +.++++...   ++.++..++.++...|++++|.+.++++++..+. +...+..+..+..
T Consensus       293 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~-~~~~~~~l~~~~~  351 (359)
T 3ieg_A          293 RICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNEN-DQQIREGLEKAQR  351 (359)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHH
Confidence            888887664   6778888888888999999999999998876432 5566666655543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.92  E-value=8.4e-20  Score=167.79  Aligned_cols=380  Identities=12%  Similarity=0.013  Sum_probs=312.3

Q ss_pred             HHHHHHHHHHHhcCCCCCHHhHHHHHHHHHc----cCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHc----CCChhH
Q 012804           24 EKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQ----FVSFDAGYTILNRMREAGISPDVVTYNSLIAGATR----NSLLSC   95 (456)
Q Consensus        24 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~   95 (456)
                      ..++..++...+.|   ++..+..+...|..    .+++++|..+|++..+.|   ++..+..+...|..    .++.++
T Consensus        24 ~~~~~~~~~~a~~g---~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~   97 (490)
T 2xm6_A           24 NVNLEQLKQKAESG---EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQ   97 (490)
T ss_dssp             -CCHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHH
T ss_pred             hHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHH
Confidence            33456666665543   67788888888887    899999999999998864   66788888888888    899999


Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHh----cCChHHHH
Q 012804           96 SLDLLDEMLEMGIPPDVWSYNSLMHCLFQ----LGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCK----NRYTDNAL  167 (456)
Q Consensus        96 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  167 (456)
                      |.+.|++..+.|   +...+..|...|..    .+++++|.+.|++..+.+   +...+..+...|..    .++.++|+
T Consensus        98 A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~  171 (490)
T 2xm6_A           98 AVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAR  171 (490)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHH
Confidence            999999998865   66777888888888    789999999999998875   46677788888887    78999999


Q ss_pred             HHHHHHHhCCCCCcHHHHHHHHHHHHH----cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHh----cCchhHHHHH
Q 012804          168 RMFRGLQKHGFVPELVTYNILIKGLCK----AGRLRTARWILKELGDSGHAPNAITYTTIMKCCFR----NRKYKLGLEI  239 (456)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~  239 (456)
                      +.|++..+.|   +...+..+...|..    .+++++|..+|++..+.+   +...+..+...|..    .+++++|..+
T Consensus       172 ~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~  245 (490)
T 2xm6_A          172 EWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVL  245 (490)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHH
T ss_pred             HHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            9999998874   67788888888888    899999999999988764   56677778888876    7899999999


Q ss_pred             HHHHHHcCCCcChhhHHHHHHHHHH----cCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhc-----CCHHHHHHHH
Q 012804          240 LSAMKRKGYTFDGFGYCTVIAAFVK----IGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKE-----GKLEAAYLLL  310 (456)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~  310 (456)
                      +++..+.+   +...+..+...+..    .++.++|...|++..+.+   +...+..+...|...     +++++|...+
T Consensus       246 ~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~  319 (490)
T 2xm6_A          246 FSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWY  319 (490)
T ss_dssp             HHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHH
Confidence            99998765   34566667777777    899999999999998764   556777888888887     8999999999


Q ss_pred             HHHHHcCCCcCHHhHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----CCCHHHHHHHHHHh
Q 012804          311 DEMEKQGFECDKYTHTILIDGLCKAG---NIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGK----DGKIDHAINVFESM  383 (456)
Q Consensus       311 ~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~  383 (456)
                      ++..+.+   +...+..+...+...|   ++++|..++++..+.+   +...+..+...|..    .+++++|.+.|+++
T Consensus       320 ~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A  393 (490)
T 2xm6_A          320 TKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKA  393 (490)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             HHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHH
Confidence            9998864   4567777887777766   7899999999998864   67888899999988    89999999999998


Q ss_pred             ccC-ChhhHHHHHHHHHc----cCChhHHHHHHHHHHHcCCC-C-CHHhHHHHHHHH
Q 012804          384 EVK-DSFTYSSMVHNLCK----AKRLPSASKLLLSCLKSGVR-I-LKSAQKAVVDGL  433 (456)
Q Consensus       384 ~~~-~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~-~-~~~~~~~l~~~~  433 (456)
                      ... ++..+..+...|..    .+++++|...|+++.+.++. | ++.....+...+
T Consensus       394 ~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~  450 (490)
T 2xm6_A          394 AEQGLSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDMNLFGTENRNITEKKLT  450 (490)
T ss_dssp             HHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSC
T ss_pred             HhCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcC
Confidence            877 88899999999988    89999999999999988643 2 344444444433

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.92  E-value=2.7e-19  Score=164.41  Aligned_cols=364  Identities=12%  Similarity=0.033  Sum_probs=309.2

Q ss_pred             HHHHHHHHHHhCCCCCCHhHHHHHHHHHHc----CCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHh----cCChhHH
Q 012804           60 AGYTILNRMREAGISPDVVTYNSLIAGATR----NSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQ----LGKPDEA  131 (456)
Q Consensus        60 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a  131 (456)
                      .+.+.+....+.   .++..+..+...|..    .+++++|.+.|++..+.|   +...+..|...|..    .+++++|
T Consensus        25 ~~~~~~~~~a~~---g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A   98 (490)
T 2xm6_A           25 VNLEQLKQKAES---GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQA   98 (490)
T ss_dssp             CCHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             HHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHH
Confidence            345566665554   377788888888887    899999999999999874   67788889999998    8999999


Q ss_pred             HHHHHHHHhCCCCCChhHHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHH----cCCHHHHHH
Q 012804          132 NRVFQDMICGDLTPCTATFNIMLNGLCK----NRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCK----AGRLRTARW  203 (456)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~  203 (456)
                      .+.|++..+.+   +...+..+...|..    .+++++|+..|++..+.|   +...+..+...|..    .+++++|..
T Consensus        99 ~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~  172 (490)
T 2xm6_A           99 VIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMARE  172 (490)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHH
T ss_pred             HHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence            99999998865   56677788888888    789999999999998875   56778888888887    789999999


Q ss_pred             HHHHHhhCCCCCCHHHHHHHHHHHHh----cCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHH----cCChHHHHHHH
Q 012804          204 ILKELGDSGHAPNAITYTTIMKCCFR----NRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVK----IGRLKEATDYM  275 (456)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~  275 (456)
                      .|++..+.+   +...+..+...|..    .+++++|..++++..+.+   +...+..+...|..    .+++++|..++
T Consensus       173 ~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~  246 (490)
T 2xm6_A          173 WYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLF  246 (490)
T ss_dssp             HHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHH
T ss_pred             HHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            999998864   67788888888887    899999999999999875   45667777777776    78999999999


Q ss_pred             HHHHHCCCccCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhc-----CCHHHHHHHHH
Q 012804          276 EQMVTDGVQLDIVSYNTLINLYCK----EGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKA-----GNIKGARLHLE  346 (456)
Q Consensus       276 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~  346 (456)
                      ++..+.+   +...+..+...|..    .+++++|...|+...+.+   +...+..+...+...     +++++|..+++
T Consensus       247 ~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~  320 (490)
T 2xm6_A          247 SQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYT  320 (490)
T ss_dssp             HHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHH
Confidence            9998764   55677778888888    899999999999998764   556777888888877     89999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHhccC-ChhhHHHHHHHHHc----cCChhHHHHHHHHHHHcC
Q 012804          347 YMNKIGFDSNLEAYNCIVDRLGKDG---KIDHAINVFESMEVK-DSFTYSSMVHNLCK----AKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       347 ~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~  418 (456)
                      +..+.+   +...+..+...|...|   +.++|.+.|+++.+. ++..+..+...|..    .+++++|.+.|+++.+.+
T Consensus       321 ~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~  397 (490)
T 2xm6_A          321 KSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG  397 (490)
T ss_dssp             HHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC
Confidence            999875   5567888888888767   789999999998877 88999999999998    899999999999999875


Q ss_pred             CCCCHHhHHHHHHHHHc----cCChHHHHHHHHHHHhcc
Q 012804          419 VRILKSAQKAVVDGLRH----SGCRREAKKIQSKIRMAK  453 (456)
Q Consensus       419 ~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  453 (456)
                         ++..+..++..|..    .++.++|..+|++....+
T Consensus       398 ---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          398 ---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             ---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHH
T ss_pred             ---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence               57788889999988    899999999999988765

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.92  E-value=5.8e-20  Score=170.62  Aligned_cols=420  Identities=12%  Similarity=0.029  Sum_probs=253.2

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHH
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNS   82 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   82 (456)
                      .|-+..+|..++. +.+.|++++|..+|+++++..| .+...|...+..+.+.|++++|..+|+++.+.  .|+...|..
T Consensus         9 ~P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~P-~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--~p~~~lw~~   84 (530)
T 2ooe_A            9 NPYDLDAWSILIR-EAQNQPIDKARKTYERLVAQFP-SSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--VLHIDLWKC   84 (530)
T ss_dssp             CTTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--CCCHHHHHH
T ss_pred             CCCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--CCChHHHHH
Confidence            4668888999888 4778999999999999998754 47778999999999999999999999999876  367777776


Q ss_pred             HHHHH-HcCCChhHHHH----HHHHHHHC-CCCC-CHHhHHHHHHHHHh---------cCChhHHHHHHHHHHhCCCCCC
Q 012804           83 LIAGA-TRNSLLSCSLD----LLDEMLEM-GIPP-DVWSYNSLMHCLFQ---------LGKPDEANRVFQDMICGDLTPC  146 (456)
Q Consensus        83 l~~~~-~~~~~~~~a~~----~~~~~~~~-~~~~-~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~  146 (456)
                      .+... ...|+.+.|.+    +|+..... |..| +...|...+.....         .|+++.|..+|++.++....+.
T Consensus        85 ~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~  164 (530)
T 2ooe_A           85 YLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINI  164 (530)
T ss_dssp             HHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTH
T ss_pred             HHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhH
Confidence            66533 34677777665    66666543 4333 45667777766554         6788899999998887311111


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH------hhCC---CCCC-
Q 012804          147 TATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKEL------GDSG---HAPN-  216 (456)
Q Consensus       147 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~------~~~~---~~~~-  216 (456)
                      ...|..........+. ..+..++                   .  ...+++..|..++..+      .+..   ++|+ 
T Consensus       165 ~~~~~~~~~~e~~~~~-~~~~~~l-------------------~--~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~  222 (530)
T 2ooe_A          165 EQLWRDYNKYEEGINI-HLAKKMI-------------------E--DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQN  222 (530)
T ss_dssp             HHHHHHHHHHHHHHCH-HHHHHHH-------------------H--TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC-
T ss_pred             HHHHHHHHHHHHhhch-hHHHHHH-------------------H--HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCC
Confidence            2333322221111110 0000000                   0  0122334444433331      1110   1222 


Q ss_pred             -------HHHHHHHHHHHHhc----Cch----hHHHHHHHHHHHcCCCcChhhHHHHHHHHHH-------cCChH-----
Q 012804          217 -------AITYTTIMKCCFRN----RKY----KLGLEILSAMKRKGYTFDGFGYCTVIAAFVK-------IGRLK-----  269 (456)
Q Consensus       217 -------~~~~~~l~~~~~~~----~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-----  269 (456)
                             ...|...+......    ++.    ..+..+|+++.... +.+...|...+..+.+       .|+++     
T Consensus       223 ~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~  301 (530)
T 2ooe_A          223 TPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLF  301 (530)
T ss_dssp             -CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhh
Confidence                   13343333322211    122    25566677666653 4456666666665554       56665     


Q ss_pred             --HHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcC-H-HhHHHHHHHHHhcCCHHHHHHHH
Q 012804          270 --EATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECD-K-YTHTILIDGLCKAGNIKGARLHL  345 (456)
Q Consensus       270 --~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~-~~~~~l~~~~~~~~~~~~a~~~~  345 (456)
                        +|..++++.++.-.+.+...|..++..+.+.|++++|..+|+++.+.  .|+ . ..|..++..+.+.|++++|..+|
T Consensus       302 ~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~  379 (530)
T 2ooe_A          302 SDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIF  379 (530)
T ss_dssp             HHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHH
Confidence              67777777765212335667777777777777777777777777764  332 2 36666666666777777777777


Q ss_pred             HHHHhCCCCCCHHHHHHHHHH-HHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCC-C
Q 012804          346 EYMNKIGFDSNLEAYNCIVDR-LGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGV-R  420 (456)
Q Consensus       346 ~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~  420 (456)
                      +++.+.. +.+...+...+.. +...|+.++|..+|+++.+.   ++..|..++..+.+.|+.++|..+|++++..++ .
T Consensus       380 ~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~  458 (530)
T 2ooe_A          380 KKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  458 (530)
T ss_dssp             HHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSC
T ss_pred             HHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCC
Confidence            7776642 2223333322222 23567777777777766554   566777777777777777777777777776532 1


Q ss_pred             C--CHHhHHHHHHHHHccCChHHHHHHHHHHHhc
Q 012804          421 I--LKSAQKAVVDGLRHSGCRREAKKIQSKIRMA  452 (456)
Q Consensus       421 ~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  452 (456)
                      |  ....|...+......|+.+.+.++.+++.+.
T Consensus       459 ~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          459 PEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             GGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            2  2336666666666777777777777776554

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.92  E-value=1.2e-19  Score=168.52  Aligned_cols=394  Identities=10%  Similarity=-0.016  Sum_probs=274.6

Q ss_pred             HHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCC
Q 012804           30 IIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIP  109 (456)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  109 (456)
                      +++.++..+. +...|..++.. .+.|++++|..+|+++.+.. +.+...|..++..+.+.|++++|.++|++++...  
T Consensus         2 le~al~~~P~-~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--   76 (530)
T 2ooe_A            2 AEKKLEENPY-DLDAWSILIRE-AQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--   76 (530)
T ss_dssp             HHHHHHHCTT-CHHHHHHHHHH-HHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--
T ss_pred             hhhHhhhCCC-CHHHHHHHHHH-HHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--
Confidence            5566666543 78889988884 77899999999999998763 4567789999999999999999999999998864  


Q ss_pred             CCHHhHHHHHHH-HHhcCChhHHHH----HHHHHHhC-CCC-CChhHHHHHHHHHHh---------cCChHHHHHHHHHH
Q 012804          110 PDVWSYNSLMHC-LFQLGKPDEANR----VFQDMICG-DLT-PCTATFNIMLNGLCK---------NRYTDNALRMFRGL  173 (456)
Q Consensus       110 ~~~~~~~~l~~~-~~~~~~~~~a~~----~~~~~~~~-~~~-~~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~  173 (456)
                      |+...|..++.. ....|+.+.|.+    +|+..... |.. ++...|...+.....         .|+++.|..+|++.
T Consensus        77 p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~a  156 (530)
T 2ooe_A           77 LHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRG  156 (530)
T ss_dssp             CCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHH
Confidence            577777777653 345677777665    67666542 333 346677777766554         67888888888888


Q ss_pred             HhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHH------HHcC
Q 012804          174 QKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAM------KRKG  247 (456)
Q Consensus       174 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~------~~~~  247 (456)
                      .+....+....|..........+.                    .+...++.  ...+++..|..++...      .+..
T Consensus       157 l~~P~~~~~~~~~~~~~~e~~~~~--------------------~~~~~~l~--~~~~~~~~A~~~~~~~~~~~~~l~~~  214 (530)
T 2ooe_A          157 CVNPMINIEQLWRDYNKYEEGINI--------------------HLAKKMIE--DRSRDYMNARRVAKEYETVMKGLDRN  214 (530)
T ss_dssp             TTSCCTTHHHHHHHHHHHHHHHCH--------------------HHHHHHHH--TTHHHHHHHHHHHHHHHHHHHHCCSS
T ss_pred             HhchhhhHHHHHHHHHHHHHhhch--------------------hHHHHHHH--HhhHHHHHHHHHHHHHHHHHHHhccc
Confidence            773111112222222111111110                    01111111  1234566666666552      2221


Q ss_pred             ---CCcC--------hhhHHHHHHHHHHc----CCh----HHHHHHHHHHHHCCCccCHHHHHHHHHHHHh-------cC
Q 012804          248 ---YTFD--------GFGYCTVIAAFVKI----GRL----KEATDYMEQMVTDGVQLDIVSYNTLINLYCK-------EG  301 (456)
Q Consensus       248 ---~~~~--------~~~~~~l~~~~~~~----~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~  301 (456)
                         ++|+        ...|...+......    ++.    .++..+|++++... +.+...|..++..+.+       .|
T Consensus       215 ~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g  293 (530)
T 2ooe_A          215 APSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKG  293 (530)
T ss_dssp             SCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             cccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhcc
Confidence               2333        13444444333221    232    47788999988863 3478888888888875       79


Q ss_pred             CHH-------HHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhCCCH
Q 012804          302 KLE-------AAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNL-EAYNCIVDRLGKDGKI  373 (456)
Q Consensus       302 ~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~  373 (456)
                      +++       +|..++++..+.-.+.+...+..++..+.+.|++++|..+|+++++.. +.+. ..|..++..+.+.|++
T Consensus       294 ~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~  372 (530)
T 2ooe_A          294 DMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIE-DIDPTLVYIQYMKFARRAEGI  372 (530)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSS-SSCHHHHHHHHHHHHHHHHHH
T ss_pred             chhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCcc-ccCchHHHHHHHHHHHHhcCH
Confidence            987       899999999863123367888999999999999999999999999863 3233 5899999999999999


Q ss_pred             HHHHHHHHHhccCC---hhhHHHHHHH-HHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHH
Q 012804          374 DHAINVFESMEVKD---SFTYSSMVHN-LCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKI  449 (456)
Q Consensus       374 ~~a~~~~~~~~~~~---~~~~~~l~~~-~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  449 (456)
                      ++|.++|+++.+..   ...+...+.. +...|++++|.++|+++++..+ .++..|..++..+.+.|+.++|+.+|++.
T Consensus       373 ~~A~~~~~~Al~~~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p-~~~~~~~~~~~~~~~~g~~~~Ar~~~~~a  451 (530)
T 2ooe_A          373 KSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERV  451 (530)
T ss_dssp             HHHHHHHHHHHTCTTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCC-CCHHHHHHHHHHHHhCCCHhhHHHHHHHH
Confidence            99999999998763   2333333222 3368999999999999998743 37889999999999999999999999999


Q ss_pred             Hhcc
Q 012804          450 RMAK  453 (456)
Q Consensus       450 ~~~~  453 (456)
                      ...+
T Consensus       452 l~~~  455 (530)
T 2ooe_A          452 LTSG  455 (530)
T ss_dssp             HHSC
T ss_pred             Hhcc
Confidence            8764

>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=99.91  E-value=8e-21  Score=165.57  Aligned_cols=199  Identities=8%  Similarity=-0.042  Sum_probs=93.7

Q ss_pred             CHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHH
Q 012804          111 DVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIK  190 (456)
Q Consensus       111 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  190 (456)
                      +...+..+...+...|++++|.++|+++.... +.+...+..++.++...|++++|..+++++.+.. +.+...+..+..
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   98 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGC   98 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHH
Confidence            33344444555555555555555555554443 3333444444445555555555555555554431 223344444445


Q ss_pred             HHHHcC-CHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChH
Q 012804          191 GLCKAG-RLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLK  269 (456)
Q Consensus       191 ~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  269 (456)
                      .+...| ++++|...++++...... +...+..+..++...|++++|...++++.+.. +.+...+..+...+...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           99 YYLMVGHKNEHARRYLSKATTLEKT-YGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHSCSCHHHHHHHHHHHHTTCTT-CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHH
Confidence            555555 555555555554443221 33344444445555555555555555544443 223333444444455555555


Q ss_pred             HHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012804          270 EATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEME  314 (456)
Q Consensus       270 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  314 (456)
                      +|...++++.+... .+...+..+...+...|++++|...++++.
T Consensus       177 ~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  220 (330)
T 3hym_B          177 LAERFFSQALSIAP-EDPFVMHEVGVVAFQNGEWKTAEKWFLDAL  220 (330)
T ss_dssp             HHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCC-CChHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            55555555544322 234444445555555555555555554444

>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=99.91  E-value=6e-21  Score=166.36  Aligned_cols=292  Identities=11%  Similarity=0.039  Sum_probs=176.5

Q ss_pred             CCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHH
Q 012804           40 PDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLM  119 (456)
Q Consensus        40 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  119 (456)
                      .+...+..+...+...|++++|.++|+.+.+.. +.+...+..++.++...|++++|..+++++.+.... +...+..+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~   97 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPS-NPVSWFAVG   97 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-STHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHH
Confidence            344455556666666666666666666665543 223444555556666666666666666666654322 455566666


Q ss_pred             HHHHhcC-ChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCH
Q 012804          120 HCLFQLG-KPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRL  198 (456)
Q Consensus       120 ~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  198 (456)
                      ..+...| ++++|.+.|+++.... +.+...|..+...+...|++++|+..++++.+.. +.+...+..+...+...|++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~  175 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNS  175 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhH
Confidence            6666666 6666666666666554 4445566666666666666666666666665542 22344455566666666666


Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcC--------CCcChhhHHHHHHHHHHcCChHH
Q 012804          199 RTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKG--------YTFDGFGYCTVIAAFVKIGRLKE  270 (456)
Q Consensus       199 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~~l~~~~~~~~~~~~  270 (456)
                      ++|...++++..... .+...+..+...+...|++++|...++++.+..        .+.....+..+..++...|++++
T Consensus       176 ~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  254 (330)
T 3hym_B          176 KLAERFFSQALSIAP-EDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAE  254 (330)
T ss_dssp             HHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHH
Confidence            666666666665432 245566666666666677777766666665431        12234566667777777777777


Q ss_pred             HHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHH-HhcCCH
Q 012804          271 ATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGL-CKAGNI  338 (456)
Q Consensus       271 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~  338 (456)
                      |...+++..+.... +...+..+...+...|++++|...++++.+.. +.+...+..+..++ ...|+.
T Consensus       255 A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          255 ALDYHRQALVLIPQ-NASTYSAIGYIHSLMGNFENAVDYFHTALGLR-RDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             HHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-SCCHHHHHHHHHHHHTTTTC-
T ss_pred             HHHHHHHHHhhCcc-chHHHHHHHHHHHHhccHHHHHHHHHHHHccC-CCchHHHHHHHHHHHHHhCch
Confidence            77777777665332 55667777777777777777777777776643 22555666666655 344443

>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=99.88  E-value=2.3e-20  Score=165.29  Aligned_cols=298  Identities=9%  Similarity=-0.066  Sum_probs=129.0

Q ss_pred             CChhHHHH-HHHHHHhCCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHH
Q 012804          126 GKPDEANR-VFQDMICGDL---TPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTA  201 (456)
Q Consensus       126 ~~~~~a~~-~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  201 (456)
                      |++++|.+ .+++......   ..+...+..+...+...|++++|+..++++.+.. +.+...+..+..++...|++++|
T Consensus        39 ~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A  117 (368)
T 1fch_A           39 SDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLA  117 (368)
T ss_dssp             -------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHH
Confidence            45555555 5554333210   0123345555555566666666666666655542 23455555555566666666666


Q ss_pred             HHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 012804          202 RWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTD  281 (456)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  281 (456)
                      ...++++..... .+..++..+..++...|++++|...++++.+.. +.+...+......       ..       .   
T Consensus       118 ~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~-------~~-------~---  178 (368)
T 1fch_A          118 ISALRRCLELKP-DNQTALMALAVSFTNESLQRQACEILRDWLRYT-PAYAHLVTPAEEG-------AG-------G---  178 (368)
T ss_dssp             HHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-TTTGGGCC-------------------------
T ss_pred             HHHHHHHHhcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHH-------hh-------h---
Confidence            666665554332 245555555556666666666666666655543 2121111110000       00       0   


Q ss_pred             CCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH
Q 012804          282 GVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFEC-DKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAY  360 (456)
Q Consensus       282 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  360 (456)
                       .. ....+..+...+ ..|++++|...++++.+..... +..++..+...+...|++++|...++++.+.. +.+...+
T Consensus       179 -~~-~~~~~~~~~~~~-~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~  254 (368)
T 1fch_A          179 -AG-LGPSKRILGSLL-SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLW  254 (368)
T ss_dssp             ---------CTTHHHH-HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             -hc-ccHHHHHHHHHh-hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHH
Confidence             00 000001111111 3444444444444444321110 23344444444444444444444444444331 2334444


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCC----------CHHhHH
Q 012804          361 NCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRI----------LKSAQK  427 (456)
Q Consensus       361 ~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~----------~~~~~~  427 (456)
                      ..++.++...|++++|...|+++...   +..++..++.++.+.|++++|.+.++++++..+..          ...+|.
T Consensus       255 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~  334 (368)
T 1fch_A          255 NKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWS  334 (368)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHH
Confidence            44444444444444444444444332   33444445555555555555555555554432110          144555


Q ss_pred             HHHHHHHccCChHHHHHHHH
Q 012804          428 AVVDGLRHSGCRREAKKIQS  447 (456)
Q Consensus       428 ~l~~~~~~~g~~~~A~~~~~  447 (456)
                      .++.++...|++++|..+++
T Consensus       335 ~l~~~~~~~g~~~~A~~~~~  354 (368)
T 1fch_A          335 TLRLALSMLGQSDAYGAADA  354 (368)
T ss_dssp             HHHHHHHHHTCGGGHHHHHT
T ss_pred             HHHHHHHHhCChHhHHHhHH
Confidence            55555555565555555544

>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=99.88  E-value=1.7e-20  Score=166.18  Aligned_cols=298  Identities=12%  Similarity=-0.054  Sum_probs=144.8

Q ss_pred             CCChhHHHH-HHHHHHHCCC---CCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHH
Q 012804           90 NSLLSCSLD-LLDEMLEMGI---PPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDN  165 (456)
Q Consensus        90 ~~~~~~a~~-~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  165 (456)
                      .|++++|.+ .+++......   ..+...+..+...+...|++++|...|+++.+.. +.+..++..+..++...|++++
T Consensus        38 ~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~  116 (368)
T 1fch_A           38 LSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELL  116 (368)
T ss_dssp             --------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHH
Confidence            456666666 5554443221   1123456666677777777777777777777664 4556667777777777777777


Q ss_pred             HHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHH
Q 012804          166 ALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKR  245 (456)
Q Consensus       166 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  245 (456)
                      |+..++++.+.. +.+..++..+...+...|++++|...++++...... +...+..+...       ..       .. 
T Consensus       117 A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~-------~~-------~~-  179 (368)
T 1fch_A          117 AISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEG-------AG-------GA-  179 (368)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC------------------------
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHH-------hh-------hh-
Confidence            777777776653 335666777777777777777777777777664322 11111111000       00       00 


Q ss_pred             cCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCcc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHh
Q 012804          246 KGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQL-DIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYT  324 (456)
Q Consensus       246 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  324 (456)
                         .+ ...+..+.. +...|++++|...++++.+..+.. +..++..+...|...|++++|...++++.+.. +.+..+
T Consensus       180 ---~~-~~~~~~~~~-~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~  253 (368)
T 1fch_A          180 ---GL-GPSKRILGS-LLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLL  253 (368)
T ss_dssp             ----------CTTHH-HHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             ---cc-cHHHHHHHH-HhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHH
Confidence               00 000001111 113444444444444444432111 24444444444444555555555554444432 113344


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---C-----------hhh
Q 012804          325 HTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---D-----------SFT  390 (456)
Q Consensus       325 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~-----------~~~  390 (456)
                      +..+...+...|++++|...++++.+.. +.+...+..++.++.+.|++++|...|+++...   +           ..+
T Consensus       254 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  332 (368)
T 1fch_A          254 WNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENI  332 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHH
Confidence            4444444555555555555555544432 333444445555555555555555555444332   1           345


Q ss_pred             HHHHHHHHHccCChhHHHHHHH
Q 012804          391 YSSMVHNLCKAKRLPSASKLLL  412 (456)
Q Consensus       391 ~~~l~~~~~~~~~~~~A~~~~~  412 (456)
                      |..++.++...|++++|..+++
T Consensus       333 ~~~l~~~~~~~g~~~~A~~~~~  354 (368)
T 1fch_A          333 WSTLRLALSMLGQSDAYGAADA  354 (368)
T ss_dssp             HHHHHHHHHHHTCGGGHHHHHT
T ss_pred             HHHHHHHHHHhCChHhHHHhHH
Confidence            5555555555555555555544

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.86  E-value=8.6e-20  Score=161.38  Aligned_cols=266  Identities=7%  Similarity=-0.087  Sum_probs=156.3

Q ss_pred             HHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHH
Q 012804           42 VVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHC  121 (456)
Q Consensus        42 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  121 (456)
                      ...+..+...+.+.|++++|++.|+++.+.. +.+..++..+..++...|++++|++.|+++.+... .+..++..+..+
T Consensus        65 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~  142 (365)
T 4eqf_A           65 WPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQP-NNLKALMALAVS  142 (365)
T ss_dssp             CTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHH
Confidence            3445555666666666666666666665543 23455566666666666666666666666655432 245556666666


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCC----------hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-CcHHHHHHHHH
Q 012804          122 LFQLGKPDEANRVFQDMICGDLTPC----------TATFNIMLNGLCKNRYTDNALRMFRGLQKHGFV-PELVTYNILIK  190 (456)
Q Consensus       122 ~~~~~~~~~a~~~~~~~~~~~~~~~----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~  190 (456)
                      |...|++++|...|+++.... +.+          ...+..+...+...|++++|+..++++.+.... ++..++..+..
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQN-PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhC-ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            666666666666666655432 111          112233456666666777777777666654211 14566666667


Q ss_pred             HHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHH
Q 012804          191 GLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKE  270 (456)
Q Consensus       191 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  270 (456)
                      .+...|++++|...++++..... .+..++..+..++...|++++|...++++.+.. +.+..++..+..++...|++++
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~  299 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTVRP-EDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYRE  299 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHH
Confidence            77777777777777776665432 256666667777777777777777777776654 4456666677777777777777


Q ss_pred             HHHHHHHHHHCCCc-----------cCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012804          271 ATDYMEQMVTDGVQ-----------LDIVSYNTLINLYCKEGKLEAAYLLLDE  312 (456)
Q Consensus       271 a~~~~~~~~~~~~~-----------~~~~~~~~l~~~~~~~~~~~~a~~~~~~  312 (456)
                      |...++++.+....           .+...|..+..++...|+.+.+..+..+
T Consensus       300 A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          300 AVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            77777776653111           1246677777778888888777766654

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.86  E-value=2.5e-18  Score=157.59  Aligned_cols=382  Identities=11%  Similarity=-0.038  Sum_probs=230.1

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhc--------CCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCC-----
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRL--------GVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAG-----   72 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----   72 (456)
                      .+.+||.+...+...|++++|++.|+++++.        .......+|+.+..+|...|++++|...+++..+..     
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            3567888888888888998888888887653        111245578888888888888888888888775421     


Q ss_pred             -C-CCCHhHHHHHHHHHHc--CCChhHHHHHHHHHHHCCCCCCHHhHHHHHHH---HHhcCChhHHHHHHHHHHhCCCCC
Q 012804           73 -I-SPDVVTYNSLIAGATR--NSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHC---LFQLGKPDEANRVFQDMICGDLTP  145 (456)
Q Consensus        73 -~-~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~  145 (456)
                       . .....++..+..++..  .+++++|++.|++..+..+. ++..+..+..+   +...++.++|++.+++..+.+ +.
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~  207 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PD  207 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SS
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-Cc
Confidence             0 1123455554444443  45688888888888876432 44455444444   345677788888888877665 45


Q ss_pred             ChhHHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHH
Q 012804          146 CTATFNIMLNGLCK----NRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYT  221 (456)
Q Consensus       146 ~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  221 (456)
                      +..++..+...+..    .++.++|.+.+++..... +.+...+..+...|...|++++|...+.+..+..+. +..++.
T Consensus       208 ~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~  285 (472)
T 4g1t_A          208 NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPN-NAYLHC  285 (472)
T ss_dssp             CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHH
T ss_pred             chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-hHHHHH
Confidence            55666665555444    456778888888877653 446677788888888888888888888887765332 455565


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcC
Q 012804          222 TIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEG  301 (456)
Q Consensus       222 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  301 (456)
                      .+..+|...+....+         .. ...      ........+..+.|...+++....++. +...+..+...|...|
T Consensus       286 ~lg~~y~~~~~~~~~---------~~-~~~------~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~lg~~~~~~~  348 (472)
T 4g1t_A          286 QIGCCYRAKVFQVMN---------LR-ENG------MYGKRKLLELIGHAVAHLKKADEANDN-LFRVCSILASLHALAD  348 (472)
T ss_dssp             HHHHHHHHHHHHHHH---------C-------------CHHHHHHHHHHHHHHHHHHHHHCTT-TCCCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhhh---------HH-HHH------HHHHHHHHhhHHHHHHHHHHHhhcCCc-hhhhhhhHHHHHHHhc
Confidence            555554322111100         00 000      000111123456778888877765332 4556777888888888


Q ss_pred             CHHHHHHHHHHHHHcCCCcCHH--hHHHHHH-HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHH
Q 012804          302 KLEAAYLLLDEMEKQGFECDKY--THTILID-GLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAIN  378 (456)
Q Consensus       302 ~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  378 (456)
                      ++++|...|++..+....+...  .+..+.. .....|++++|+..+++..+.  .|+.......         ...+.+
T Consensus       349 ~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i--~~~~~~~~~~---------~~~l~~  417 (472)
T 4g1t_A          349 QYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI--NQKSREKEKM---------KDKLQK  417 (472)
T ss_dssp             CHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS--CCCCHHHHHH---------HHHHHH
T ss_pred             cHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CcccHHHHHH---------HHHHHH
Confidence            8888888888887754333221  2223322 234678888999998888875  3432222211         233444


Q ss_pred             HHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCC
Q 012804          379 VFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGV  419 (456)
Q Consensus       379 ~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  419 (456)
                      +++.....   ++.+|..++.+|...|++++|++.|+++++.+.
T Consensus       418 ~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~  461 (472)
T 4g1t_A          418 IAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGS  461 (472)
T ss_dssp             HHHHHHHHCC-CTTHHHHHHHHHHHHHHCC--------------
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            45544333   778899999999999999999999999998753

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.86  E-value=4.2e-20  Score=163.42  Aligned_cols=232  Identities=9%  Similarity=-0.067  Sum_probs=110.2

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012804          147 TATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKC  226 (456)
Q Consensus       147 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  226 (456)
                      ...+..+...+.+.|++++|+..|+++.+.. +.+..++..+..++...|++++|...|+++....+ .+..++..+..+
T Consensus        65 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~  142 (365)
T 4eqf_A           65 WPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQP-NNLKALMALAVS  142 (365)
T ss_dssp             CTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHH
Confidence            3445566666666666666666666665542 33555666666666666666666666666555322 245555666666


Q ss_pred             HHhcCchhHHHHHHHHHHHcCCCcChhhH----------HHHHHHHHHcCChHHHHHHHHHHHHCCCc-cCHHHHHHHHH
Q 012804          227 CFRNRKYKLGLEILSAMKRKGYTFDGFGY----------CTVIAAFVKIGRLKEATDYMEQMVTDGVQ-LDIVSYNTLIN  295 (456)
Q Consensus       227 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~  295 (456)
                      +...|++++|...++++.+.. +.+...+          ..+...+...|++++|...++++....+. ++..++..+..
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQN-PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhC-ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            666666666666666665542 1111111          12233444444445555544444443211 03444444444


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHH
Q 012804          296 LYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDH  375 (456)
Q Consensus       296 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  375 (456)
                      .|...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+.. +.+..++..++.+|.+.|++++
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~  299 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYRE  299 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHH
Confidence            4444444444444444444432 1133444444444444444444444444444431 2233444444444444444444


Q ss_pred             HHHHHHHh
Q 012804          376 AINVFESM  383 (456)
Q Consensus       376 a~~~~~~~  383 (456)
                      |...|+++
T Consensus       300 A~~~~~~a  307 (365)
T 4eqf_A          300 AVSNFLTA  307 (365)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444433

>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=99.86  E-value=7.5e-17  Score=155.74  Aligned_cols=380  Identities=10%  Similarity=0.034  Sum_probs=280.5

Q ss_pred             CchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCC---CCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHH
Q 012804            5 LSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVL---PDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYN   81 (456)
Q Consensus         5 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   81 (456)
                      .+|.--...+.+|...|.+.+|++++++++-. +.   -+....+.++.+..+. +..+..+..++....    +   ..
T Consensus       983 ~~PeeVs~~vKaf~~aglp~EaieLLEKivl~-~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~----d---~~ 1053 (1630)
T 1xi4_A          983 QDPEEVSVTVKAFMTADLPNELIELLEKIVLD-NSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY----D---AP 1053 (1630)
T ss_pred             cCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcC-CCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc----c---HH
Confidence            35555667778888999999999999988843 22   2345666677666666 445555555554422    1   33


Q ss_pred             HHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcC
Q 012804           82 SLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNR  161 (456)
Q Consensus        82 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  161 (456)
                      .+...+...|.+++|..+|++...     .....+.+   +...+++++|.++.++.      .+..+|..+..++...|
T Consensus      1054 eIA~Iai~lglyEEAf~IYkKa~~-----~~~A~~VL---ie~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G 1119 (1630)
T 1xi4_A         1054 DIANIAISNELFEEAFAIFRKFDV-----NTSAVQVL---IEHIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKG 1119 (1630)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHcCC-----HHHHHHHH---HHHHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCC
Confidence            366778889999999999988531     22222333   22778899999988865      24678889999999999


Q ss_pred             ChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHH
Q 012804          162 YTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILS  241 (456)
Q Consensus       162 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  241 (456)
                      ++++|++.|.+.      .+...|..++.++.+.|++++|.+.+....+..  +++...+.++.+|++.++++....+  
T Consensus      1120 ~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~f-- 1189 (1630)
T 1xi4_A         1120 MVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEF-- 1189 (1630)
T ss_pred             CHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHH--
Confidence            999999999664      367788889999999999999999998877654  3333344588888888888754433  


Q ss_pred             HHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcC
Q 012804          242 AMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECD  321 (456)
Q Consensus       242 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  321 (456)
                        .+   .++...+..+...|...|++++|..+|..+         ..|..++.+|.+.|++++|.+.+++.      .+
T Consensus      1190 --I~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n 1249 (1630)
T 1xi4_A         1190 --IN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NS 1249 (1630)
T ss_pred             --Hh---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CC
Confidence              21   445566777889999999999999999875         36888999999999999999999877      25


Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHH
Q 012804          322 KYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNL  398 (456)
Q Consensus       322 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~  398 (456)
                      ..+|..+..+|...|++..|......     +..++..+..++..|.+.|.+++|+.+++.....   ....|..+..+|
T Consensus      1250 ~~aWkev~~acve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLy 1324 (1630)
T 1xi4_A         1250 TRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILY 1324 (1630)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHH
Confidence            68888888899999998888876653     3446677788999999999999999999988766   444565566666


Q ss_pred             Hc--cCChhHHHHHHHHHHHcCCCC------CHHhHHHHHHHHHccCChHHHHH
Q 012804          399 CK--AKRLPSASKLLLSCLKSGVRI------LKSAQKAVVDGLRHSGCRREAKK  444 (456)
Q Consensus       399 ~~--~~~~~~A~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~  444 (456)
                      .+  .++..++.++|..-.  +++|      +...|..++..|.+.|+++.|..
T Consensus      1325 aKy~peklmEhlk~f~~ri--ni~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~ 1376 (1630)
T 1xi4_A         1325 SKFKPQKMREHLELFWSRV--NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII 1376 (1630)
T ss_pred             HhCCHHHHHHHHHHHHHhc--ccchHhHHHHHHHHHHHHHHHHHhcccHHHHHH
Confidence            54  455666666666443  3332      56678889999999999999884

>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=99.85  E-value=1.1e-18  Score=150.92  Aligned_cols=282  Identities=13%  Similarity=0.111  Sum_probs=99.2

Q ss_pred             hhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHH
Q 012804           19 KANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLD   98 (456)
Q Consensus        19 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   98 (456)
                      +.|++++|.++++++      +++.+|..++.++.+.|++++|++.|.+      .+|..+|..++..+...|++++|++
T Consensus        15 ~~~~ld~A~~fae~~------~~~~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           15 HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhC------CChHHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHH
Confidence            456677777777665      1224666777777777777777777743      2455566666777777777777777


Q ss_pred             HHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 012804           99 LLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGF  178 (456)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  178 (456)
                      +++...+.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..+...|...|.+++|...|..+     
T Consensus        83 yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----  148 (449)
T 1b89_A           83 YLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----  148 (449)
T ss_dssp             ----------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-----
T ss_pred             HHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----
Confidence            66555542  2345566667777777777776666553       245556777777777777777777777655     


Q ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHH
Q 012804          179 VPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTV  258 (456)
Q Consensus       179 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  258 (456)
                          ..|..++.++.+.|++++|.+.+.++      .++.+|..++.+|...|+++.|......     +...+.....+
T Consensus       149 ----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~l  213 (449)
T 1b89_A          149 ----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEEL  213 (449)
T ss_dssp             ----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHH
T ss_pred             ----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHH
Confidence                24666677777777777777777665      2566677777777777777776443332     12233334456


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-cCCCc------CHHhHHHHHHH
Q 012804          259 IAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEK-QGFEC------DKYTHTILIDG  331 (456)
Q Consensus       259 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~------~~~~~~~l~~~  331 (456)
                      +..|.+.|++++|..+++..+... +-....|+.+..+|++- ++++..+.++.... .+++|      +...|..++..
T Consensus       214 v~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky-~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~l  291 (449)
T 1b89_A          214 INYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFL  291 (449)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT-CHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHH
Confidence            666777777777777777666554 33556666666555543 33333333332221 11222      34456666666


Q ss_pred             HHhcCCHHHHHH
Q 012804          332 LCKAGNIKGARL  343 (456)
Q Consensus       332 ~~~~~~~~~a~~  343 (456)
                      |...++++.|..
T Consensus       292 y~~~~e~d~A~~  303 (449)
T 1b89_A          292 YDKYEEYDNAII  303 (449)
T ss_dssp             HHHTTCHHHHHH
T ss_pred             HHhhchHHHHHH
Confidence            666677666654

>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=99.85  E-value=6.9e-19  Score=152.17  Aligned_cols=335  Identities=12%  Similarity=0.096  Sum_probs=169.1

Q ss_pred             CchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHH
Q 012804            5 LSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLI   84 (456)
Q Consensus         5 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   84 (456)
                      +++.+|..++.++.+.|++++|++.|.+.      +|...|..++..+...|++++|+..++...+.  .+++.+.+.++
T Consensus        30 ~~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li  101 (449)
T 1b89_A           30 NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELI  101 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHH
Confidence            34568999999999999999999999753      47778899999999999999999977777664  45677888899


Q ss_pred             HHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChH
Q 012804           85 AGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTD  164 (456)
Q Consensus        85 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  164 (456)
                      .+|.+.|+++++.++++       .|+..+|..+...|...|.+++|...|..+         ..|..++.++.+.|+++
T Consensus       102 ~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq  165 (449)
T 1b89_A          102 FALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQ  165 (449)
T ss_dssp             -------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHH
T ss_pred             HHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHH
Confidence            99999999999888774       267779999999999999999999999876         47889999999999999


Q ss_pred             HHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHH
Q 012804          165 NALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMK  244 (456)
Q Consensus       165 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  244 (456)
                      +|.+.++++      .++.+|..++.+|...|+++.|......     +...+.....++..|.+.|.+++|..+++...
T Consensus       166 ~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL  234 (449)
T 1b89_A          166 AAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAAL  234 (449)
T ss_dssp             HHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            999999988      2778999999999999999999655443     22344445578888999999999999999988


Q ss_pred             HcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHC-CCcc------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 012804          245 RKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTD-GVQL------DIVSYNTLINLYCKEGKLEAAYLLLDEMEKQG  317 (456)
Q Consensus       245 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  317 (456)
                      ... +.....|.-+.-+|++- ++++..+.++...+. +++|      +...|..++..|.+.++++.|...   |.++ 
T Consensus       235 ~le-~ah~~~ftel~il~~ky-~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~t---m~~h-  308 (449)
T 1b89_A          235 GLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT---MMNH-  308 (449)
T ss_dssp             TST-TCCHHHHHHHHHHHHTT-CHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH---HHHS-
T ss_pred             CCc-HHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH---HHhC-
Confidence            776 56666777776666654 444444444433332 3443      456688888889999999988763   4443 


Q ss_pred             CCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhcc
Q 012804          318 FECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEV  385 (456)
Q Consensus       318 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  385 (456)
                       +|+..--..+.....+..+.+---+...-.+..  .|  ..++.|+.++...=+...+.++|++...
T Consensus       309 -~~~a~~~~~f~~~~~kv~n~elyYkai~fyl~~--~p--~~l~~ll~~l~~~ld~~r~v~~~~~~~~  371 (449)
T 1b89_A          309 -PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KP--LLLNDLLMVLSPRLDHTRAVNYFSKVKQ  371 (449)
T ss_dssp             -TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CG--GGHHHHHHHHGGGCCHHHHHHHHHHTTC
T ss_pred             -ChhhhhhHHHHHHHhchhHHHHHHHHHHHHHhc--CH--HHHHHHHHHHHhccCcHHHHHHHHHcCC
Confidence             233333333334445666665544444444432  33  4577888888888888888888876543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.85  E-value=4.4e-18  Score=156.01  Aligned_cols=385  Identities=11%  Similarity=-0.066  Sum_probs=235.3

Q ss_pred             CHHhHHHHHHHHHccCChhHHHHHHHHHHhC--------CCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHC-----C
Q 012804           41 DVVTYNMLIDAYCQFVSFDAGYTILNRMREA--------GISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEM-----G  107 (456)
Q Consensus        41 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~  107 (456)
                      ....||.+..++...|++++|++.|++..+.        ..+....+|..+..+|...|++++|...+++..+.     +
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            3457888888888888888888888776542        11223567788888888888888888888776542     1


Q ss_pred             --CCCCHHhHHHHHHHHHhc--CChhHHHHHHHHHHhCCCCCChhHHHHHHHH---HHhcCChHHHHHHHHHHHhCCCCC
Q 012804          108 --IPPDVWSYNSLMHCLFQL--GKPDEANRVFQDMICGDLTPCTATFNIMLNG---LCKNRYTDNALRMFRGLQKHGFVP  180 (456)
Q Consensus       108 --~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~  180 (456)
                        ......++..+..++...  +++++|.+.|++..+.. |.+...+..+..+   +...++.++|++.+++..+.. +.
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~  207 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PD  207 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SS
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-Cc
Confidence              011244555555555443  46788888888877664 4445555554444   334566777888887776652 23


Q ss_pred             cHHHHHHHHHHHHH----cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHH
Q 012804          181 ELVTYNILIKGLCK----AGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYC  256 (456)
Q Consensus       181 ~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  256 (456)
                      +...+..+...+..    .+++++|...+++.....+ .+..++..+...+...|++++|...++++.+.. |.+..++.
T Consensus       208 ~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~  285 (472)
T 4g1t_A          208 NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAP-GVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHC  285 (472)
T ss_dssp             CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHH
T ss_pred             chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCc-cHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHH
Confidence            45555555444433    3556777777777666433 356667777777888888888888888777664 44555555


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcC
Q 012804          257 TVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAG  336 (456)
Q Consensus       257 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  336 (456)
                      .+..+|...+...         ...       ............+.++.|...++...+... .+..++..+...+...|
T Consensus       286 ~lg~~y~~~~~~~---------~~~-------~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~lg~~~~~~~  348 (472)
T 4g1t_A          286 QIGCCYRAKVFQV---------MNL-------RENGMYGKRKLLELIGHAVAHLKKADEAND-NLFRVCSILASLHALAD  348 (472)
T ss_dssp             HHHHHHHHHHHHH---------HHC-------------CHHHHHHHHHHHHHHHHHHHHHCT-TTCCCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh---------hhH-------HHHHHHHHHHHHhhHHHHHHHHHHHhhcCC-chhhhhhhHHHHHHHhc
Confidence            5554443211100         000       000001111123346788999998887643 35677888999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCH--HHHHHHHH-HHHhCCCHHHHHHHHHHhccCChhhHHHHHHHHHccCChhHHHHHHHH
Q 012804          337 NIKGARLHLEYMNKIGFDSNL--EAYNCIVD-RLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLS  413 (456)
Q Consensus       337 ~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~-~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  413 (456)
                      ++++|...|+++.+....+..  ..+..+.. .....|+.++|+..|+++...++..+..       .+....+.+++++
T Consensus       349 ~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~-------~~~~~~l~~~~~~  421 (472)
T 4g1t_A          349 QYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREK-------EKMKDKLQKIAKM  421 (472)
T ss_dssp             CHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHH-------HHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHH-------HHHHHHHHHHHHH
Confidence            999999999999886433322  12333333 3457899999999999988774443321       1223455667777


Q ss_pred             HHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhccc
Q 012804          414 CLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKI  454 (456)
Q Consensus       414 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  454 (456)
                      .++.++ .++.++..++.++...|++++|.+.|++..+.+.
T Consensus       422 ~l~~~p-~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~  461 (472)
T 4g1t_A          422 RLSKNG-ADSEALHVLAFLQELNEKMQQADEDSERGLESGS  461 (472)
T ss_dssp             HHHHCC--CTTHHHHHHHHHHHHHHCC--------------
T ss_pred             HHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            777654 4788999999999999999999999999887653

>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=99.85  E-value=3.1e-19  Score=155.26  Aligned_cols=280  Identities=8%  Similarity=-0.079  Sum_probs=159.7

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIA   85 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   85 (456)
                      +...+..+...+...|++++|+.+|+++.+..+. +...+..+..++...|++++|.+.++++.+.. +.+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHH
Confidence            3445566677777778888888888877776543 66677777777777777777777777777653 335666777777


Q ss_pred             HHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHH-HH-HHHhcCCh
Q 012804           86 GATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIM-LN-GLCKNRYT  163 (456)
Q Consensus        86 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~-~~~~~~~~  163 (456)
                      .+...|++++|.+.++++.+.... +...+..+....                      |+......+ .. .+...|++
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~  154 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQAD----------------------VDIDDLNVQSEDFFFAAPNEY  154 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTT-TTTC------------------------------------------CCTTSHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHH----------------------HHHHHHHHHHHhHHHHHcccH
Confidence            777777777777777777765322 222222220000                      000000011 11 24444555


Q ss_pred             HHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHH
Q 012804          164 DNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAM  243 (456)
Q Consensus       164 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  243 (456)
                      ++|...++++.+.. +.+...+..+...+...|++++|...++++..... .+..++..+..++...|++++|...++++
T Consensus       155 ~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  232 (327)
T 3cv0_A          155 RECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRP-DDAQLWNKLGATLANGNRPQEALDAYNRA  232 (327)
T ss_dssp             HHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            55555555554432 22445555555555555555555555555544322 24455555566666666666666666666


Q ss_pred             HHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCcc-----------CHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012804          244 KRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQL-----------DIVSYNTLINLYCKEGKLEAAYLLLDE  312 (456)
Q Consensus       244 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~a~~~~~~  312 (456)
                      .+.. +.+...+..+..++...|++++|...++++.......           +...+..+..++...|++++|..++++
T Consensus       233 ~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  311 (327)
T 3cv0_A          233 LDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQ  311 (327)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTC
T ss_pred             HHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            5553 3445556666666666666666666666665542211           355666677777777777777766654


Q ss_pred             H
Q 012804          313 M  313 (456)
Q Consensus       313 ~  313 (456)
                      .
T Consensus       312 ~  312 (327)
T 3cv0_A          312 N  312 (327)
T ss_dssp             C
T ss_pred             H
Confidence            3

>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=99.85  E-value=1.2e-18  Score=151.50  Aligned_cols=260  Identities=9%  Similarity=-0.053  Sum_probs=143.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCC
Q 012804          118 LMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGR  197 (456)
Q Consensus       118 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  197 (456)
                      +...+...|++++|..+|+++.+.. +.+...+..+..++...|++++|...++++.+.. +.+..++..+...+...|+
T Consensus        27 ~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~  104 (327)
T 3cv0_A           27 EGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHN  104 (327)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcCC
Confidence            3334444444444444444443332 2233344444444444444444444444443331 2233344444444444444


Q ss_pred             HHHHHHHHHHHhhCCCCCCHHHHH-------------HH-HH-HHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHH
Q 012804          198 LRTARWILKELGDSGHAPNAITYT-------------TI-MK-CCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAF  262 (456)
Q Consensus       198 ~~~a~~~~~~~~~~~~~~~~~~~~-------------~l-~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  262 (456)
                      +++|...++++...... +...+.             .+ .. .+...|++++|...++++.+.. +.+...+..+...+
T Consensus       105 ~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~  182 (327)
T 3cv0_A          105 ANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLY  182 (327)
T ss_dssp             HHHHHHHHHHHHHTSTT-TTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            44444444444432111 111111             11 11 2556677777777777777664 44566677777777


Q ss_pred             HHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHH
Q 012804          263 VKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGAR  342 (456)
Q Consensus       263 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  342 (456)
                      ...|++++|...++++.+... .+...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|.
T Consensus       183 ~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~  260 (327)
T 3cv0_A          183 NLSNNYDSAAANLRRAVELRP-DDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAA  260 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHH
Confidence            777777777777777766532 256667777777777777777777777776653 225566777777777777777777


Q ss_pred             HHHHHHHhCCCCC------------CHHHHHHHHHHHHhCCCHHHHHHHHHHhc
Q 012804          343 LHLEYMNKIGFDS------------NLEAYNCIVDRLGKDGKIDHAINVFESME  384 (456)
Q Consensus       343 ~~~~~~~~~~~~~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  384 (456)
                      ..++++.+.. +.            +...+..+..++.+.|++++|..++++..
T Consensus       261 ~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          261 KQLVRAIYMQ-VGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             HHHHHHHHHH-TTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             HHHHHHHHhC-CccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            7777766542 22            35566666667777777777766665443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.84  E-value=2.1e-18  Score=146.27  Aligned_cols=272  Identities=11%  Similarity=-0.001  Sum_probs=214.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCcH--HHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcC
Q 012804          154 LNGLCKNRYTDNALRMFRGLQKHGFVPEL--VTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNR  231 (456)
Q Consensus       154 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  231 (456)
                      ++-....|++..|+..++.....  .|+.  .....+.++|...|+++.|...++.    ..+|+..++..+...+...+
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCC
Confidence            45566789999999999877554  3333  3556678999999999999986644    23457778888889999999


Q ss_pred             chhHHHHHHHHHHHcCC-CcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHH
Q 012804          232 KYKLGLEILSAMKRKGY-TFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLL  310 (456)
Q Consensus       232 ~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  310 (456)
                      +.++|.+.++++...+. |.+...+..+...+...|++++|.+.+++      +.+...+..++..+.+.|++++|...+
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l  153 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKEL  153 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            99999999999988764 44566677778899999999999999987      457888999999999999999999999


Q ss_pred             HHHHHcCCCcCHHhHHH----HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC
Q 012804          311 DEMEKQGFECDKYTHTI----LIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK  386 (456)
Q Consensus       311 ~~~~~~~~~~~~~~~~~----l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  386 (456)
                      +++.+..  |+.. ...    ++..+...|++++|..+|+++.+. .+.+...++.++.++.+.|++++|.+.|+++...
T Consensus       154 ~~~~~~~--p~~~-~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~  229 (291)
T 3mkr_A          154 KKMQDQD--EDAT-LTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDK  229 (291)
T ss_dssp             HHHHHHC--TTCH-HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhC--cCcH-HHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9998864  4432 222    233344558999999999999987 4778999999999999999999999999998765


Q ss_pred             ---ChhhHHHHHHHHHccCChhH-HHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHH
Q 012804          387 ---DSFTYSSMVHNLCKAKRLPS-ASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQ  446 (456)
Q Consensus       387 ---~~~~~~~l~~~~~~~~~~~~-A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  446 (456)
                         ++.++..++..+...|+.++ +.++++++++..+. ++.+.    ....+.+.++++..-|
T Consensus       230 ~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~-~~~~~----d~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          230 DSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRS-HPFIK----EYRAKENDFDRLVLQY  288 (291)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHH----HHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCC-ChHHH----HHHHHHHHHHHHHHHc
Confidence               77889999999999999976 57899999877543 44333    3445555566655443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.83  E-value=5.3e-18  Score=143.77  Aligned_cols=254  Identities=13%  Similarity=0.120  Sum_probs=147.7

Q ss_pred             HHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCCh
Q 012804           14 VCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLL   93 (456)
Q Consensus        14 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   93 (456)
                      |+.....|+++.|+..++......+.........+.++|...|+++.|+..++.   . -+|+..++..+...+...++.
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~   81 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRR   81 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTH
T ss_pred             HHHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcH
Confidence            344566677777777776654433222223445566777777777777765543   1 245566666677777777777


Q ss_pred             hHHHHHHHHHHHCCCCC-CHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHH
Q 012804           94 SCSLDLLDEMLEMGIPP-DVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRG  172 (456)
Q Consensus        94 ~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  172 (456)
                      ++|++.++++...+..| +...+..+...+...|++++|++.+++      +.+...+..++..+.+.|++++|.+.+++
T Consensus        82 ~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~  155 (291)
T 3mkr_A           82 DAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKK  155 (291)
T ss_dssp             HHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            77777777776654323 444555566667777777777777665      34556666666677777777777777777


Q ss_pred             HHhCCCCCcHHHH---HHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCC
Q 012804          173 LQKHGFVPELVTY---NILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYT  249 (456)
Q Consensus       173 ~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  249 (456)
                      +.+..  |+....   ..++..+...|++++|..+|+++.... +.+...++.+..++...|++++|...++++.+.. |
T Consensus       156 ~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p  231 (291)
T 3mkr_A          156 MQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-S  231 (291)
T ss_dssp             HHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-C
Confidence            66542  232111   112222333456666666666665542 2355555556666666666666666666665554 4


Q ss_pred             cChhhHHHHHHHHHHcCChHH-HHHHHHHHHHC
Q 012804          250 FDGFGYCTVIAAFVKIGRLKE-ATDYMEQMVTD  281 (456)
Q Consensus       250 ~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~  281 (456)
                      .+..++..++..+...|+.++ +.++++++.+.
T Consensus       232 ~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          232 GHPETLINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            455555555555555665543 34555555543

>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=99.83  E-value=7.8e-16  Score=148.84  Aligned_cols=354  Identities=13%  Similarity=0.080  Sum_probs=264.5

Q ss_pred             CHHhHHHHHHHHHccCChhHHHHHHHHHHhCCC--CCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHH
Q 012804           41 DVVTYNMLIDAYCQFVSFDAGYTILNRMREAGI--SPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSL  118 (456)
Q Consensus        41 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  118 (456)
                      ++.--...+.+|...|.+.+|+++++++.-.+-  .-+...-+.++.+..+. +..+..++..++...    +   ...+
T Consensus       984 ~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~----d---~~eI 1055 (1630)
T 1xi4_A          984 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY----D---APDI 1055 (1630)
T ss_pred             CHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc----c---HHHH
Confidence            444456777888889999999999998884321  12345556677776666 556666666665532    2   2346


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCH
Q 012804          119 MHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRL  198 (456)
Q Consensus       119 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  198 (456)
                      ...+...|.+++|..+|++..     -.....+.++   ...+++++|.++.++..      ++.+|..+..++...|++
T Consensus      1056 A~Iai~lglyEEAf~IYkKa~-----~~~~A~~VLi---e~i~nldrAiE~Aervn------~p~vWsqLAKAql~~G~~ 1121 (1630)
T 1xi4_A         1056 ANIAISNELFEEAFAIFRKFD-----VNTSAVQVLI---EHIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMV 1121 (1630)
T ss_pred             HHHHHhCCCHHHHHHHHHHcC-----CHHHHHHHHH---HHHhhHHHHHHHHHhcC------CHHHHHHHHHHHHhCCCH
Confidence            778888999999999999863     1122223332   26788999999988662      577888999999999999


Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHH
Q 012804          199 RTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQM  278 (456)
Q Consensus       199 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  278 (456)
                      ++|.+.|.+.      -+...|..++.++.+.|++++|.+++....+..  +++.....++.+|.+.+++++...+.   
T Consensus      1122 kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI--- 1190 (1630)
T 1xi4_A         1122 KEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI--- 1190 (1630)
T ss_pred             HHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---
Confidence            9999999664      377888889999999999999999999888764  33333345888899998888644443   


Q ss_pred             HHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 012804          279 VTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLE  358 (456)
Q Consensus       279 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  358 (456)
                       +   .++...+..+...|...|++++|..+|...         ..|..++..+.+.|++++|.+.+++.      .+..
T Consensus      1191 -~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~ 1251 (1630)
T 1xi4_A         1191 -N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTR 1251 (1630)
T ss_pred             -h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHH
Confidence             2   245667778999999999999999999885         37889999999999999999999876      3568


Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHhccCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHH--Hcc
Q 012804          359 AYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGL--RHS  436 (456)
Q Consensus       359 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~  436 (456)
                      +|..+..+|...|++..|...... ...++..+..++..|.+.|.+++|+.+++..+..+ +-....|..++.++  .+-
T Consensus      1252 aWkev~~acve~~Ef~LA~~cgl~-Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~p 1329 (1630)
T 1xi4_A         1252 TWKEVCFACVDGKEFRLAQMCGLH-IVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKP 1329 (1630)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHh-hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCCH
Confidence            899999999999999999988775 44477788899999999999999999999988654 22445554454444  445


Q ss_pred             CChHHHHHHHHH
Q 012804          437 GCRREAKKIQSK  448 (456)
Q Consensus       437 g~~~~A~~~~~~  448 (456)
                      ++.-++.++|.+
T Consensus      1330 eklmEhlk~f~~ 1341 (1630)
T 1xi4_A         1330 QKMREHLELFWS 1341 (1630)
T ss_pred             HHHHHHHHHHHH
Confidence            566666666553

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.81  E-value=1.1e-17  Score=151.17  Aligned_cols=346  Identities=12%  Similarity=-0.022  Sum_probs=171.3

Q ss_pred             HHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCCh---hHHHHHHHHHHhCCCCCCHhHHHHHHHHHH
Q 012804           12 ICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSF---DAGYTILNRMREAGISPDVVTYNSLIAGAT   88 (456)
Q Consensus        12 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   88 (456)
                      .+...+.+.|++++|+++|+++.+.|   ++..+..+..++...|+.   ++|.++|++..+.    ++..+..+...+.
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~   80 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLA   80 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHH
Confidence            45677788888888888888887765   334455666667777777   7888888877753    4555566666444


Q ss_pred             cCC-----ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhH---HHHHHHHHHhCCCCCChhHHHHHHHHHHhc
Q 012804           89 RNS-----LLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDE---ANRVFQDMICGDLTPCTATFNIMLNGLCKN  160 (456)
Q Consensus        89 ~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  160 (456)
                      ..+     +.++|.+.|++..+.|..   ..+..|...|...+..++   +.+.+......|   +...+..+...|...
T Consensus        81 ~~~~~~~~~~~~A~~~~~~Aa~~g~~---~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~  154 (452)
T 3e4b_A           81 AKPGATEAEHHEAESLLKKAFANGEG---NTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQ  154 (452)
T ss_dssp             TC--CCHHHHHHHHHHHHHHHHTTCS---SCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHH
T ss_pred             hCCCCCCcCHHHHHHHHHHHHHCCCH---HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcC
Confidence            444     667888888888776532   256667777766654333   344444443333   244555666666666


Q ss_pred             CChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcC---CHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhc----Cch
Q 012804          161 RYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAG---RLRTARWILKELGDSGHAPNAITYTTIMKCCFRN----RKY  233 (456)
Q Consensus       161 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~  233 (456)
                      +.++++......+.+.-...++..+..+...|...|   +.++|...|++....|.. +...+..+...|...    +++
T Consensus       155 ~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~  233 (452)
T 3e4b_A          155 GTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDE  233 (452)
T ss_dssp             TCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCH
T ss_pred             CCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCH
Confidence            655444433222222111112235666666666666   666666666666665433 444334445555433    456


Q ss_pred             hHHHHHHHHHHHcCCCcChhhHHHHHHH-H--HHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcC-----CHHH
Q 012804          234 KLGLEILSAMKRKGYTFDGFGYCTVIAA-F--VKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEG-----KLEA  305 (456)
Q Consensus       234 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~  305 (456)
                      ++|..+|+... .   -++..+..+... +  ...+++++|...|++..+.|   +...+..+...|. .|     ++++
T Consensus       234 ~~A~~~~~~aa-~---g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~  305 (452)
T 3e4b_A          234 KTAQALLEKIA-P---GYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKA  305 (452)
T ss_dssp             HHHHHHHHHHG-G---GSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHH
T ss_pred             HHHHHHHHHHc-C---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHH
Confidence            66666666655 2   233344444443 2  34556666666666655543   3444455555554 33     5566


Q ss_pred             HHHHHHHHHHcCCCcCHHhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----CCCHHHHH
Q 012804          306 AYLLLDEMEKQGFECDKYTHTILIDGLCK----AGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGK----DGKIDHAI  377 (456)
Q Consensus       306 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~  377 (456)
                      |...|++.. .   -+......+...|..    ..++++|..+|++..+.|   +......|..+|..    ..+.++|.
T Consensus       306 A~~~~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~  378 (452)
T 3e4b_A          306 AEAHFEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG---QNSADFAIAQLFSQGKGTKPDPLNAY  378 (452)
T ss_dssp             HHHHHHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT---CTTHHHHHHHHHHSCTTBCCCHHHHH
T ss_pred             HHHHHHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC---hHHHHHHHHHHHHhCCCCCCCHHHHH
Confidence            666655554 2   133444444444433    225555555555555544   12233344444432    23455555


Q ss_pred             HHHHHhccC
Q 012804          378 NVFESMEVK  386 (456)
Q Consensus       378 ~~~~~~~~~  386 (456)
                      ..|+.+...
T Consensus       379 ~~~~~A~~~  387 (452)
T 3e4b_A          379 VFSQLAKAQ  387 (452)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHHHC
Confidence            555554443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.78  E-value=2e-16  Score=143.07  Aligned_cols=375  Identities=12%  Similarity=0.023  Sum_probs=259.9

Q ss_pred             HHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCCh---hHHHHHHHHHHHCCCCCCHHhHHHHHHHHH
Q 012804           47 MLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLL---SCSLDLLDEMLEMGIPPDVWSYNSLMHCLF  123 (456)
Q Consensus        47 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  123 (456)
                      .+...+.+.|++++|.++|++..+.|   ++..+..+...|...|+.   ++|.+.|++..+.    ++..+..+...+.
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~   80 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLA   80 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHH
Confidence            36677788999999999999998875   344455566667778888   8999999998864    5566777777566


Q ss_pred             hcC-----ChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCh---HHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHc
Q 012804          124 QLG-----KPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYT---DNALRMFRGLQKHGFVPELVTYNILIKGLCKA  195 (456)
Q Consensus       124 ~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  195 (456)
                      ..+     ++++|...|++....| .+  ..+..+...|...+..   .++.+.+......|   +......+...|...
T Consensus        81 ~~~~~~~~~~~~A~~~~~~Aa~~g-~~--~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~  154 (452)
T 3e4b_A           81 AKPGATEAEHHEAESLLKKAFANG-EG--NTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQ  154 (452)
T ss_dssp             TC--CCHHHHHHHHHHHHHHHHTT-CS--SCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHH
T ss_pred             hCCCCCCcCHHHHHHHHHHHHHCC-CH--HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcC
Confidence            655     7889999999999876 33  3666777777776554   44566666665554   345666777888887


Q ss_pred             CCH----HHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcC---chhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHc---
Q 012804          196 GRL----RTARWILKELGDSGHAPNAITYTTIMKCCFRNR---KYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKI---  265 (456)
Q Consensus       196 ~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---  265 (456)
                      +.+    +.+..+++.....    ++..+..+...|...|   +.++|...|+...+.+ +++...+..+...|...   
T Consensus       155 ~~~~~~~~~a~~~~~~a~~~----~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~  229 (452)
T 3e4b_A          155 GTYDQHLDDVERICKAALNT----TDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLG  229 (452)
T ss_dssp             TCGGGGHHHHHHHHHHHTTT----CTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGS
T ss_pred             CCcccCHHHHHHHHHHHHcC----CHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCC
Confidence            754    4444445444432    3337788888898899   9999999999999988 66666656677777655   


Q ss_pred             -CChHHHHHHHHHHHHCCCccCHHHHHHHHHH-H--HhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcC-----
Q 012804          266 -GRLKEATDYMEQMVTDGVQLDIVSYNTLINL-Y--CKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAG-----  336 (456)
Q Consensus       266 -~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----  336 (456)
                       +++++|...|++.. .   -++..+..+... +  ...+++++|...|++..+.|   +...+..+...|. .|     
T Consensus       230 ~~d~~~A~~~~~~aa-~---g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~  301 (452)
T 3e4b_A          230 TPDEKTAQALLEKIA-P---GYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPA  301 (452)
T ss_dssp             SCCHHHHHHHHHHHG-G---GSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCC
T ss_pred             CCCHHHHHHHHHHHc-C---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCC
Confidence             69999999999988 3   356667777776 4  46899999999999999876   6677777877776 45     


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----CCCHHHHHHHHHHhccC-ChhhHHHHHHHHHc----cCChhHH
Q 012804          337 NIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGK----DGKIDHAINVFESMEVK-DSFTYSSMVHNLCK----AKRLPSA  407 (456)
Q Consensus       337 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~A  407 (456)
                      ++++|..+|++.. .   .+......|...|..    ..++++|...|++..+. ++.....+...|..    ..++.+|
T Consensus       302 d~~~A~~~~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~G~g~~~d~~~A  377 (452)
T 3e4b_A          302 DAKAAEAHFEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADFAIAQLFSQGKGTKPDPLNA  377 (452)
T ss_dssp             CHHHHHHHHHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHHHHHHHHHSCTTBCCCHHHH
T ss_pred             CHHHHHHHHHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHHHHHHHHHhCCCCCCCHHHH
Confidence            9999999999987 4   367788888888876    44999999999998877 78888888888875    5689999


Q ss_pred             HHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhc
Q 012804          408 SKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMA  452 (456)
Q Consensus       408 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  452 (456)
                      ...|+++.+.|.+ +.......+......++.++|.++.++..+.
T Consensus       378 ~~~~~~A~~~g~~-~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~~  421 (452)
T 3e4b_A          378 YVFSQLAKAQDTP-EANDLATQLEAPLTPAQRAEGQRLVQQELAA  421 (452)
T ss_dssp             HHHHHHHHTTCCH-HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCH-HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence            9999999988743 3333333333334455677788887776554

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.77  E-value=1.4e-16  Score=133.35  Aligned_cols=223  Identities=13%  Similarity=0.063  Sum_probs=154.2

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCC--cC----hhhH
Q 012804          182 LVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYT--FD----GFGY  255 (456)
Q Consensus       182 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~  255 (456)
                      ...+..+...+...|++++|...|+++.+..  .+...+..+..++...|++++|...++.+.+....  ++    ...+
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            4566777777788888888888888777665  56777777777788888888888888777765311  11    4566


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhc
Q 012804          256 CTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKA  335 (456)
Q Consensus       256 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  335 (456)
                      ..+..++...|++++|...++++...  .|+.       ..+...|++++|...++.+.... +.+...+..+...+...
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHh
Confidence            67777777777777777777777764  3342       34555667777777777776642 22455666677777777


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHH
Q 012804          336 GNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLL  412 (456)
Q Consensus       336 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~  412 (456)
                      |++++|...++++.+.. +.+...+..++.++...|++++|.+.++++...   ++..|..++.++...|++++|.+.++
T Consensus       153 ~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  231 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLD  231 (258)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            77777777777776653 445667777777777777777777777766544   55666777777777777777777777


Q ss_pred             HHHHc
Q 012804          413 SCLKS  417 (456)
Q Consensus       413 ~~~~~  417 (456)
                      ++++.
T Consensus       232 ~a~~~  236 (258)
T 3uq3_A          232 AARTK  236 (258)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            77655

>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=99.77  E-value=6.7e-14  Score=130.67  Aligned_cols=426  Identities=10%  Similarity=0.021  Sum_probs=254.2

Q ss_pred             HHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCC---hhHHHHHHHH
Q 012804           26 AEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSL---LSCSLDLLDE  102 (456)
Q Consensus        26 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~  102 (456)
                      .+..|++.+..++ -|...|..++..+.+.+.++.+..+|+.+... .+.....|...+..-.+.++   ++.+.++|++
T Consensus        51 ~i~~lE~~l~~np-~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeR  128 (679)
T 4e6h_A           51 VIGKLNDMIEEQP-TDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLAR  128 (679)
T ss_dssp             HHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCc-CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHH
Confidence            3444555555554 36666666666666666666666666666654 34445556555665556666   6666666666


Q ss_pred             HHHCC-CCCCHHhHHHHHHHHHhcCCh--------hHHHHHHHHHHh-CCC-CC-ChhHHHHHHHHHH---------hcC
Q 012804          103 MLEMG-IPPDVWSYNSLMHCLFQLGKP--------DEANRVFQDMIC-GDL-TP-CTATFNIMLNGLC---------KNR  161 (456)
Q Consensus       103 ~~~~~-~~~~~~~~~~l~~~~~~~~~~--------~~a~~~~~~~~~-~~~-~~-~~~~~~~l~~~~~---------~~~  161 (456)
                      .+... .+|++..|...+....+.++.        +...++|+..+. .|. .+ +...|...+....         ..+
T Consensus       129 al~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~  208 (679)
T 4e6h_A          129 CLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQ  208 (679)
T ss_dssp             HTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHH
T ss_pred             HHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHh
Confidence            66543 125555665555544444432        223355555443 233 22 2345555554432         123


Q ss_pred             ChHHHHHHHHHHHhCCCCCcHHHHHH---HHHHH----------HHcCCHHHHHHHHHHHhh--CCC----C--------
Q 012804          162 YTDNALRMFRGLQKHGFVPELVTYNI---LIKGL----------CKAGRLRTARWILKELGD--SGH----A--------  214 (456)
Q Consensus       162 ~~~~a~~~~~~~~~~~~~~~~~~~~~---l~~~~----------~~~~~~~~a~~~~~~~~~--~~~----~--------  214 (456)
                      +.+.+..+|+.........-..+|..   +....          -...+++.|...+..+..  .++    +        
T Consensus       209 ~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~  288 (679)
T 4e6h_A          209 RVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATE  288 (679)
T ss_dssp             HHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCT
T ss_pred             HHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchh
Confidence            34556666666654211111122211   11110          001123334444443221  011    0        


Q ss_pred             ---C--C------HHHHHHHHHHHHhcC-------chhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHH-HHH
Q 012804          215 ---P--N------AITYTTIMKCCFRNR-------KYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEAT-DYM  275 (456)
Q Consensus       215 ---~--~------~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~  275 (456)
                         |  +      ...|...+..-...+       ..+.+..+|++++... +.....|...+..+...|+.++|. .++
T Consensus       289 ~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il  367 (679)
T 4e6h_A          289 SNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYL  367 (679)
T ss_dssp             TTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHH
T ss_pred             ccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence               1  0      123444443322222       1233456788777664 557777777788788888888886 999


Q ss_pred             HHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC---------CCcC------------HHhHHHHHHHHHh
Q 012804          276 EQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQG---------FECD------------KYTHTILIDGLCK  334 (456)
Q Consensus       276 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------~~~~------------~~~~~~l~~~~~~  334 (456)
                      +..... .+.+...|...+...-..|++++|..+|+.+....         ..|+            ..+|...+....+
T Consensus       368 ~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR  446 (679)
T 4e6h_A          368 KLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKR  446 (679)
T ss_dssp             HHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHH
Confidence            888875 44567777778888888999999999999887531         0131            2357777777778


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC-CHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHH
Q 012804          335 AGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDG-KIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKL  410 (456)
Q Consensus       335 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~  410 (456)
                      .|+.+.|..+|..+.+.........|...+..-.+.| +.+.|.++|+...+.   ++..|...+......|+.+.|..+
T Consensus       447 ~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~AR~l  526 (679)
T 4e6h_A          447 IQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEESQVKSL  526 (679)
T ss_dssp             HHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCHHHHHHH
Confidence            8889999999999887511223445544444444544 489999999988776   667777888888888999999999


Q ss_pred             HHHHHHcCCCC--CHHhHHHHHHHHHccCChHHHHHHHHHHHhcccC
Q 012804          411 LLSCLKSGVRI--LKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKIS  455 (456)
Q Consensus       411 ~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  455 (456)
                      |++++.....+  ....|..++..-...|+.+.+.++.+++.+..+.
T Consensus       527 feral~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~  573 (679)
T 4e6h_A          527 FESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPE  573 (679)
T ss_dssp             HHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            99998764322  3457778888888899999999999999887654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.77  E-value=8.9e-17  Score=130.26  Aligned_cols=199  Identities=13%  Similarity=-0.004  Sum_probs=137.0

Q ss_pred             CcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHH
Q 012804          249 TFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTIL  328 (456)
Q Consensus       249 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  328 (456)
                      |++...+..+...+...|++++|...+++.++..+. +...+..+..++.+.|++++|...+++..+..+ .+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVARTP-RYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHH
Confidence            445556666677777777777777777777766433 666777777777777777777777777776532 255667777


Q ss_pred             HHHHHhc-----------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC--ChhhHHHHH
Q 012804          329 IDGLCKA-----------GNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK--DSFTYSSMV  395 (456)
Q Consensus       329 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~l~  395 (456)
                      ...+...           |++++|...++++.+.. |.+...+..+..++...|++++|+..|+++...  ++..+..++
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~la  158 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSALA  158 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHHHH
Confidence            7777777           88888888888888763 556778888888888888888888888876654  677788888


Q ss_pred             HHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHh
Q 012804          396 HNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       396 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      .++...|++++|+..|+++++..+. +...+..++.++...|++++|+..+++...
T Consensus       159 ~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  213 (217)
T 2pl2_A          159 ELYLSMGRLDEALAQYAKALEQAPK-DLDLRVRYASALLLKGKAEEAARAAALEHH  213 (217)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTC----------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHHHhh
Confidence            8888889999999999988877543 677888888888999999999888887653

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.77  E-value=6.6e-17  Score=131.03  Aligned_cols=199  Identities=10%  Similarity=-0.018  Sum_probs=128.1

Q ss_pred             CCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHH
Q 012804            4 KLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSL   83 (456)
Q Consensus         4 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   83 (456)
                      |+++..+..+...+.+.|++++|+..|+++++..+. +...+..+..++.+.|++++|+..|++..+.. +.+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            677788888888888899999999999988887653 77788888888888899999988888888764 3356677777


Q ss_pred             HHHHHcC-----------CChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHH
Q 012804           84 IAGATRN-----------SLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNI  152 (456)
Q Consensus        84 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  152 (456)
                      ..++...           |++++|++.+++..+..+. +...+..+..++...|++++|+..|++..+.+  .+...+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPR-YAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            7777777           6666666666666664322 45556666666666666666666666666554  45556666


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 012804          153 MLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKEL  208 (456)
Q Consensus       153 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  208 (456)
                      +..++...|++++|+..|++..+.. +.+...+..+..++...|++++|...+++.
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            6666666666666666666665542 234555555666666666666666655543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.77  E-value=2.6e-16  Score=131.69  Aligned_cols=228  Identities=14%  Similarity=0.078  Sum_probs=152.7

Q ss_pred             CchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCC--CC----Hh
Q 012804            5 LSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGIS--PD----VV   78 (456)
Q Consensus         5 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~   78 (456)
                      ..+..|..+...+...|++++|+..|+++.+..  .+...+..+..++...|++++|.+.++.+.+....  ++    ..
T Consensus         3 ~~a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~   80 (258)
T 3uq3_A            3 SMADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISK   80 (258)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHH
Confidence            456778888888888888888888888888876  57778888888888888888888888887764211  11    46


Q ss_pred             HHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHH
Q 012804           79 TYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLC  158 (456)
Q Consensus        79 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  158 (456)
                      ++..+...+...|++++|.+.+++..+..  |+.       ..+...|++++|...++.+.... +.+...+..+...+.
T Consensus        81 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~  150 (258)
T 3uq3_A           81 SFARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYF  150 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHH
Confidence            67777777778888888888887777743  332       23555566777777777766654 344556666666666


Q ss_pred             hcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHH
Q 012804          159 KNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLE  238 (456)
Q Consensus       159 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  238 (456)
                      ..|++++|...++++.+.. +.+...+..+..++...|++++|...++....... .+...+..+..++...|++++|..
T Consensus       151 ~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~  228 (258)
T 3uq3_A          151 TKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDP-NFVRAYIRKATAQIAVKEYASALE  228 (258)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCH-HHHHHHHHHHHHHHHHhhHHHHHH
Confidence            7777777777776666542 23455666666666666666666666666655322 244555555566666666666666


Q ss_pred             HHHHHHHc
Q 012804          239 ILSAMKRK  246 (456)
Q Consensus       239 ~~~~~~~~  246 (456)
                      .++.+.+.
T Consensus       229 ~~~~a~~~  236 (258)
T 3uq3_A          229 TLDAARTK  236 (258)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            66555543

>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=99.76  E-value=1.4e-13  Score=128.52  Aligned_cols=425  Identities=10%  Similarity=0.011  Sum_probs=296.4

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCC---hhHHHHHHHHHHhCC-CCCCHh
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVS---FDAGYTILNRMREAG-ISPDVV   78 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~-~~~~~~   78 (456)
                      .|-|...|..+++.+.+.++++.+..+|++++..- +.+...|...+..-.+.++   ++.+.++|++..... .+|++.
T Consensus        62 np~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~f-P~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~  140 (679)
T 4e6h_A           62 QPTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRF-PLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLS  140 (679)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHH
T ss_pred             CcCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHH
Confidence            46789999999999999999999999999999885 4577889999999888898   999999999998763 137888


Q ss_pred             HHHHHHHHHHcCCCh--------hHHHHHHHHHHHC-CC-CCC-HHhHHHHHHHHHh---------cCChhHHHHHHHHH
Q 012804           79 TYNSLIAGATRNSLL--------SCSLDLLDEMLEM-GI-PPD-VWSYNSLMHCLFQ---------LGKPDEANRVFQDM  138 (456)
Q Consensus        79 ~~~~l~~~~~~~~~~--------~~a~~~~~~~~~~-~~-~~~-~~~~~~l~~~~~~---------~~~~~~a~~~~~~~  138 (456)
                      .|...+....+.++.        +...++|+..... |. .++ ...|...+.....         .++++.+..+|+++
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            888888776665543        3344777776543 55 443 5677777765442         34577899999999


Q ss_pred             HhCCCCCChhHHHHHHHHHHh-------------cCChHHHHHHHHHHHhC--CC----C-----------C-----c--
Q 012804          139 ICGDLTPCTATFNIMLNGLCK-------------NRYTDNALRMFRGLQKH--GF----V-----------P-----E--  181 (456)
Q Consensus       139 ~~~~~~~~~~~~~~l~~~~~~-------------~~~~~~a~~~~~~~~~~--~~----~-----------~-----~--  181 (456)
                      +......-..+|......-..             ..+++.|...+.++...  ++    +           |     +  
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            854222223344322221111             11233444455443211  11    1           1     0  


Q ss_pred             -HHHHHHHHHHHHHcC-------CHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHH-HHHHHHHHcCCCcCh
Q 012804          182 -LVTYNILIKGLCKAG-------RLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGL-EILSAMKRKGYTFDG  252 (456)
Q Consensus       182 -~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~  252 (456)
                       ...|...+..--..+       ..+.+..+|+++.... +-....|...+..+...|+.+.|. .++++..... |.+.
T Consensus       301 ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~-P~s~  378 (679)
T 4e6h_A          301 QLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCI-PNSA  378 (679)
T ss_dssp             HHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC-CCCH
Confidence             133444443322222       1344567788877653 337888888888888899999996 9999998764 5566


Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHCCC---------cc------------CHHHHHHHHHHHHhcCCHHHHHHHHH
Q 012804          253 FGYCTVIAAFVKIGRLKEATDYMEQMVTDGV---------QL------------DIVSYNTLINLYCKEGKLEAAYLLLD  311 (456)
Q Consensus       253 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---------~~------------~~~~~~~l~~~~~~~~~~~~a~~~~~  311 (456)
                      ..+...+......|+++.|..+|+.++....         .|            ...+|...+....+.|+.+.|..+|.
T Consensus       379 ~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~  458 (679)
T 4e6h_A          379 VLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFG  458 (679)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            6677788888899999999999999886410         12            23467777888888999999999999


Q ss_pred             HHHHcCCCcCHHhHHHHHHHHHhc-CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCC---
Q 012804          312 EMEKQGFECDKYTHTILIDGLCKA-GNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKD---  387 (456)
Q Consensus       312 ~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---  387 (456)
                      ...+....+....|...+..-.+. ++.+.|..+|+..++. ++.+...+..++......|+.+.|..+|+++....   
T Consensus       459 ~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~  537 (679)
T 4e6h_A          459 KCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDS  537 (679)
T ss_dssp             HHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSST
T ss_pred             HHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCH
Confidence            998751122344554444433444 4589999999999886 56677888888998889999999999999988763   


Q ss_pred             ---hhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 012804          388 ---SFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGL  433 (456)
Q Consensus       388 ---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  433 (456)
                         ...|...+..-.+.|+.+.+.++.+++.+.-+.  ......+..-|
T Consensus       538 ~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~--~~~~~~f~~ry  584 (679)
T 4e6h_A          538 HLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPE--VNKLEEFTNKY  584 (679)
T ss_dssp             THHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTT--CCHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--CcHHHHHHHHh
Confidence               357888888888899999999999999988443  33333444433

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.75  E-value=7.9e-16  Score=129.89  Aligned_cols=244  Identities=11%  Similarity=0.025  Sum_probs=160.1

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChh----hHHHHH
Q 012804          184 TYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGF----GYCTVI  259 (456)
Q Consensus       184 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~  259 (456)
                      .+......+...|++++|...++++.+..+. +...+..+..++...|++++|...++++.+.  +++..    .+..+.
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~lg   81 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAKKYN-SPYIYNRRAVCYYELAKYDLAQKDIETYFSK--VNATKAKSADFEYYG   81 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCC-CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTT--SCTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--cCchhHHHHHHHHHH
Confidence            3445566777778888888888877765432 4456667777777788888888888777763  22322    366777


Q ss_pred             HHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHH
Q 012804          260 AAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIK  339 (456)
Q Consensus       260 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  339 (456)
                      .++...|++++|...+++..+..+. +..++..+...|...|++++|...+++..+.. +.+...+..+...+...++++
T Consensus        82 ~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~  159 (272)
T 3u4t_A           82 KILMKKGQDSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYV  159 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHH
Confidence            7777778888888888777775333 55677777777777888888887777776652 224556666663344455777


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC---HHHHHHHHHHhccC-----C------hhhHHHHHHHHHccCChh
Q 012804          340 GARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGK---IDHAINVFESMEVK-----D------SFTYSSMVHNLCKAKRLP  405 (456)
Q Consensus       340 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~-----~------~~~~~~l~~~~~~~~~~~  405 (456)
                      +|...++++.+.. +.+...+..+..++...|+   +++|...++++...     +      ..+|..++..|...|+++
T Consensus       160 ~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  238 (272)
T 3u4t_A          160 KADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKV  238 (272)
T ss_dssp             HHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHH
Confidence            7887777777653 4446666667777776666   66677777665543     1      145666777777777777


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHH
Q 012804          406 SASKLLLSCLKSGVRILKSAQKAVVDGLR  434 (456)
Q Consensus       406 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  434 (456)
                      +|.+.++++++..+. ++..+..+.....
T Consensus       239 ~A~~~~~~al~~~p~-~~~a~~~l~~~~~  266 (272)
T 3u4t_A          239 KADAAWKNILALDPT-NKKAIDGLKMKLE  266 (272)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHC----
T ss_pred             HHHHHHHHHHhcCcc-HHHHHHHhhhhhc
Confidence            777777777766432 5555555544443

>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=99.75  E-value=7.4e-16  Score=134.93  Aligned_cols=252  Identities=11%  Similarity=0.080  Sum_probs=186.7

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCC-hhHHHHHHHHHHhCCCCCCHhHHH
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVS-FDAGYTILNRMREAGISPDVVTYN   81 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~   81 (456)
                      .|-++.+|..+...+...|++++|+..++++++..+. +..+|+.+..++...|+ +++|+..|+++.+.. +-+...|.
T Consensus        93 ~p~~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~-~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~  170 (382)
T 2h6f_A           93 SDKFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWH  170 (382)
T ss_dssp             CHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             ChhhHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHH
Confidence            3445677888888888889999999999998887754 77788888888888886 999999998888764 33677888


Q ss_pred             HHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHh-c
Q 012804           82 SLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCK-N  160 (456)
Q Consensus        82 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~  160 (456)
                      .+..++...|++++|+..|+++++.... +...|..+..++...|++++|+..|++++..+ +.+...|+.+..++.. .
T Consensus       171 ~~g~~~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~  248 (382)
T 2h6f_A          171 HRRVLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTT  248 (382)
T ss_dssp             HHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhc
Confidence            8888888888899999988888887544 77888888888888888888888888888776 5677888888888888 5


Q ss_pred             CChHHH-----HHHHHHHHhCCCCCcHHHHHHHHHHHHHcC--CHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcC--
Q 012804          161 RYTDNA-----LRMFRGLQKHGFVPELVTYNILIKGLCKAG--RLRTARWILKELGDSGHAPNAITYTTIMKCCFRNR--  231 (456)
Q Consensus       161 ~~~~~a-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--  231 (456)
                      |..++|     +..+++..... +-+...|..+..++...|  ++++|.+.+..+ .. .+.+...+..+..++...+  
T Consensus       249 ~~~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~  325 (382)
T 2h6f_A          249 GYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLEN  325 (382)
T ss_dssp             CSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHT
T ss_pred             CcchHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhcc
Confidence            555666     47777776652 335667777777777766  577777777776 32 2335666777777776653  


Q ss_pred             -------chhHHHHHHHHH-HHcCCCcChhhHHHHHHHH
Q 012804          232 -------KYKLGLEILSAM-KRKGYTFDGFGYCTVIAAF  262 (456)
Q Consensus       232 -------~~~~a~~~~~~~-~~~~~~~~~~~~~~l~~~~  262 (456)
                             ..++|..+++++ .+.+ +.....|..+...+
T Consensus       326 ~~~~~~~~~~~A~~~~~~l~~~~D-P~r~~~w~~~~~~l  363 (382)
T 2h6f_A          326 QCDNKEDILNKALELCEILAKEKD-TIRKEYWRYIGRSL  363 (382)
T ss_dssp             TCSSHHHHHHHHHHHHHHHHHTTC-GGGHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHHHHHHHHhC-chhHHHHHHHHHHH
Confidence                   247777777777 5443 33444454444433

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.75  E-value=1.6e-18  Score=162.02  Aligned_cols=149  Identities=13%  Similarity=0.137  Sum_probs=121.0

Q ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHh---cCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHH
Q 012804            8 RLLNICVCTFCKANRLEKAEAIIIDGIR---LGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLI   84 (456)
Q Consensus         8 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   84 (456)
                      .+||++|++|++.|++++|.++|++|.+   .|+.||+.+||.||.+|++.|++++|.++|++|.+.|+.||..||+++|
T Consensus       128 ~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI  207 (1134)
T 3spa_A          128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL  207 (1134)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            5799999999999999999999988763   5789999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCCh-hHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC------hhHHHHHHHHH
Q 012804           85 AGATRNSLL-SCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPC------TATFNIMLNGL  157 (456)
Q Consensus        85 ~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~  157 (456)
                      .++++.|+. ++|.++|++|.+.|+.||..+|+.++....+.    .+++..+++ .-+..|+      ..+...|.+.|
T Consensus       208 ~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~dl~  282 (1134)
T 3spa_A          208 QCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRDVY  282 (1134)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHHHH
T ss_pred             HHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHHHHH
Confidence            999999985 78899999999999999999999888655543    344444444 2233332      33444455555


Q ss_pred             HhcC
Q 012804          158 CKNR  161 (456)
Q Consensus       158 ~~~~  161 (456)
                      .+.+
T Consensus       283 s~d~  286 (1134)
T 3spa_A          283 AKDG  286 (1134)
T ss_dssp             CCCS
T ss_pred             ccCC
Confidence            5544

>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=99.75  E-value=8.4e-15  Score=123.58  Aligned_cols=223  Identities=9%  Similarity=-0.016  Sum_probs=169.0

Q ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHh----cCchhHHHHHHHHHHHcCCCcChhhHH
Q 012804          181 ELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFR----NRKYKLGLEILSAMKRKGYTFDGFGYC  256 (456)
Q Consensus       181 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  256 (456)
                      +..++..+...+...|++++|...|++..+.   .+...+..+...+..    .+++++|...+++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            5666777778888888888888888887772   345667777777777    888888888888887765   566777


Q ss_pred             HHHHHHHH----cCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCcCHHhHHHH
Q 012804          257 TVIAAFVK----IGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCK----EGKLEAAYLLLDEMEKQGFECDKYTHTIL  328 (456)
Q Consensus       257 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  328 (456)
                      .+...+..    .+++++|...+++..+.+   +...+..+...|..    .+++++|...+++..+.+   +...+..+
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            77777777    888888888888887763   56677777778877    788888888888887754   45566677


Q ss_pred             HHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----CCCHHHHHHHHHHhccC-ChhhHHHHHHHHH
Q 012804          329 IDGLCK----AGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGK----DGKIDHAINVFESMEVK-DSFTYSSMVHNLC  399 (456)
Q Consensus       329 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~-~~~~~~~l~~~~~  399 (456)
                      ...+..    .+++++|...+++..+.+   +...+..+..+|..    .+++++|.+.|+++... ++..+..+...|.
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~l~~~~~  229 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELENGGGCFNLGAMQY  229 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            777776    778888888888877754   45667777777777    78888888888877666 5667777777777


Q ss_pred             c----cCChhHHHHHHHHHHHcC
Q 012804          400 K----AKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       400 ~----~~~~~~A~~~~~~~~~~~  418 (456)
                      .    .+++++|.+.++++.+.+
T Consensus       230 ~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          230 NGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             TTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             cCCCcccCHHHHHHHHHHHHHcC
Confidence            7    778888888888887765

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.75  E-value=9.2e-16  Score=129.47  Aligned_cols=237  Identities=10%  Similarity=-0.030  Sum_probs=149.8

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCC--HhHHHHH
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPD--VVTYNSL   83 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l   83 (456)
                      |+..+......+...|++++|+..|+++++..+. +...+..+..++...|++++|++.++.+.+.+..++  ..+|..+
T Consensus         2 n~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~l   80 (272)
T 3u4t_A            2 NDDVEFRYADFLFKNNNYAEAIEVFNKLEAKKYN-SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYY   80 (272)
T ss_dssp             ---CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCC-CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHH
Confidence            3445666777788888888888888888877643 555777788888888888888888888877421111  2336777


Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCh
Q 012804           84 IAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYT  163 (456)
Q Consensus        84 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  163 (456)
                      ...+...|++++|.+.+++..+.... +..++..+..+|...|++++|.+.|++..... +.+...+..+...+...+++
T Consensus        81 g~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~  158 (272)
T 3u4t_A           81 GKILMKKGQDSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEY  158 (272)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHH
Confidence            77788888888888888887775433 55677777777777888888888777777653 44556666666333344577


Q ss_pred             HHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCC---HHHHHHHHHHHhhCC-CCCC------HHHHHHHHHHHHhcCch
Q 012804          164 DNALRMFRGLQKHGFVPELVTYNILIKGLCKAGR---LRTARWILKELGDSG-HAPN------AITYTTIMKCCFRNRKY  233 (456)
Q Consensus       164 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~-~~~~------~~~~~~l~~~~~~~~~~  233 (456)
                      ++|...++++.+.. +.+...+..+..++...|+   +++|...++++.+.. ..|+      ..++..+...+...|++
T Consensus       159 ~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  237 (272)
T 3u4t_A          159 VKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDK  237 (272)
T ss_dssp             HHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCH
Confidence            77777777776652 2245555556666666565   555555555544321 0111      13344455555555555


Q ss_pred             hHHHHHHHHHHHc
Q 012804          234 KLGLEILSAMKRK  246 (456)
Q Consensus       234 ~~a~~~~~~~~~~  246 (456)
                      ++|...++++.+.
T Consensus       238 ~~A~~~~~~al~~  250 (272)
T 3u4t_A          238 VKADAAWKNILAL  250 (272)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc
Confidence            5555555555554

>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=99.74  E-value=1.8e-14  Score=121.59  Aligned_cols=226  Identities=10%  Similarity=-0.067  Sum_probs=178.9

Q ss_pred             CCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHc----cCChhHHHHHHHHHHhCCCCCCHhH
Q 012804            4 KLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQ----FVSFDAGYTILNRMREAGISPDVVT   79 (456)
Q Consensus         4 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~   79 (456)
                      |.++.++..+...+...|++++|+..|+++.+.   .+..++..+...+..    .+++++|...|++..+.+   +...
T Consensus         3 ~~~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a   76 (273)
T 1ouv_A            3 EQDPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNG   76 (273)
T ss_dssp             --CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHH
Confidence            557788888888899999999999999998873   355677888888888    889999999999888864   6777


Q ss_pred             HHHHHHHHHc----CCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCChhHHH
Q 012804           80 YNSLIAGATR----NSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQ----LGKPDEANRVFQDMICGDLTPCTATFN  151 (456)
Q Consensus        80 ~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  151 (456)
                      +..+...+..    .+++++|++.|++..+.+   +...+..+...|..    .+++++|.+.|++..+.+   +...+.
T Consensus        77 ~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~  150 (273)
T 1ouv_A           77 CHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCT  150 (273)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHH
Confidence            8888888888    889999999998888864   67778888888888    888888988888888765   456677


Q ss_pred             HHHHHHHh----cCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHH----cCCHHHHHHHHHHHhhCCCCCCHHHHHHH
Q 012804          152 IMLNGLCK----NRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCK----AGRLRTARWILKELGDSGHAPNAITYTTI  223 (456)
Q Consensus       152 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  223 (456)
                      .+...+..    .+++++|+..+++..+.+   +...+..+...|..    .+++++|...+++..+.+   +...+..+
T Consensus       151 ~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  224 (273)
T 1ouv_A          151 ILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNL  224 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHH
Confidence            77777777    788888888888887763   45667777778888    888888888888877753   25566667


Q ss_pred             HHHHHh----cCchhHHHHHHHHHHHcC
Q 012804          224 MKCCFR----NRKYKLGLEILSAMKRKG  247 (456)
Q Consensus       224 ~~~~~~----~~~~~~a~~~~~~~~~~~  247 (456)
                      ..++..    .+++++|...+++..+.+
T Consensus       225 ~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          225 GAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            777777    778888888888777665

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.74  E-value=3.3e-18  Score=160.02  Aligned_cols=150  Identities=15%  Similarity=0.179  Sum_probs=119.0

Q ss_pred             HHhHHHHHHHHHccCChhHHHHHHHHHHh---CCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHH
Q 012804           42 VVTYNMLIDAYCQFVSFDAGYTILNRMRE---AGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSL  118 (456)
Q Consensus        42 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  118 (456)
                      ..+|+++|.+|++.|+.++|.++|+.|.+   .|+.||+.|||+||.+|++.|++++|.++|++|.+.|+.||..||+++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            34799999999999999999999988764   478899999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCh-hHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCc------HHHHHHHHHH
Q 012804          119 MHCLFQLGKP-DEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPE------LVTYNILIKG  191 (456)
Q Consensus       119 ~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~  191 (456)
                      |.++++.|+. ++|.++|++|.+.|+.||..+|+.++....+.    .+++..+++ ..++.|+      ..+...|.+.
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~dl  281 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRDV  281 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHHHH
Confidence            9999999985 78899999999999999999999888655443    344444444 2234333      3333445555


Q ss_pred             HHHcC
Q 012804          192 LCKAG  196 (456)
Q Consensus       192 ~~~~~  196 (456)
                      |.+.+
T Consensus       282 ~s~d~  286 (1134)
T 3spa_A          282 YAKDG  286 (1134)
T ss_dssp             HCCCS
T ss_pred             HccCC
Confidence            55444

>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=99.72  E-value=2.7e-15  Score=131.37  Aligned_cols=228  Identities=9%  Similarity=0.006  Sum_probs=135.3

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCC-hHHHHHHHHHHHHCCCccCHHHHHHHHHHH
Q 012804          219 TYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGR-LKEATDYMEQMVTDGVQLDIVSYNTLINLY  297 (456)
Q Consensus       219 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  297 (456)
                      .+..+..++...|++++|+..++++++.. +.+...|..+..++...|+ +++|+..+++++..++. +...|..+..++
T Consensus        99 a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g~~~  176 (382)
T 2h6f_A           99 VYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLV  176 (382)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHH
Confidence            34445555556666666666666666554 4455556666666666664 66666666666665433 556666666666


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-CCCHHHH
Q 012804          298 CKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGK-DGKIDHA  376 (456)
Q Consensus       298 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~a  376 (456)
                      ...|++++|+..++++.+.... +...|..+..++...|++++|+..++++++.. +.+...|..+..++.+ .|..++|
T Consensus       177 ~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~eA  254 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRA  254 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHH
T ss_pred             HHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcchHH
Confidence            6666666666666666655322 55566666666666666666666666666653 4455666666666666 4443555


Q ss_pred             -----HHHHHHhccC---ChhhHHHHHHHHHccC--ChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccC--------C
Q 012804          377 -----INVFESMEVK---DSFTYSSMVHNLCKAK--RLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSG--------C  438 (456)
Q Consensus       377 -----~~~~~~~~~~---~~~~~~~l~~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--------~  438 (456)
                           ++.++++...   +...|..+..++...|  ++++|++.++++ +.. +.+...+..++.+|.+.|        +
T Consensus       255 ~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~~~~~~~~  332 (382)
T 2h6f_A          255 VLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLENQCDNKED  332 (382)
T ss_dssp             HHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhcccccchHH
Confidence                 3555555443   4556666666666655  466666666665 332 235566666666666653        2


Q ss_pred             -hHHHHHHHHHH-Hhc
Q 012804          439 -RREAKKIQSKI-RMA  452 (456)
Q Consensus       439 -~~~A~~~~~~~-~~~  452 (456)
                       .++|.++++++ .+.
T Consensus       333 ~~~~A~~~~~~l~~~~  348 (382)
T 2h6f_A          333 ILNKALELCEILAKEK  348 (382)
T ss_dssp             HHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHh
Confidence             46677777666 443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.72  E-value=1.3e-14  Score=118.50  Aligned_cols=205  Identities=11%  Similarity=0.019  Sum_probs=149.1

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHH
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNS   82 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   82 (456)
                      +|.++..+..+...+...|++++|.+.++.+.+..+ .+...+..+..++...|++++|.+.++++.+.. +.+..++..
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~   81 (225)
T 2vq2_A            4 ANQVSNIKTQLAMEYMRGQDYRQATASIEDALKSDP-KNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNN   81 (225)
T ss_dssp             CCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHH
Confidence            455677888888888888888888888888887764 367778888888888888888888888887753 335667777


Q ss_pred             HHHHHHcC-CChhHHHHHHHHHHHCCCCC-CHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhc
Q 012804           83 LIAGATRN-SLLSCSLDLLDEMLEMGIPP-DVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKN  160 (456)
Q Consensus        83 l~~~~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  160 (456)
                      +...+... |++++|.+.++++.+.+..| +...+..+..++...|++++|...++++.+.. +.+...+..+...+...
T Consensus        82 l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~  160 (225)
T 2vq2_A           82 YGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLA  160 (225)
T ss_dssp             HHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHc
Confidence            77888888 88888888888877732222 35667777777788888888888887777654 44566777777777777


Q ss_pred             CChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 012804          161 RYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGD  210 (456)
Q Consensus       161 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  210 (456)
                      |++++|...++++.+.....+...+..+...+...|+.+.+..+++.+..
T Consensus       161 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          161 GQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             TCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            77777777777776652213555666666666777777777777776654

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.72  E-value=1.5e-15  Score=128.39  Aligned_cols=241  Identities=9%  Similarity=-0.121  Sum_probs=146.8

Q ss_pred             CCHHHHHHHHHHHhhCCCC---CCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHH
Q 012804          196 GRLRTARWILKELGDSGHA---PNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEAT  272 (456)
Q Consensus       196 ~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  272 (456)
                      |++++|...++++.+....   .+..++..+..++...|++++|...++++.+.. +.+...+..+..++...|++++|.
T Consensus        19 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~   97 (275)
T 1xnf_A           19 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAY   97 (275)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             chHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHH
Confidence            4555555555555543211   123445555566666666666666666666554 445556666666666677777777


Q ss_pred             HHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 012804          273 DYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIG  352 (456)
Q Consensus       273 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  352 (456)
                      ..++++.+..+. +...+..+...|...|++++|...++++.+..  |+.......+..+...|++++|...++......
T Consensus        98 ~~~~~al~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~  174 (275)
T 1xnf_A           98 EAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  174 (275)
T ss_dssp             HHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHhcCcc-ccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            777666664322 45666677777777777777777777776642  333333333334455677777777776666542


Q ss_pred             CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCC-------hhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHh
Q 012804          353 FDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKD-------SFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSA  425 (456)
Q Consensus       353 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  425 (456)
                       +++...+ .++..+...++.++|.+.+.++...+       ...+..++..+...|++++|...++++++..  |+.  
T Consensus       175 -~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~--  248 (275)
T 1xnf_A          175 -DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--VHN--  248 (275)
T ss_dssp             -CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CTT--
T ss_pred             -CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--chh--
Confidence             3333333 35566667777777777777766651       4677778888888888888888888887653  321  


Q ss_pred             HHHHHHHHHccCChHHHHHHH
Q 012804          426 QKAVVDGLRHSGCRREAKKIQ  446 (456)
Q Consensus       426 ~~~l~~~~~~~g~~~~A~~~~  446 (456)
                      +.....++...|++++|.+.+
T Consensus       249 ~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          249 FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             CHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHHHhhHHHH
Confidence            223355667778888877765

>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=99.71  E-value=6.8e-15  Score=122.57  Aligned_cols=202  Identities=12%  Similarity=-0.016  Sum_probs=137.7

Q ss_pred             HHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHH
Q 012804           42 VVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHC  121 (456)
Q Consensus        42 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  121 (456)
                      ...+..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|.+.++++.+... .+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDS-RNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHH
Confidence            4556666777777777777777777776653 33566667777777777777777777777766542 256666777777


Q ss_pred             HHhcCChhHHHHHHHHHHhCCC-CCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHH
Q 012804          122 LFQLGKPDEANRVFQDMICGDL-TPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRT  200 (456)
Q Consensus       122 ~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  200 (456)
                      +...|++++|.+.++++...+. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHH
Confidence            7777777777777777766222 2345566667777777777777777777776652 3356667777777777777777


Q ss_pred             HHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcC
Q 012804          201 ARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKG  247 (456)
Q Consensus       201 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  247 (456)
                      |...++.+..... .+...+..+...+...|++++|...++.+.+..
T Consensus       194 A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          194 ARQYYDLFAQGGG-QNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHHTTSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhCc-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            7777777766433 355666667777777777777777777777663

>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=99.71  E-value=8.2e-15  Score=122.07  Aligned_cols=198  Identities=10%  Similarity=-0.037  Sum_probs=125.4

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHH
Q 012804          217 AITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINL  296 (456)
Q Consensus       217 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  296 (456)
                      ...+..+...+...|++++|...++++.+.. +.+...+..+..++...|++++|...++++.+... .+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDS-RNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHH
Confidence            4455666666677777777777777766654 44556666666667777777777777776666532 255666666666


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCc-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHH
Q 012804          297 YCKEGKLEAAYLLLDEMEKQGFEC-DKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDH  375 (456)
Q Consensus       297 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  375 (456)
                      |...|++++|...++++...+..| +...+..+...+...|++++|...++++.+.. +.+...+..++..+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHH
Confidence            777777777777777666522223 34455666666666777777777777666553 3445666666666666666666


Q ss_pred             HHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          376 AINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       376 a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      |...++++...   +...+..++..+...|++++|.+.++++.+.
T Consensus       194 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          194 ARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            66666665543   4455566666666666666666666666655

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.71  E-value=1.9e-15  Score=127.76  Aligned_cols=245  Identities=10%  Similarity=-0.064  Sum_probs=122.3

Q ss_pred             CChHHHHHHHHHHHhCCC---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHH
Q 012804          161 RYTDNALRMFRGLQKHGF---VPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGL  237 (456)
Q Consensus       161 ~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  237 (456)
                      |++++|+..++++.+...   +.+...+..+...+...|++++|...|+++....+ .+..++..+..++...|++++|.
T Consensus        19 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~   97 (275)
T 1xnf_A           19 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFDAAY   97 (275)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             chHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHccCHHHHH
Confidence            344445555544444311   01233444444555555555555555555444322 13444555555555555555555


Q ss_pred             HHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 012804          238 EILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQG  317 (456)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  317 (456)
                      ..++++.+.. +.+...+..+..++...|++++|...++++.+..  |+.......+..+...|++++|...++......
T Consensus        98 ~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~  174 (275)
T 1xnf_A           98 EAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  174 (275)
T ss_dssp             HHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            5555555543 3344555555555556666666666666555532  222222222333344566666666665555432


Q ss_pred             CCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC---CCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCChhhHHHH
Q 012804          318 FECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFD---SNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSM  394 (456)
Q Consensus       318 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l  394 (456)
                       +++... ..++..+...++.++|...++.+......   .+...+..++.++.+.|++++|...|+++...++..+...
T Consensus       175 -~~~~~~-~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  252 (275)
T 1xnf_A          175 -DKEQWG-WNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEH  252 (275)
T ss_dssp             -CCCSTH-HHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHH
T ss_pred             -CcchHH-HHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHHHH
Confidence             122222 23444455555566666666665443100   0135566666666677777777777776666655445555


Q ss_pred             HHHHHccCChhHHHHHH
Q 012804          395 VHNLCKAKRLPSASKLL  411 (456)
Q Consensus       395 ~~~~~~~~~~~~A~~~~  411 (456)
                      ..++...|++++|++.+
T Consensus       253 ~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          253 RYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHhhHHHH
Confidence            55666666666666554

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.71  E-value=1.4e-15  Score=125.98  Aligned_cols=200  Identities=14%  Similarity=0.070  Sum_probs=89.0

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIA   85 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   85 (456)
                      ++..|..+...+...|++++|...|+++.+..+ .+...+..+...+...|++++|...++++.+.. +.+...+..+..
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   99 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENK-EDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGN   99 (243)
T ss_dssp             --------------------CCTTHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHH
Confidence            344455555555555555555555555555432 244455555555555555555555555555442 223444555555


Q ss_pred             HHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHH
Q 012804           86 GATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDN  165 (456)
Q Consensus        86 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  165 (456)
                      .+...|++++|.+.++++.+... .+...+..+...+...|++++|.+.++++.... +.+...+..+...+...|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAGM-ENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHTC-CSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHH
Confidence            55555555555555555554432 234444555555555555555555555554433 3334444444555555555555


Q ss_pred             HHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 012804          166 ALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGD  210 (456)
Q Consensus       166 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  210 (456)
                      |...++++.+.. +.+..++..+..++...|++++|...++++.+
T Consensus       178 A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  221 (243)
T 2q7f_A          178 ALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAID  221 (243)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHc
Confidence            555555544431 22334444444444444444444444444443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.70  E-value=1.1e-14  Score=118.92  Aligned_cols=196  Identities=8%  Similarity=-0.065  Sum_probs=87.9

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHh
Q 012804          255 YCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCK  334 (456)
Q Consensus       255 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  334 (456)
                      +..+...+...|++++|...++.+.+... .+...+..+...+...|++++|...++++.+.. +.+..++..+...+..
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~   88 (225)
T 2vq2_A           11 KTQLAMEYMRGQDYRQATASIEDALKSDP-KNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCG   88 (225)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHH
Confidence            33344444444444444444444443321 133344444444444444444444444444332 1133344444444444


Q ss_pred             c-CCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHH
Q 012804          335 A-GNIKGARLHLEYMNKIGFDS-NLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASK  409 (456)
Q Consensus       335 ~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~  409 (456)
                      . |++++|...++.+.+.+..| +...+..++.++...|++++|.+.++++...   +...+..++.++...|++++|.+
T Consensus        89 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  168 (225)
T 2vq2_A           89 RLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLGDADY  168 (225)
T ss_dssp             TTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             hcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHH
Confidence            4 44444444444444411111 1334444444444555555555555444332   33444445555555555555555


Q ss_pred             HHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhc
Q 012804          410 LLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMA  452 (456)
Q Consensus       410 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  452 (456)
                      .++++++..+..+...+..+...+...|+.++|..+++.+.+.
T Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          169 YFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            5555544432124444444444455555555555555555443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.70  E-value=2.2e-15  Score=124.82  Aligned_cols=208  Identities=14%  Similarity=0.101  Sum_probs=125.2

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHH
Q 012804          217 AITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINL  296 (456)
Q Consensus       217 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  296 (456)
                      ...+..+...+...|++++|...++++.+.. +.+...+..+..++...|++++|...++++.+... .+...+..+...
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~  100 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDS-SAATAYYGAGNV  100 (243)
T ss_dssp             -------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-cchHHHHHHHHH
Confidence            3445555556666666666666666666543 44555666666666677777777777776666532 255666667777


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHH
Q 012804          297 YCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHA  376 (456)
Q Consensus       297 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  376 (456)
                      +...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..++..+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHH
Confidence            777777777777777776653 2255666667777777777777777777766653 44566677777777777777777


Q ss_pred             HHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHH
Q 012804          377 INVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAV  429 (456)
Q Consensus       377 ~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l  429 (456)
                      .+.++++...   +..++..++.++...|++++|.+.++++++..+. +...+..+
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~  233 (243)
T 2q7f_A          179 LSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPD-HMLALHAK  233 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcc-hHHHHHHH
Confidence            7777766544   5566777777777788888888888877766433 44444433

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.68  E-value=4.6e-15  Score=132.99  Aligned_cols=298  Identities=12%  Similarity=0.007  Sum_probs=148.8

Q ss_pred             CHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCC----HHhHHHHHHHHHhcCChhHHHHHHHHHHhC----CC-CCC
Q 012804           76 DVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPD----VWSYNSLMHCLFQLGKPDEANRVFQDMICG----DL-TPC  146 (456)
Q Consensus        76 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~  146 (456)
                      ....+......+...|++++|...++++.+.+.. +    ..++..+...+...|++++|...+++....    +. +..
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~   86 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGE   86 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHH
Confidence            3344445555566666666666666666554321 2    234555555566666666666666554321    10 111


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012804          147 TATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKC  226 (456)
Q Consensus       147 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  226 (456)
                      ..++..+...+...|++++|...+++..+..  |..                            ........++..+...
T Consensus        87 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--~~~----------------------------~~~~~~~~~~~~l~~~  136 (406)
T 3sf4_A           87 AKASGNLGNTLKVLGNFDEAIVCCQRHLDIS--REL----------------------------NDKVGEARALYNLGNV  136 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHH----------------------------TCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH--Hhc----------------------------ccccchHHHHHHHHHH
Confidence            2334444455555555555555555443320  000                            0000012233344444


Q ss_pred             HHhcCc--------------------hhHHHHHHHHHHHc----C-CCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 012804          227 CFRNRK--------------------YKLGLEILSAMKRK----G-YTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTD  281 (456)
Q Consensus       227 ~~~~~~--------------------~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  281 (456)
                      +...|+                    +++|...+.+..+.    + .+....++..+...+...|++++|...+++..+.
T Consensus       137 ~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  216 (406)
T 3sf4_A          137 YHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLI  216 (406)
T ss_dssp             HHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHH
T ss_pred             HHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            444444                    45555444444322    1 0111234555556666666666666666665542


Q ss_pred             C-----CccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC----Cc-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 012804          282 G-----VQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGF----EC-DKYTHTILIDGLCKAGNIKGARLHLEYMNKI  351 (456)
Q Consensus       282 ~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  351 (456)
                      .     ......++..+...|...|++++|...+++......    .+ ...++..+...+...|++++|...++.+...
T Consensus       217 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  296 (406)
T 3sf4_A          217 AKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  296 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHH
Confidence            1     011123556666667777777777777766553210    00 1345566666677777777777777666543


Q ss_pred             CC-CCC----HHHHHHHHHHHHhCCCHHHHHHHHHHhccC---------ChhhHHHHHHHHHccCCh
Q 012804          352 GF-DSN----LEAYNCIVDRLGKDGKIDHAINVFESMEVK---------DSFTYSSMVHNLCKAKRL  404 (456)
Q Consensus       352 ~~-~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~  404 (456)
                      .. .++    ..++..+..+|...|++++|.+.++++...         ...++..+...+...|+.
T Consensus       297 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          297 AQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHh
Confidence            10 011    345566666677777777777777665443         233455555566555554

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.68  E-value=3e-15  Score=134.49  Aligned_cols=269  Identities=13%  Similarity=0.058  Sum_probs=136.8

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcH----HHHHHHHHHHHHcCCHHHHHHHHHHHhhC----C-CCCCHH
Q 012804          148 ATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPEL----VTYNILIKGLCKAGRLRTARWILKELGDS----G-HAPNAI  218 (456)
Q Consensus       148 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~  218 (456)
                      ..+..+...+...|++++|+..|+++.+.+.. +.    ..+..+...+...|++++|...+++....    + ......
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            34445556677777777777777777665221 22    35666677777777777777777765431    1 111234


Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHHcC-----CCcChhhHHHHHHHHHHcCC-----------------hHHHHHHHH
Q 012804          219 TYTTIMKCCFRNRKYKLGLEILSAMKRKG-----YTFDGFGYCTVIAAFVKIGR-----------------LKEATDYME  276 (456)
Q Consensus       219 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~  276 (456)
                      .+..+...+...|++++|...++++.+..     .+....++..+...+...|+                 +++|...++
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~  207 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQ  207 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            45556666666667777766666655431     11123344555555556666                 555555555


Q ss_pred             HHHHC----C-CccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-cC----HHhHHHHHHHHHhcCCHHHHHHHHH
Q 012804          277 QMVTD----G-VQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFE-CD----KYTHTILIDGLCKAGNIKGARLHLE  346 (456)
Q Consensus       277 ~~~~~----~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~  346 (456)
                      +..+.    + .......+..+...|...|++++|...+++..+.... ++    ..++..+...+...|++++|...++
T Consensus       208 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  287 (411)
T 4a1s_A          208 ENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYK  287 (411)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            54432    0 1112234445555555555555555555555432100 01    1144445555555555555555555


Q ss_pred             HHHhCCC--C---CCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---------ChhhHHHHHHHHHccCChhHHHHHHH
Q 012804          347 YMNKIGF--D---SNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---------DSFTYSSMVHNLCKAKRLPSASKLLL  412 (456)
Q Consensus       347 ~~~~~~~--~---~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~A~~~~~  412 (456)
                      ++.....  .   ....++..+..++...|++++|.+.++++...         ...++..++.+|...|++++|.+.++
T Consensus       288 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  367 (411)
T 4a1s_A          288 RTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAE  367 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHH
Confidence            5443210  0   01234444444555555555555555544332         12234444445555555555555555


Q ss_pred             HHHHc
Q 012804          413 SCLKS  417 (456)
Q Consensus       413 ~~~~~  417 (456)
                      ++++.
T Consensus       368 ~al~~  372 (411)
T 4a1s_A          368 QHLQL  372 (411)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.67  E-value=9.6e-15  Score=130.92  Aligned_cols=298  Identities=11%  Similarity=0.003  Sum_probs=211.0

Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCc----HHHHHHHHHHHHHcCCHHHHHHHHHHHhhC----CCCC
Q 012804          144 TPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPE----LVTYNILIKGLCKAGRLRTARWILKELGDS----GHAP  215 (456)
Q Consensus       144 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~  215 (456)
                      ......+......+...|++++|...|+++.+.+. .+    ...+..+...+...|++++|...+++....    +..|
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            44556677788889999999999999999887632 23    356778888999999999999999886542    2111


Q ss_pred             -CHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCC-c----ChhhHHHHHHHHHHcCC--------------------hH
Q 012804          216 -NAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYT-F----DGFGYCTVIAAFVKIGR--------------------LK  269 (456)
Q Consensus       216 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~~~--------------------~~  269 (456)
                       ...++..+...+...|++++|...+++..+.... .    ...++..+...+...|+                    ++
T Consensus        85 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~  164 (406)
T 3sf4_A           85 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQ  164 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHH
Confidence             2456777788888999999999999888754211 1    13467777788888888                    88


Q ss_pred             HHHHHHHHHHHC----C-CccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CcC----HHhHHHHHHHHHhcCCHH
Q 012804          270 EATDYMEQMVTD----G-VQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGF-ECD----KYTHTILIDGLCKAGNIK  339 (456)
Q Consensus       270 ~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~  339 (456)
                      +|...+++....    + .+....++..+...|...|++++|...+++..+... .++    ..++..+...+...|+++
T Consensus       165 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  244 (406)
T 3sf4_A          165 AAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFE  244 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChH
Confidence            888888876653    1 112244677788888888999999988888765311 112    236777788888889999


Q ss_pred             HHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhCCCHHHHHHHHHHhccC---------ChhhHHHHHHHHHccCChh
Q 012804          340 GARLHLEYMNKIGF-DSN----LEAYNCIVDRLGKDGKIDHAINVFESMEVK---------DSFTYSSMVHNLCKAKRLP  405 (456)
Q Consensus       340 ~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~  405 (456)
                      +|...+++...... .++    ..++..+...+...|++++|.+.++++...         ...++..++.+|...|+++
T Consensus       245 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  324 (406)
T 3sf4_A          245 TASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHD  324 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            99888888764310 011    456777888888888888888888877654         1456777888888888888


Q ss_pred             HHHHHHHHHHHcCCCCC-----HHhHHHHHHHHHccCChHHH
Q 012804          406 SASKLLLSCLKSGVRIL-----KSAQKAVVDGLRHSGCRREA  442 (456)
Q Consensus       406 ~A~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A  442 (456)
                      +|.+.++++++......     ..++..++.++...|+...+
T Consensus       325 ~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~  366 (406)
T 3sf4_A          325 QAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSYST  366 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTSCC
T ss_pred             HHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhHHH
Confidence            88888888886643322     22444555566655555443

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.66  E-value=9.9e-15  Score=131.12  Aligned_cols=274  Identities=14%  Similarity=0.003  Sum_probs=204.0

Q ss_pred             HHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCh----hHHHHHHHHHHhcCChHHHHHHHHHHHhC----CC-CCcH
Q 012804          112 VWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCT----ATFNIMLNGLCKNRYTDNALRMFRGLQKH----GF-VPEL  182 (456)
Q Consensus       112 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~  182 (456)
                      ...+..+...+...|++++|...|+++.+.+ +.+.    ..+..+...+...|++++|+..+++..+.    +. +...
T Consensus        48 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  126 (411)
T 4a1s_A           48 CLELALEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEA  126 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHH
Confidence            4445567778889999999999999988764 3333    46788888999999999999999887653    11 2235


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhC----C-CCCCHHHHHHHHHHHHhcCc-----------------hhHHHHHH
Q 012804          183 VTYNILIKGLCKAGRLRTARWILKELGDS----G-HAPNAITYTTIMKCCFRNRK-----------------YKLGLEIL  240 (456)
Q Consensus       183 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~  240 (456)
                      ..+..+...+...|++++|...+.+....    + ......++..+...+...|+                 +++|...+
T Consensus       127 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~  206 (411)
T 4a1s_A          127 KSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFY  206 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHH
Confidence            66778888999999999999999887652    1 11234467778888889999                 89999888


Q ss_pred             HHHHHc----CC-CcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCc-cC----HHHHHHHHHHHHhcCCHHHHHHHH
Q 012804          241 SAMKRK----GY-TFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQ-LD----IVSYNTLINLYCKEGKLEAAYLLL  310 (456)
Q Consensus       241 ~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~  310 (456)
                      ++..+.    +. +.....+..+...+...|++++|...+++..+.... ++    ...+..+...|...|++++|...+
T Consensus       207 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  286 (411)
T 4a1s_A          207 QENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHY  286 (411)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            887643    11 122346777888899999999999999988764211 11    236778888999999999999999


Q ss_pred             HHHHHcCCC-c----CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHhCCCHHHHHHHH
Q 012804          311 DEMEKQGFE-C----DKYTHTILIDGLCKAGNIKGARLHLEYMNKI----GF-DSNLEAYNCIVDRLGKDGKIDHAINVF  380 (456)
Q Consensus       311 ~~~~~~~~~-~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~  380 (456)
                      ++....... .    ...++..+...+...|++++|...+++....    +. ......+..+..+|...|++++|.+.+
T Consensus       287 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  366 (411)
T 4a1s_A          287 KRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYA  366 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHH
Confidence            888753211 1    1456778888899999999999999987654    10 112457778888999999999999999


Q ss_pred             HHhccC
Q 012804          381 ESMEVK  386 (456)
Q Consensus       381 ~~~~~~  386 (456)
                      +++...
T Consensus       367 ~~al~~  372 (411)
T 4a1s_A          367 EQHLQL  372 (411)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            988776

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.66  E-value=1.7e-14  Score=125.73  Aligned_cols=271  Identities=15%  Similarity=0.053  Sum_probs=138.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCc----HHHHHHHHHHHHHcCCHHHHHHHHHHHhhC----CCC-CCHHHH
Q 012804          150 FNIMLNGLCKNRYTDNALRMFRGLQKHGFVPE----LVTYNILIKGLCKAGRLRTARWILKELGDS----GHA-PNAITY  220 (456)
Q Consensus       150 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~  220 (456)
                      +......+...|++++|...++++.+... .+    ...+..+...+...|++++|...+++....    +.. ....++
T Consensus         8 l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   86 (338)
T 3ro2_A            8 LALEGERLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKAS   86 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHH
Confidence            34445556666666666666666655421 12    244555566666666666666666554321    000 112333


Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHHcCCC-cChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHh
Q 012804          221 TTIMKCCFRNRKYKLGLEILSAMKRKGYT-FDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCK  299 (456)
Q Consensus       221 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  299 (456)
                      ..+...+...|++++|...+++..+.... .+                               ......++..+...+..
T Consensus        87 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~-------------------------------~~~~~~~~~~l~~~~~~  135 (338)
T 3ro2_A           87 GNLGNTLKVLGNFDEAIVCCQRHLDISRELND-------------------------------KVGEARALYNLGNVYHA  135 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC-------------------------------HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHHhcC-------------------------------chHHHHHHHHHHHHHHH
Confidence            44444445555555555555444332100 00                               00012234444444555


Q ss_pred             cCC--------------------HHHHHHHHHHHHHc----CCC-cCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC---
Q 012804          300 EGK--------------------LEAAYLLLDEMEKQ----GFE-CDKYTHTILIDGLCKAGNIKGARLHLEYMNKI---  351 (456)
Q Consensus       300 ~~~--------------------~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---  351 (456)
                      .|+                    +++|...+++....    +.. ....++..+...+...|++++|...++++.+.   
T Consensus       136 ~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~  215 (338)
T 3ro2_A          136 KGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKE  215 (338)
T ss_dssp             HHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             cCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence            555                    55555555443321    100 11234455555556666666666666655432   


Q ss_pred             -CC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---------ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCC
Q 012804          352 -GF-DSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---------DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVR  420 (456)
Q Consensus       352 -~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  420 (456)
                       +. ......+..+...+...|++++|...++++...         ...++..++..+...|++++|...++++++....
T Consensus       216 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  295 (338)
T 3ro2_A          216 FGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQE  295 (338)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             cCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHh
Confidence             10 001224555556666666666666666655433         1345666667777777777777777776543111


Q ss_pred             -----CCHHhHHHHHHHHHccCChHHHHHHHHHHHhc
Q 012804          421 -----ILKSAQKAVVDGLRHSGCRREAKKIQSKIRMA  452 (456)
Q Consensus       421 -----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  452 (456)
                           ....++..++.++...|++++|...+++..+.
T Consensus       296 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          296 LKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             cCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence                 11335666777777777777777777776654

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.66  E-value=2.8e-14  Score=112.55  Aligned_cols=164  Identities=15%  Similarity=0.029  Sum_probs=93.5

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHH
Q 012804          251 DGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILID  330 (456)
Q Consensus       251 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  330 (456)
                      ++.+|..+...+...|++++|...|++.++.++. +...+..+..+|...|++++|...+........ .+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLDT-TSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc-hhHHHHHHHHH
Confidence            3445555666666666666666666666555332 455556666666666666666666666555422 24445555555


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHH
Q 012804          331 GLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSA  407 (456)
Q Consensus       331 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A  407 (456)
                      .+...++++.+...+.++.... +.+...+..+..++.+.|++++|++.|+++.+.   ++.+|..++.+|.+.|++++|
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            5556666666666666655542 444555555556666666666666666555443   445555556666666666666


Q ss_pred             HHHHHHHHHc
Q 012804          408 SKLLLSCLKS  417 (456)
Q Consensus       408 ~~~~~~~~~~  417 (456)
                      ++.|+++++.
T Consensus       161 ~~~~~~al~~  170 (184)
T 3vtx_A          161 VKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHhC
Confidence            6666665544

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.65  E-value=2.9e-13  Score=116.12  Aligned_cols=215  Identities=7%  Similarity=-0.057  Sum_probs=105.1

Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHHHHHHh-------cCch-------hHHHHHHHHHHHcCCCcChhhHHHHHHHHHH
Q 012804          199 RTARWILKELGDSGHAPNAITYTTIMKCCFR-------NRKY-------KLGLEILSAMKRKGYTFDGFGYCTVIAAFVK  264 (456)
Q Consensus       199 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  264 (456)
                      ++|...|+++....+ .+...|..++..+..       .|++       ++|..+|++..+.-.+.+...+..++..+..
T Consensus        33 ~~a~~~~~~al~~~p-~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVLG-HHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            455555555554322 244455555544432       3443       5555555555552113334455555555555


Q ss_pred             cCChHHHHHHHHHHHHCCCccCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHH-hcCCHHHHH
Q 012804          265 IGRLKEATDYMEQMVTDGVQLDIV-SYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLC-KAGNIKGAR  342 (456)
Q Consensus       265 ~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~  342 (456)
                      .|++++|..+|+++++..+. +.. .|..++..+.+.|++++|..+|++..+.+. ++...|...+.... ..|++++|.
T Consensus       112 ~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A~  189 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             cCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHHH
Confidence            55555555555555553211 222 455555555555555555555555554321 22333332222211 145555555


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC-------ChhhHHHHHHHHHccCChhHHHHHHHHHH
Q 012804          343 LHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK-------DSFTYSSMVHNLCKAKRLPSASKLLLSCL  415 (456)
Q Consensus       343 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  415 (456)
                      .+|+++++.. +.+...|..++..+.+.|++++|+.+|+++...       ....|..++..+.+.|+.++|..++++++
T Consensus       190 ~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          190 KIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5555555432 334555555555555555555555555555441       22345555555555555555555555555


Q ss_pred             Hc
Q 012804          416 KS  417 (456)
Q Consensus       416 ~~  417 (456)
                      +.
T Consensus       269 ~~  270 (308)
T 2ond_A          269 TA  270 (308)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.65  E-value=1.7e-13  Score=121.75  Aligned_cols=229  Identities=10%  Similarity=-0.045  Sum_probs=121.3

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhC----CCCC-CHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCC------CcChhhHH
Q 012804          188 LIKGLCKAGRLRTARWILKELGDS----GHAP-NAITYTTIMKCCFRNRKYKLGLEILSAMKRKGY------TFDGFGYC  256 (456)
Q Consensus       188 l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~~~~~~  256 (456)
                      ....+...|++++|...+++....    +..+ ...++..+..++...|+++.|...+.+..+...      +....++.
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            344455666666666666665442    1111 223455556666666666666666666554310      11123455


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCC-----CccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CC-CcCHHhHH
Q 012804          257 TVIAAFVKIGRLKEATDYMEQMVTDG-----VQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQ----GF-ECDKYTHT  326 (456)
Q Consensus       257 ~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~  326 (456)
                      .+..+|...|++++|...+++..+..     ......++..+...|...|++++|...+++..+.    +. +....++.
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            55666666666666666666655421     0111235556666666677777777666666541    11 22344566


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC----CCCCCHHHHHHHHHHHHhCCC---HHHHHHHHHHhccC--ChhhHHHHHHH
Q 012804          327 ILIDGLCKAGNIKGARLHLEYMNKI----GFDSNLEAYNCIVDRLGKDGK---IDHAINVFESMEVK--DSFTYSSMVHN  397 (456)
Q Consensus       327 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~--~~~~~~~l~~~  397 (456)
                      .+...+...|++++|...+++..+.    +-+.....+..+...+...|+   +++|..++++....  ....+..++..
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~  348 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAIDVAKY  348 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence            6666666666666666666665432    111112223445555555565   55555555554322  23344555566


Q ss_pred             HHccCChhHHHHHHHHHHH
Q 012804          398 LCKAKRLPSASKLLLSCLK  416 (456)
Q Consensus       398 ~~~~~~~~~A~~~~~~~~~  416 (456)
                      |...|++++|.+.++++++
T Consensus       349 y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          349 YHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            6666666666666665543

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.64  E-value=3.4e-14  Score=123.74  Aligned_cols=275  Identities=11%  Similarity=-0.023  Sum_probs=180.7

Q ss_pred             HHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC----hhHHHHHHHHHHhcCChHHHHHHHHHHHhC----CCC-CcH
Q 012804          112 VWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPC----TATFNIMLNGLCKNRYTDNALRMFRGLQKH----GFV-PEL  182 (456)
Q Consensus       112 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~  182 (456)
                      ...+......+...|++++|...|+++.+.. +.+    ...+..+...+...|++++|...+++..+.    +.. ...
T Consensus         5 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   83 (338)
T 3ro2_A            5 CLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   83 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHH
Confidence            3445566778899999999999999998864 333    367788899999999999999999987543    112 235


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhCCC-CCC----HHHHHHHHHHHHhcCc--------------------hhHHH
Q 012804          183 VTYNILIKGLCKAGRLRTARWILKELGDSGH-APN----AITYTTIMKCCFRNRK--------------------YKLGL  237 (456)
Q Consensus       183 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~--------------------~~~a~  237 (456)
                      ..+..+...+...|++++|...+.+...... .++    ..++..+...+...|+                    +++|.
T Consensus        84 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~  163 (338)
T 3ro2_A           84 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAV  163 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHH
Confidence            6778888999999999999999998765211 112    2255566666666666                    55555


Q ss_pred             HHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 012804          238 EILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQG  317 (456)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  317 (456)
                      ..+++....                            .....  ........+..+...+...|++++|...+++..+..
T Consensus       164 ~~~~~a~~~----------------------------~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~  213 (338)
T 3ro2_A          164 DLYEENLSL----------------------------VTALG--DRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIA  213 (338)
T ss_dssp             HHHHHHHHH----------------------------HHHHT--CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHH----------------------------HHhcC--CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence            544443321                            11000  011123345556666666677777766666654321


Q ss_pred             C-----CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhCCCHHHHHHHHHHhccC-
Q 012804          318 F-----ECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGF-DSN----LEAYNCIVDRLGKDGKIDHAINVFESMEVK-  386 (456)
Q Consensus       318 ~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-  386 (456)
                      .     .....++..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|...++++... 
T Consensus       214 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  293 (338)
T 3ro2_A          214 KEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIA  293 (338)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH
Confidence            0     00122566666677777777777777777654310 011    455666777778888888888888776543 


Q ss_pred             --------ChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          387 --------DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       387 --------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                              ...++..++..+...|++++|.+.++++++.
T Consensus       294 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          294 QELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence                    1346777888888889999999998888765

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.64  E-value=1e-13  Score=109.25  Aligned_cols=167  Identities=12%  Similarity=0.060  Sum_probs=141.1

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIA   85 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   85 (456)
                      ++.+|..+...+.+.|++++|++.|+++++.++. +..++..+..++.+.|++++|...+....... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            5678889999999999999999999999988754 78888999999999999999999999888764 345667777888


Q ss_pred             HHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHH
Q 012804           86 GATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDN  165 (456)
Q Consensus        86 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  165 (456)
                      .+...++++.+.+.+.+....... +...+..+..++.+.|++++|++.|++..+.. +.+..+|..+..++.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            888899999999999888876433 67788888888999999999999999888775 6677888888888999999999


Q ss_pred             HHHHHHHHHhC
Q 012804          166 ALRMFRGLQKH  176 (456)
Q Consensus       166 a~~~~~~~~~~  176 (456)
                      |+..|++..+.
T Consensus       160 A~~~~~~al~~  170 (184)
T 3vtx_A          160 AVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhC
Confidence            99999888875

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.63  E-value=6.1e-13  Score=114.10  Aligned_cols=238  Identities=8%  Similarity=-0.034  Sum_probs=147.4

Q ss_pred             CchHHHHHHHHHHHhh----CcH----HHHHHHHHHHHhcCCCCCHHhHHHHHHHHHc-------cCCh-------hHHH
Q 012804            5 LSTRLLNICVCTFCKA----NRL----EKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQ-------FVSF-------DAGY   62 (456)
Q Consensus         5 ~~~~~~~~l~~~~~~~----g~~----~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~-------~~a~   62 (456)
                      .+...|...+..-.+.    ++.    ++|+.+|+++++..+ .++..|..++..+..       .|++       ++|.
T Consensus         6 ~~~~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~~p-~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~   84 (308)
T 2ond_A            6 QQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVLG-HHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAA   84 (308)
T ss_dssp             HHHHHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHH
Confidence            3456777777665543    233    678888888887654 367777777777653       4665       7777


Q ss_pred             HHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHH-hHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 012804           63 TILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVW-SYNSLMHCLFQLGKPDEANRVFQDMICG  141 (456)
Q Consensus        63 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~  141 (456)
                      .+|++..+.-.+.+...|..++..+.+.|++++|.++|+++.+..+. +.. +|..++..+.+.|++++|..+|++..+.
T Consensus        85 ~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  163 (308)
T 2ond_A           85 NIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKARED  163 (308)
T ss_dssp             HHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            77777776211234556777777777777777777777777764321 232 6777777777777777777777777765


Q ss_pred             CCCCChhHHHHHHHHHH-hcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCC-CCC--CH
Q 012804          142 DLTPCTATFNIMLNGLC-KNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSG-HAP--NA  217 (456)
Q Consensus       142 ~~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~  217 (456)
                      + +++...|........ ..|+.++|..+|++..+. .+.+...|..++..+.+.|++++|..+|++..... ..|  ..
T Consensus       164 ~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~  241 (308)
T 2ond_A          164 A-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSG  241 (308)
T ss_dssp             T-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCH
T ss_pred             C-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHH
Confidence            4 334444443332222 256777777777666554 22355566666666666667777776666666642 232  34


Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 012804          218 ITYTTIMKCCFRNRKYKLGLEILSAMKRK  246 (456)
Q Consensus       218 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  246 (456)
                      ..|..++......|+.+.|..+++++.+.
T Consensus       242 ~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          242 EIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            45555666666666666666666666654

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.62  E-value=1.6e-14  Score=131.41  Aligned_cols=189  Identities=13%  Similarity=-0.033  Sum_probs=88.2

Q ss_pred             CHHHHHHHHHHHHhcCch-hHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHH
Q 012804          216 NAITYTTIMKCCFRNRKY-KLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLI  294 (456)
Q Consensus       216 ~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  294 (456)
                      +...+..+..++...|++ ++|...++++.+.. +.+...+..+..+|...|++++|...|++.++..  |+...+..+.
T Consensus       101 ~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~lg  177 (474)
T 4abn_A          101 EAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHC--KNKVSLQNLS  177 (474)
T ss_dssp             CHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC--CCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCHHHHHHHH
Confidence            444444455555555555 55555555555443 3334445555555555555555555555555432  3334444444


Q ss_pred             HHHHhc---------CCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhc--------CCHHHHHHHHHHHHhCCCC---
Q 012804          295 NLYCKE---------GKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKA--------GNIKGARLHLEYMNKIGFD---  354 (456)
Q Consensus       295 ~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~---  354 (456)
                      ..|...         |++++|...+++..+... .+...+..+..++...        |++++|...|+++.+.. +   
T Consensus       178 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~  255 (474)
T 4abn_A          178 MVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDV-LDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVD-RKAS  255 (474)
T ss_dssp             HHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHC-GGGG
T ss_pred             HHHHHhccCChhhhhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhC-CCcc
Confidence            555444         555555555555444321 1344444444444444        44555555555544431 2   


Q ss_pred             CCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHH
Q 012804          355 SNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASK  409 (456)
Q Consensus       355 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~  409 (456)
                      .+...+..+..+|...|++++|.+.|+++...   +...+..+..++...|++++|++
T Consensus       256 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~  313 (474)
T 4abn_A          256 SNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLE  313 (474)
T ss_dssp             GCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            23444444444444444444444444444332   33334444444444444444443

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.62  E-value=2.4e-13  Score=120.68  Aligned_cols=231  Identities=10%  Similarity=-0.029  Sum_probs=145.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhC----CCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCC--C----CCCHHHHH
Q 012804          153 MLNGLCKNRYTDNALRMFRGLQKH----GFVP-ELVTYNILIKGLCKAGRLRTARWILKELGDSG--H----APNAITYT  221 (456)
Q Consensus       153 l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~----~~~~~~~~  221 (456)
                      ....+...|++++|+..+++..+.    +-++ ...++..+...+...|++++|...+.+.....  .    .....++.
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            344555666667776666666543    1111 23456666666777777777777666654310  0    01134566


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHHcCC-----CcChhhHHHHHHHHHHcCChHHHHHHHHHHHH-----CCCccCHHHHH
Q 012804          222 TIMKCCFRNRKYKLGLEILSAMKRKGY-----TFDGFGYCTVIAAFVKIGRLKEATDYMEQMVT-----DGVQLDIVSYN  291 (456)
Q Consensus       222 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  291 (456)
                      .+..+|...|++++|...+++..+...     +....++..+..+|...|++++|...+++..+     ...+....++.
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            666777777777777777777664411     11123566777888888888888888888776     33233466778


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHc----CCCcCHHhHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 012804          292 TLINLYCKEGKLEAAYLLLDEMEKQ----GFECDKYTHTILIDGLCKAGN---IKGARLHLEYMNKIGFDSNLEAYNCIV  364 (456)
Q Consensus       292 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~  364 (456)
                      .+...|...|++++|...+++..+.    +.+.....+..+...+...|+   +++|..+++....  .+.....+..+.
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~--~~~~~~~~~~la  346 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKML--YADLEDFAIDVA  346 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcC--HHHHHHHHHHHH
Confidence            8888888888888888888877542    111122234566677777787   5666666665411  122345667788


Q ss_pred             HHHHhCCCHHHHHHHHHHhcc
Q 012804          365 DRLGKDGKIDHAINVFESMEV  385 (456)
Q Consensus       365 ~~~~~~g~~~~a~~~~~~~~~  385 (456)
                      ..|...|++++|...++++..
T Consensus       347 ~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          347 KYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            888888998888888887654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.59  E-value=3.7e-14  Score=122.08  Aligned_cols=242  Identities=13%  Similarity=0.056  Sum_probs=108.3

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhC-------CCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHc------C-
Q 012804          182 LVTYNILIKGLCKAGRLRTARWILKELGDS-------GHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRK------G-  247 (456)
Q Consensus       182 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-  247 (456)
                      ..++..+...+...|++++|..+++++...       ........+..+...+...|++++|...++++.+.      + 
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            445555666666666666666666655441       11122334444555555555555555555554432      1 


Q ss_pred             CCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-CHHhHH
Q 012804          248 YTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFEC-DKYTHT  326 (456)
Q Consensus       248 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~  326 (456)
                      .+.....+..+...+...|++++|...++++.+.....                             ..+..| ....+.
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~-----------------------------~~~~~~~~~~~~~  157 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKV-----------------------------LGKDHPDVAKQLN  157 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHH-----------------------------HCTTCHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHh-----------------------------cCCCChHHHHHHH
Confidence            11122334444444444455555555444444320000                             001111 222344


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC------CC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC-------------
Q 012804          327 ILIDGLCKAGNIKGARLHLEYMNKI------GF-DSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK-------------  386 (456)
Q Consensus       327 ~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------------  386 (456)
                      .+...+...|++++|..+++++.+.      +. +.....+..+..++...|++++|.+.++++...             
T Consensus       158 ~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  237 (311)
T 3nf1_A          158 NLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDEN  237 (311)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcch
Confidence            4444444555555555555444332      10 111233444444555555555555555544431             


Q ss_pred             -----ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhcc
Q 012804          387 -----DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAK  453 (456)
Q Consensus       387 -----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  453 (456)
                           ....+..+...+...+.+.+|...+++..... +.+..++..++.+|.+.|++++|.+++++..+..
T Consensus       238 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~  308 (311)
T 3nf1_A          238 KPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSR  308 (311)
T ss_dssp             CCHHHHHHHHHHC-------CCSCCCC---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh
Confidence                 11122223334445566666666666665432 2345667777788888888888888887776543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.57  E-value=4.6e-12  Score=112.14  Aligned_cols=226  Identities=12%  Similarity=-0.007  Sum_probs=123.9

Q ss_pred             HHHHHHcCCHHHHHHHHHHHhhCCC-CC----CHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCC-----C-cChhhHHH
Q 012804          189 IKGLCKAGRLRTARWILKELGDSGH-AP----NAITYTTIMKCCFRNRKYKLGLEILSAMKRKGY-----T-FDGFGYCT  257 (456)
Q Consensus       189 ~~~~~~~~~~~~a~~~~~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~-~~~~~~~~  257 (456)
                      ...+...|++++|...+++...... .+    ...++..+..++...|+++.|...+.+..+...     . ....++..
T Consensus       108 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  187 (378)
T 3q15_A          108 GMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFV  187 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHH
T ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHH
Confidence            3445566667777766666554211 01    123455566666666666666666666554310     0 11334555


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHC----C-CccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----cCCCcCHHhHHH
Q 012804          258 VIAAFVKIGRLKEATDYMEQMVTD----G-VQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEK-----QGFECDKYTHTI  327 (456)
Q Consensus       258 l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~  327 (456)
                      +..++...|++++|...+++..+.    + ......++..+..+|...|++++|...+++..+     .. +....++..
T Consensus       188 lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~  266 (378)
T 3q15_A          188 IAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFG  266 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHH
Confidence            666666777777777766666542    1 111234556666677777777777777766654     22 222455666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCC----CCCCHHHHHHHHHHHHhCCC---HHHHHHHHHHhccC--ChhhHHHHHHHH
Q 012804          328 LIDGLCKAGNIKGARLHLEYMNKIG----FDSNLEAYNCIVDRLGKDGK---IDHAINVFESMEVK--DSFTYSSMVHNL  398 (456)
Q Consensus       328 l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~--~~~~~~~l~~~~  398 (456)
                      +...+.+.|++++|...+++..+..    .+.....+..+...+...|+   +.+|+..+++....  ....+..++..|
T Consensus       267 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~y  346 (378)
T 3q15_A          267 LSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAAVF  346 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHHHH
Confidence            6667777777777777777765431    11112334444445555555   55555555553222  223444556666


Q ss_pred             HccCChhHHHHHHHHHH
Q 012804          399 CKAKRLPSASKLLLSCL  415 (456)
Q Consensus       399 ~~~~~~~~A~~~~~~~~  415 (456)
                      ...|++++|.+.|++++
T Consensus       347 ~~~g~~~~A~~~~~~al  363 (378)
T 3q15_A          347 ESSCHFEQAAAFYRKVL  363 (378)
T ss_dssp             HHTTCHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHH
Confidence            66666666666666554

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.56  E-value=3.7e-13  Score=122.44  Aligned_cols=194  Identities=10%  Similarity=-0.065  Sum_probs=87.8

Q ss_pred             hhHHHHHHHHHHhcCCh-HHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012804          147 TATFNIMLNGLCKNRYT-DNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMK  225 (456)
Q Consensus       147 ~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  225 (456)
                      ...+..+...+...|++ ++|++.|++..+.. +.+...|..+..+|...|++++|...|++..+..  |+...+..+..
T Consensus       102 a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~lg~  178 (474)
T 4abn_A          102 AQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHC--KNKVSLQNLSM  178 (474)
T ss_dssp             HHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC--CCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCHHHHHHHHH
Confidence            33444444444444444 44444444443331 1123344444444444444444444444444322  23344444444


Q ss_pred             HHHhc---------CchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHc--------CChHHHHHHHHHHHHCCCc--cC
Q 012804          226 CCFRN---------RKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKI--------GRLKEATDYMEQMVTDGVQ--LD  286 (456)
Q Consensus       226 ~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~--~~  286 (456)
                      ++...         |++++|...++++.+.. +.+...+..+..++...        |++++|...|++..+..+.  .+
T Consensus       179 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~  257 (474)
T 4abn_A          179 VLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSN  257 (474)
T ss_dssp             HHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGC
T ss_pred             HHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccC
Confidence            44444         44555555555544443 33344444444444444        4555555555555543220  24


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHH
Q 012804          287 IVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHL  345 (456)
Q Consensus       287 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  345 (456)
                      ...+..+..+|...|++++|...|++..+... .+...+..+...+...|++++|...+
T Consensus       258 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          258 PDLHLNRATLHKYEESYGEALEGFSQAAALDP-AWPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            44555555555555555555555555544321 13344444555555555555554443

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.55  E-value=3e-13  Score=116.35  Aligned_cols=242  Identities=14%  Similarity=0.040  Sum_probs=173.7

Q ss_pred             CCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhc-------CCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhC-----
Q 012804            4 KLSTRLLNICVCTFCKANRLEKAEAIIIDGIRL-------GVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREA-----   71 (456)
Q Consensus         4 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----   71 (456)
                      |.+..++..+...+...|++++|+.+++++.+.       .......++..+...+...|++++|...+++..+.     
T Consensus        24 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  103 (311)
T 3nf1_A           24 PARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTL  103 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHh
Confidence            456788999999999999999999999999874       23335668889999999999999999999988764     


Q ss_pred             -CC-CCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHC------CC-CCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhC-
Q 012804           72 -GI-SPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEM------GI-PPDVWSYNSLMHCLFQLGKPDEANRVFQDMICG-  141 (456)
Q Consensus        72 -~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  141 (456)
                       +. +....++..+...+...|++++|.+.+++..+.      +. +.....+..+...+...|++++|.+.++++... 
T Consensus       104 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~  183 (311)
T 3nf1_A          104 GKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIY  183 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence             21 223567888999999999999999999998764      21 224566788899999999999999999998764 


Q ss_pred             -----C-CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhC-------CCCCcH-------HHHHHHHHHHHHcCCHHHH
Q 012804          142 -----D-LTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKH-------GFVPEL-------VTYNILIKGLCKAGRLRTA  201 (456)
Q Consensus       142 -----~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~-------~~~~~l~~~~~~~~~~~~a  201 (456)
                           + .+....++..+..++...|++++|...++++.+.       ...+..       ..+..+...+...+.+.++
T Consensus       184 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  263 (311)
T 3nf1_A          184 QTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEY  263 (311)
T ss_dssp             HHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCC
T ss_pred             HHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHH
Confidence                 1 1233567888899999999999999999998753       111111       1122222233334444555


Q ss_pred             HHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 012804          202 RWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRK  246 (456)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  246 (456)
                      ...+....... +....++..+..+|...|++++|...+++..+.
T Consensus       264 ~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          264 GGWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             C---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            55555554422 235667888999999999999999999988765

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.54  E-value=2e-11  Score=107.88  Aligned_cols=297  Identities=14%  Similarity=0.032  Sum_probs=190.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcH----HHHHHHHHHHHHcCCHHHHHHHHHHHhhCCC-CCCH----HHH
Q 012804          150 FNIMLNGLCKNRYTDNALRMFRGLQKHGFVPEL----VTYNILIKGLCKAGRLRTARWILKELGDSGH-APNA----ITY  220 (456)
Q Consensus       150 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~  220 (456)
                      .......+...|++++|...+++........+.    ..+..+...+...|++++|...+.+...... ..+.    .++
T Consensus        17 ~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   96 (373)
T 1hz4_A           17 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   96 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            344455667789999999999887775322222    2456666778888999999988887654211 1122    224


Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHHc----CCC--c-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCC----ccCHHH
Q 012804          221 TTIMKCCFRNRKYKLGLEILSAMKRK----GYT--F-DGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGV----QLDIVS  289 (456)
Q Consensus       221 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~  289 (456)
                      ..+...+...|++++|...+++..+.    +.+  | ....+..+...+...|++++|...+++......    ......
T Consensus        97 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  176 (373)
T 1hz4_A           97 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  176 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHH
Confidence            55667778888898888888887653    211  1 233455567778888888888888888776422    112456


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcC--HHhHH----HHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHH
Q 012804          290 YNTLINLYCKEGKLEAAYLLLDEMEKQGFECD--KYTHT----ILIDGLCKAGNIKGARLHLEYMNKIGFDS---NLEAY  360 (456)
Q Consensus       290 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~  360 (456)
                      +..+...+...|++++|...+++.......++  .....    ..+..+...|++++|...++........+   ....+
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  256 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  256 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHH
Confidence            67777888888888888888888765311111  11111    22334668888888888888876543111   12345


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHhccC---------ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 012804          361 NCIVDRLGKDGKIDHAINVFESMEVK---------DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVD  431 (456)
Q Consensus       361 ~~l~~~~~~~g~~~~a~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  431 (456)
                      ..+...+...|++++|...++++...         ....+..+..++...|++++|...+++.+....+      .....
T Consensus       257 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~~------~g~~~  330 (373)
T 1hz4_A          257 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANR------TGFIS  330 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH------HCCCH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhcc------ccHHH
Confidence            66777788888888888888876543         1135566677778888888888888888765211      11223


Q ss_pred             HHHccCChHHHHHHHHHHHhccc
Q 012804          432 GLRHSGCRREAKKIQSKIRMAKI  454 (456)
Q Consensus       432 ~~~~~g~~~~A~~~~~~~~~~~~  454 (456)
                      .+...|  +....+++++....+
T Consensus       331 ~~~~~g--~~~~~ll~~~~~~~~  351 (373)
T 1hz4_A          331 HFVIEG--EAMAQQLRQLIQLNT  351 (373)
T ss_dssp             HHHTTH--HHHHHHHHHHHHTTC
T ss_pred             HHHHcc--HHHHHHHHHHHhCCC
Confidence            344444  556666666655443

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.53  E-value=7.8e-12  Score=110.67  Aligned_cols=311  Identities=9%  Similarity=-0.007  Sum_probs=135.3

Q ss_pred             CchHHHHHHHHHH--HhhCcHHHHHHHHHHHHhcC--CC--CCHHhHHHHHHHH--HccCChhHHH---------HHHHH
Q 012804            5 LSTRLLNICVCTF--CKANRLEKAEAIIIDGIRLG--VL--PDVVTYNMLIDAY--CQFVSFDAGY---------TILNR   67 (456)
Q Consensus         5 ~~~~~~~~l~~~~--~~~g~~~~A~~~~~~~~~~~--~~--~~~~~~~~l~~~~--~~~~~~~~a~---------~~~~~   67 (456)
                      |+..+-+.+-++|  ..++++++|..+++++.+..  ..  ++...|..++..-  .-.+.++.+.         +.++.
T Consensus         8 ~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l~~   87 (378)
T 3q15_A            8 PSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLET   87 (378)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHHHH
Confidence            4555666666676  77888888888888765532  11  1222333333321  1112222222         44444


Q ss_pred             HHhCCCCCCH----hHHHHHHHHHHcCCChhHHHHHHHHHHHCC--CC---CCHHhHHHHHHHHHhcCChhHHHHHHHHH
Q 012804           68 MREAGISPDV----VTYNSLIAGATRNSLLSCSLDLLDEMLEMG--IP---PDVWSYNSLMHCLFQLGKPDEANRVFQDM  138 (456)
Q Consensus        68 ~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  138 (456)
                      +.....+.+.    ..+......+...|++++|.+.+++..+..  .+   ....++..+...|...|+++.|...+++.
T Consensus        88 i~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~a  167 (378)
T 3q15_A           88 IETPQKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQA  167 (378)
T ss_dssp             HHGGGHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HhccCCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            3321100010    011222333445566666666666554421  00   01234445555555556665555555554


Q ss_pred             HhC----CC-C-CChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCC
Q 012804          139 ICG----DL-T-PCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSG  212 (456)
Q Consensus       139 ~~~----~~-~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  212 (456)
                      ...    +. . ....+++.+..+|...|++++|...+++..+..                               ...+
T Consensus       168 l~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~-------------------------------~~~~  216 (378)
T 3q15_A          168 LDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELA-------------------------------MDIQ  216 (378)
T ss_dssp             HHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-------------------------------HHTT
T ss_pred             HHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH-------------------------------HHcC
Confidence            431    00 0 012344445555555555555555555443310                               0000


Q ss_pred             CC-CCHHHHHHHHHHHHhcCchhHHHHHHHHHHH-----cCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCC----
Q 012804          213 HA-PNAITYTTIMKCCFRNRKYKLGLEILSAMKR-----KGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDG----  282 (456)
Q Consensus       213 ~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----  282 (456)
                      .. ....++..+..++...|++++|...+++..+     .. +....++..+..++.+.|++++|...+++..+..    
T Consensus       217 ~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  295 (378)
T 3q15_A          217 NDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARS  295 (378)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTC
T ss_pred             CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcC
Confidence            00 0112333444444444444444444444443     21 2223444445555555555555555555554421    


Q ss_pred             CccCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCc-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 012804          283 VQLDIVSYNTLINLYCKEGK---LEAAYLLLDEMEKQGFEC-DKYTHTILIDGLCKAGNIKGARLHLEYMNK  350 (456)
Q Consensus       283 ~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  350 (456)
                      .+.....+..+...|...++   ..+|+..++..   +..| ....+..+...|...|++++|...++++.+
T Consensus       296 ~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          296 HKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             CSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            11112233344444444455   44444444431   1111 223344555556666666666666655543

>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=99.52  E-value=1.9e-12  Score=101.99  Aligned_cols=160  Identities=16%  Similarity=0.040  Sum_probs=82.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 012804          290 YNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGK  369 (456)
Q Consensus       290 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  369 (456)
                      +..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++.+.+.. +.+...+..++..+..
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~   88 (186)
T 3as5_A           11 YRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQ   88 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHH
Confidence            3444444455555555555555444332 1234444445555555555555555555554432 3344445555555555


Q ss_pred             CCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHH
Q 012804          370 DGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQ  446 (456)
Q Consensus       370 ~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  446 (456)
                      .|++++|.+.++++...   +...+..++..+...|++++|.+.++++.+..+ .+...+..++.++...|++++|...+
T Consensus        89 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~  167 (186)
T 3as5_A           89 VQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRP-NEGKVHRAIAFSYEQMGRHEEALPHF  167 (186)
T ss_dssp             HTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCHHHHHHHH
Confidence            55555555555544432   344455555555555666666666655555432 24555555556666666666666666


Q ss_pred             HHHHhc
Q 012804          447 SKIRMA  452 (456)
Q Consensus       447 ~~~~~~  452 (456)
                      +++.+.
T Consensus       168 ~~~~~~  173 (186)
T 3as5_A          168 KKANEL  173 (186)
T ss_dssp             HHHHHH
T ss_pred             HHHHHc
Confidence            555443

>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=99.51  E-value=1.3e-12  Score=123.56  Aligned_cols=168  Identities=8%  Similarity=-0.050  Sum_probs=152.2

Q ss_pred             CCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHH
Q 012804            4 KLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSL   83 (456)
Q Consensus         4 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   83 (456)
                      |-++.+|+.+...+.+.|++++|++.|+++++..+. +..++..+..++.+.|++++|++.|++..+.. +-+...|..+
T Consensus         6 P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nL   83 (723)
T 4gyw_A            6 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNM   83 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            557889999999999999999999999999998754 78899999999999999999999999999874 3357899999


Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCh
Q 012804           84 IAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYT  163 (456)
Q Consensus        84 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  163 (456)
                      ..++...|++++|++.|++..+.... +...+..+..+|...|++++|++.|++.++.. +.+...+..+..++...|++
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~  161 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDW  161 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccH
Confidence            99999999999999999999987543 68899999999999999999999999999876 66788999999999999999


Q ss_pred             HHHHHHHHHHHh
Q 012804          164 DNALRMFRGLQK  175 (456)
Q Consensus       164 ~~a~~~~~~~~~  175 (456)
                      ++|.+.++++.+
T Consensus       162 ~~A~~~~~kal~  173 (723)
T 4gyw_A          162 TDYDERMKKLVS  173 (723)
T ss_dssp             TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999888765

>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=99.51  E-value=1.3e-12  Score=123.57  Aligned_cols=162  Identities=13%  Similarity=0.075  Sum_probs=89.0

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHH
Q 012804          252 GFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDG  331 (456)
Q Consensus       252 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  331 (456)
                      ...++.+..++.+.|++++|+..|++.++.... +...+..+..+|.+.|++++|+..|++..+.... +...+..+..+
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nLg~~   86 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            445555555566666666666666655554322 4555555555566666666666666555554211 34455555555


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHH
Q 012804          332 LCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSAS  408 (456)
Q Consensus       332 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~  408 (456)
                      +...|++++|+..|+++++.. +.+...+..+..+|.+.|++++|++.|+++.+.   +...+..++.++...|++++|.
T Consensus        87 l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~A~  165 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDYD  165 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTTHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHHHH
Confidence            555566666666655555542 334555555555555555555555555555443   4445555555555555555555


Q ss_pred             HHHHHHHH
Q 012804          409 KLLLSCLK  416 (456)
Q Consensus       409 ~~~~~~~~  416 (456)
                      +.++++++
T Consensus       166 ~~~~kal~  173 (723)
T 4gyw_A          166 ERMKKLVS  173 (723)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555543

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.51  E-value=2.7e-11  Score=107.09  Aligned_cols=202  Identities=9%  Similarity=-0.019  Sum_probs=117.7

Q ss_pred             HHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHH----hHHHHHHHHHccCChhHHHHHHHHHHhCCC-CCC----HhH
Q 012804            9 LLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVV----TYNMLIDAYCQFVSFDAGYTILNRMREAGI-SPD----VVT   79 (456)
Q Consensus         9 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~   79 (456)
                      ........+...|++++|...++++....+..+..    +++.+...+...|++++|.+.+++..+... .++    ..+
T Consensus        16 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   95 (373)
T 1hz4_A           16 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   95 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            33444556677888888888888887765433322    456666777788888888888877764310 011    123


Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHC----CCC--C-CHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCC--C--Chh
Q 012804           80 YNSLIAGATRNSLLSCSLDLLDEMLEM----GIP--P-DVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLT--P--CTA  148 (456)
Q Consensus        80 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~--~~~  148 (456)
                      +..+...+...|++++|.+.+++....    +.+  | ....+..+...+...|++++|...+++.......  +  ...
T Consensus        96 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  175 (373)
T 1hz4_A           96 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  175 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHH
Confidence            455666777788888888777776543    111  2 2334555666777777777777777776543211  1  123


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC-c-HHHHH----HHHHHHHHcCCHHHHHHHHHHHhh
Q 012804          149 TFNIMLNGLCKNRYTDNALRMFRGLQKHGFVP-E-LVTYN----ILIKGLCKAGRLRTARWILKELGD  210 (456)
Q Consensus       149 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~-~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~  210 (456)
                      ++..+...+...|++++|...+++.......+ . .....    ..+..+...|++++|...+.....
T Consensus       176 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~  243 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAK  243 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCC
Confidence            45556666666777777777766654321111 1 11111    122335566666666666665544

>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=99.49  E-value=7.6e-12  Score=102.22  Aligned_cols=208  Identities=11%  Similarity=-0.077  Sum_probs=161.3

Q ss_pred             CCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHH
Q 012804            4 KLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSL   83 (456)
Q Consensus         4 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   83 (456)
                      +.|+..+......+...|++++|+..|+.+++..+.++...+..+..++...|++++|++.|++..+.. +.+...+..+
T Consensus         4 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   82 (228)
T 4i17_A            4 TTDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGK   82 (228)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHH
Confidence            567789999999999999999999999999998865688888889999999999999999999999874 3357788999


Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCCCCH-------HhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC--ChhHHHHHH
Q 012804           84 IAGATRNSLLSCSLDLLDEMLEMGIPPDV-------WSYNSLMHCLFQLGKPDEANRVFQDMICGDLTP--CTATFNIML  154 (456)
Q Consensus        84 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~  154 (456)
                      ..++...|++++|.+.+++..+..+. +.       ..|..+...+...|++++|.+.|++..+.+ +.  +...+..+.
T Consensus        83 ~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~l~  160 (228)
T 4i17_A           83 SAAYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT-SKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS-CHHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC-CCcccHHHHHHHH
Confidence            99999999999999999999986533 44       457888888999999999999999999774 44  467777787


Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHH
Q 012804          155 NGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTI  223 (456)
Q Consensus       155 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  223 (456)
                      .++...|     ...++++...+ ..+...|....  ....+.+++|...+++..+..+. +..+...+
T Consensus       161 ~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~-~~~~~~~l  220 (228)
T 4i17_A          161 VLFYNNG-----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPN-RTEIKQMQ  220 (228)
T ss_dssp             HHHHHHH-----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHHH-----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCC-CHHHHHHH
Confidence            7776544     34455555543 22344444333  33456689999999998875432 34444433

>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=99.49  E-value=4.3e-12  Score=99.92  Aligned_cols=165  Identities=18%  Similarity=0.053  Sum_probs=106.3

Q ss_pred             hHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 012804            7 TRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAG   86 (456)
Q Consensus         7 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   86 (456)
                      ...+..+...+...|++++|...++++.+..+ .+...+..+...+...|++++|...++++.+.. +.+...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADA-FDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-cChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            45566667777777777777777777766543 356667777777777777777777777776653 3345566666666


Q ss_pred             HHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHH
Q 012804           87 ATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNA  166 (456)
Q Consensus        87 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  166 (456)
                      +...|++++|.+.++++..... .+...+..+...+...|++++|.+.++++.... +.+...+..+...+...|++++|
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEANP-INFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcCc-HhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHH
Confidence            6677777777777776665532 255556666666666666666666666666543 34455566666666666666666


Q ss_pred             HHHHHHHHh
Q 012804          167 LRMFRGLQK  175 (456)
Q Consensus       167 ~~~~~~~~~  175 (456)
                      ...++++.+
T Consensus       164 ~~~~~~~~~  172 (186)
T 3as5_A          164 LPHFKKANE  172 (186)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666665544

>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=99.48  E-value=1.7e-11  Score=100.17  Aligned_cols=206  Identities=13%  Similarity=0.062  Sum_probs=152.8

Q ss_pred             CCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHH
Q 012804          215 PNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLI  294 (456)
Q Consensus       215 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  294 (456)
                      .++..+......+...|++++|...|+...+...+++...+..+..++...|++++|...+++..+.++. +...+..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHH
Confidence            3567788888889999999999999999998863377777777888999999999999999999987543 677888899


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCcCH-------HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHH
Q 012804          295 NLYCKEGKLEAAYLLLDEMEKQGFECDK-------YTHTILIDGLCKAGNIKGARLHLEYMNKIGFDS--NLEAYNCIVD  365 (456)
Q Consensus       295 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~  365 (456)
                      .+|...|++++|...+++..+.... +.       ..+..+...+...|++++|...++++.+.. +.  +...+..+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~  161 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT-SKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS-CHHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC-CCcccHHHHHHHHH
Confidence            9999999999999999998876322 34       457778888889999999999999988763 33  4577777877


Q ss_pred             HHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 012804          366 RLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVD  431 (456)
Q Consensus       366 ~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  431 (456)
                      +|...|+     ..++++...   +...+...  .....+.+++|+..++++++..+. +..+...+..
T Consensus       162 ~~~~~~~-----~~~~~a~~~~~~~~~~~~~~--~~~~~~~~~~A~~~~~~a~~l~p~-~~~~~~~l~~  222 (228)
T 4i17_A          162 LFYNNGA-----DVLRKATPLASSNKEKYASE--KAKADAAFKKAVDYLGEAVTLSPN-RTEIKQMQDQ  222 (228)
T ss_dssp             HHHHHHH-----HHHHHHGGGTTTCHHHHHHH--HHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHH-----HHHHHHHhcccCCHHHHHHH--HHHHHHHHHHHHHHHHHHhhcCCC-CHHHHHHHHH
Confidence            7765554     333333332   33333322  233456689999999999887543 5555544443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.41  E-value=7.6e-10  Score=100.56  Aligned_cols=204  Identities=10%  Similarity=-0.088  Sum_probs=134.9

Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHH
Q 012804          199 RTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQM  278 (456)
Q Consensus       199 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  278 (456)
                      +.+..+|+++.... +.+...|...+..+...|+++.|..++++....  |.+...+.    .|....+.++.   ++.+
T Consensus       196 ~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~~---~~~l  265 (493)
T 2uy1_A          196 SRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEAV---YGDL  265 (493)
T ss_dssp             HHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTHH---HHHH
T ss_pred             HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhHH---HHHH
Confidence            44667777776643 335777777777778888888888888888877  33332222    22222222221   2222


Q ss_pred             HHC------------CCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHh-cCCHHHHHHHH
Q 012804          279 VTD------------GVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCK-AGNIKGARLHL  345 (456)
Q Consensus       279 ~~~------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~  345 (456)
                      .+.            ........|...+....+.++.+.|..+|+.. .. ...+...|...+..-.. .++.+.|..+|
T Consensus       266 ~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~if  343 (493)
T 2uy1_A          266 KRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIF  343 (493)
T ss_dssp             HHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHH
T ss_pred             HHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHH
Confidence            211            00112345666677776788899999999999 32 22344455433332222 34699999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCChhhHHHHHHHHHccCChhHHHHHHHHHHH
Q 012804          346 EYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLK  416 (456)
Q Consensus       346 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  416 (456)
                      +...+. .+.+...+...++...+.|+.+.|..+|+++.. ....|...+..-...|+.+.+.++++++.+
T Consensus       344 e~al~~-~~~~~~~~~~yid~e~~~~~~~~aR~l~er~~k-~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          344 SSGLLK-HPDSTLLKEEFFLFLLRIGDEENARALFKRLEK-TSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHH-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHSCC-BHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHH-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            998875 344566677788888889999999999999843 577788888777788999999998888874

>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=99.41  E-value=7.5e-12  Score=105.91  Aligned_cols=224  Identities=11%  Similarity=0.033  Sum_probs=160.4

Q ss_pred             HhcCchhHHHHHHHHHHHc-------CCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHC------C-CccCHHHHHHH
Q 012804          228 FRNRKYKLGLEILSAMKRK-------GYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTD------G-VQLDIVSYNTL  293 (456)
Q Consensus       228 ~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l  293 (456)
                      ...|++++|...+++..+.       ..+....++..+...+...|++++|...++++...      + .+....++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            4567888888877777652       22334667888899999999999999999998864      1 23346678889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHc------CC-CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC------C-CCCCHHH
Q 012804          294 INLYCKEGKLEAAYLLLDEMEKQ------GF-ECDKYTHTILIDGLCKAGNIKGARLHLEYMNKI------G-FDSNLEA  359 (456)
Q Consensus       294 ~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~  359 (456)
                      ...|...|++++|...+.+..+.      .. +....++..+...+...|++++|...++++.+.      + .+....+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999999998764      11 224567888899999999999999999998765      1 1223567


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhccC------------ChhhHHHHHHHHHccCChhHHH------HHHHHHHHcCCCC
Q 012804          360 YNCIVDRLGKDGKIDHAINVFESMEVK------------DSFTYSSMVHNLCKAKRLPSAS------KLLLSCLKSGVRI  421 (456)
Q Consensus       360 ~~~l~~~~~~~g~~~~a~~~~~~~~~~------------~~~~~~~l~~~~~~~~~~~~A~------~~~~~~~~~~~~~  421 (456)
                      +..+..++...|++++|.+.++++...            ....|..+...+...+....+.      ..++.... ..+.
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  250 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSPT  250 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCHH
Confidence            888999999999999999999987653            2234444444444433333332      22222211 1122


Q ss_pred             CHHhHHHHHHHHHccCChHHHHHHHHHHHhc
Q 012804          422 LKSAQKAVVDGLRHSGCRREAKKIQSKIRMA  452 (456)
Q Consensus       422 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  452 (456)
                      ...++..++.+|...|++++|..++++..+.
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3457888999999999999999999988764

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.38  E-value=1.8e-10  Score=95.65  Aligned_cols=241  Identities=9%  Similarity=0.028  Sum_probs=153.9

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCch
Q 012804          154 LNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKY  233 (456)
Q Consensus       154 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  233 (456)
                      ++-..-.|.+..++.-..++..   ........-+.+++...|+++..         ....|....+..+...+ ..+  
T Consensus        20 ikn~fy~G~yq~~i~e~~~~~~---~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~--   84 (310)
T 3mv2_B           20 IKQNYYTGNFVQCLQEIEKFSK---VTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK--   84 (310)
T ss_dssp             HHHHHTTTCHHHHTHHHHTSSC---CCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT--
T ss_pred             HHHHHHhhHHHHHHHHHHhcCc---cchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc--
Confidence            3445567888888773332221   11223333455777777776531         12234443444444333 222  


Q ss_pred             hHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCC-ccCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012804          234 KLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGV-QLDIVSYNTLINLYCKEGKLEAAYLLLDE  312 (456)
Q Consensus       234 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  312 (456)
                        +...+++....+ +++...+..+..++...|++++|.+++.+.+..+. .-+...+..++..+.+.|+.+.|.+.++.
T Consensus        85 --a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~  161 (310)
T 3mv2_B           85 --NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDN  161 (310)
T ss_dssp             --CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             --HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence              667777766654 45555666777888888888888888888776543 23667777888888888888888888888


Q ss_pred             HHHcCCCc-----CHHhHHHHHHHH--HhcC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHh
Q 012804          313 MEKQGFEC-----DKYTHTILIDGL--CKAG--NIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESM  383 (456)
Q Consensus       313 ~~~~~~~~-----~~~~~~~l~~~~--~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  383 (456)
                      |.+.  .|     +..+...++.++  ...|  ++.+|..+|+++.+.  .|+......++.++.+.|++++|.+.++.+
T Consensus       162 ~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l  237 (310)
T 3mv2_B          162 YTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELL  237 (310)
T ss_dssp             HHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            8775  44     355666666553  3334  788888888888664  444333334444788888888888888765


Q ss_pred             cc------------C-ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          384 EV------------K-DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       384 ~~------------~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      ..            + ++.++..++......|+  +|.+++.++.+..
T Consensus       238 ~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          238 LSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             HHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            43            2 66667666666666676  7788888887764

>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=99.37  E-value=1.1e-11  Score=104.93  Aligned_cols=228  Identities=12%  Similarity=0.013  Sum_probs=156.6

Q ss_pred             HhhCcHHHHHHHHHHHHhc-------CCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhC------CC-CCCHhHHHHH
Q 012804           18 CKANRLEKAEAIIIDGIRL-------GVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREA------GI-SPDVVTYNSL   83 (456)
Q Consensus        18 ~~~g~~~~A~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l   83 (456)
                      ...|++++|+..++++++.       +.+....++..+..++...|++++|...++++.+.      +- +....++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            4456777777777766652       22234568889999999999999999999988754      21 2235678889


Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCC-------CCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhC------C-CCCChhH
Q 012804           84 IAGATRNSLLSCSLDLLDEMLEMG-------IPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICG------D-LTPCTAT  149 (456)
Q Consensus        84 ~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~  149 (456)
                      ...+...|++++|.+.+++.....       .+....++..+...+...|++++|...+++....      + .+....+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            999999999999999999987641       1234667888999999999999999999998764      1 1234567


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhC-------CCCC-cHHHHHHHHHHHHHcCC------HHHHHHHHHHHhhCCCCC
Q 012804          150 FNIMLNGLCKNRYTDNALRMFRGLQKH-------GFVP-ELVTYNILIKGLCKAGR------LRTARWILKELGDSGHAP  215 (456)
Q Consensus       150 ~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~-~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~~~~  215 (456)
                      +..+...+...|++++|...+++..+.       ...+ ....+..+...+...+.      +..+...+..... ..+.
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  250 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSPT  250 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCHH
Confidence            888899999999999999999988753       1111 22233333333333222      2333333322221 1122


Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 012804          216 NAITYTTIMKCCFRNRKYKLGLEILSAMKRK  246 (456)
Q Consensus       216 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  246 (456)
                      ...++..+..++...|++++|...+++..+.
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4556788889999999999999999988754

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.36  E-value=2.6e-10  Score=96.79  Aligned_cols=163  Identities=11%  Similarity=-0.038  Sum_probs=91.4

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHCCC----c-cCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHcCCCc-C----
Q 012804          253 FGYCTVIAAFVKIGRLKEATDYMEQMVTDGV----Q-LDIVSYNTLINLYCKE-GKLEAAYLLLDEMEKQGFEC-D----  321 (456)
Q Consensus       253 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~-~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~-~----  321 (456)
                      .++..+..+|...|++++|...+++.+....    . ....++..+...|... |++++|+..+++..+..... +    
T Consensus        78 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~  157 (292)
T 1qqe_A           78 NTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALS  157 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHH
Confidence            3445555555555666666555555544210    0 0133566666677774 77777777777665431100 1    


Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH------HHHHHHHHHHHhCCCHHHHHHHHHHhccCChh------
Q 012804          322 KYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNL------EAYNCIVDRLGKDGKIDHAINVFESMEVKDSF------  389 (456)
Q Consensus       322 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~------  389 (456)
                      ..++..+...+...|++++|...++++.+.......      ..+..++.++...|++++|...|++....++.      
T Consensus       158 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~  237 (292)
T 1qqe_A          158 NKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRE  237 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHH
Confidence            245666677777777777777777777664321111      14556666777777777777777777654221      


Q ss_pred             --hHHHHHHHHH--ccCChhHHHHHHHHHH
Q 012804          390 --TYSSMVHNLC--KAKRLPSASKLLLSCL  415 (456)
Q Consensus       390 --~~~~l~~~~~--~~~~~~~A~~~~~~~~  415 (456)
                        .+..++.++.  ..+++++|++.|+++.
T Consensus       238 ~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          238 SNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence              2333444443  3456667777666554

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.34  E-value=2.7e-10  Score=96.64  Aligned_cols=203  Identities=13%  Similarity=-0.016  Sum_probs=123.7

Q ss_pred             HHHhcCChHHHHHHHHHHHhC----CCCCc-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhc
Q 012804          156 GLCKNRYTDNALRMFRGLQKH----GFVPE-LVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRN  230 (456)
Q Consensus       156 ~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  230 (456)
                      .|...|++++|...|++..+.    |.++. ..+|+.+..+|...|++++|...+++....               +...
T Consensus        46 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l---------------~~~~  110 (292)
T 1qqe_A           46 IYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQI---------------FTHR  110 (292)
T ss_dssp             HHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------HHHT
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH---------------HHHc
Confidence            455566666666666655432    11111 334555555555555555555555544331               1111


Q ss_pred             CchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHc-CChHHHHHHHHHHHHCCCcc-----CHHHHHHHHHHHHhcCCHH
Q 012804          231 RKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKI-GRLKEATDYMEQMVTDGVQL-----DIVSYNTLINLYCKEGKLE  304 (456)
Q Consensus       231 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~  304 (456)
                      |++..+               ..++..+..+|... |++++|...+++.++.....     ...++..+...+...|+++
T Consensus       111 g~~~~~---------------a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~  175 (292)
T 1qqe_A          111 GQFRRG---------------ANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYI  175 (292)
T ss_dssp             TCHHHH---------------HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             CCHHHH---------------HHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHH
Confidence            221111               23455667777775 88888888888777641110     1356778888899999999


Q ss_pred             HHHHHHHHHHHcCCCcCH------HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC------HHHHHHHHHHHH--hC
Q 012804          305 AAYLLLDEMEKQGFECDK------YTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSN------LEAYNCIVDRLG--KD  370 (456)
Q Consensus       305 ~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~~--~~  370 (456)
                      +|...+++..+.......      ..+..+..++...|++++|...+++..+.  .|+      ...+..++..+.  ..
T Consensus       176 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~  253 (292)
T 1qqe_A          176 EASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDS  253 (292)
T ss_dssp             HHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCH
Confidence            999999988875433221      15667777888899999999999988764  232      123444555554  45


Q ss_pred             CCHHHHHHHHHHhccCChhh
Q 012804          371 GKIDHAINVFESMEVKDSFT  390 (456)
Q Consensus       371 g~~~~a~~~~~~~~~~~~~~  390 (456)
                      +++++|+..|+++...++..
T Consensus       254 ~~~~~A~~~~~~~~~l~~~~  273 (292)
T 1qqe_A          254 EQLSEHCKEFDNFMRLDKWK  273 (292)
T ss_dssp             TTHHHHHHHHTTSSCCCHHH
T ss_pred             HHHHHHHHHhccCCccHHHH
Confidence            77899999998887776544

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.33  E-value=1.6e-09  Score=90.03  Aligned_cols=243  Identities=8%  Similarity=-0.075  Sum_probs=146.0

Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHH
Q 012804          120 HCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLR  199 (456)
Q Consensus       120 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  199 (456)
                      +-..-.|.+..++.-...+..   ......-..+.+++...|+++..         ..-.|....+..+.. |...+   
T Consensus        21 kn~fy~G~yq~~i~e~~~~~~---~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~-~~~~~---   84 (310)
T 3mv2_B           21 KQNYYTGNFVQCLQEIEKFSK---VTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQ-FLDTK---   84 (310)
T ss_dssp             HHHHTTTCHHHHTHHHHTSSC---CCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHH-HHTTT---
T ss_pred             HHHHHhhHHHHHHHHHHhcCc---cchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHH-Hhccc---
Confidence            445567778777763332221   11223333455777777776542         112334334333333 33322   


Q ss_pred             HHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCC-CcChhhHHHHHHHHHHcCChHHHHHHHHHH
Q 012804          200 TARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGY-TFDGFGYCTVIAAFVKIGRLKEATDYMEQM  278 (456)
Q Consensus       200 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  278 (456)
                       +...|++....+ .++..++..+..++...|++++|++++.+.+..+. .-+...+...+..+.+.|+.+.|.+.++.|
T Consensus        85 -a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 -NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             -CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             -HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence             666777666544 34555556777777888888888888887766542 135566667777888888888888888888


Q ss_pred             HHCCCcc-----CHHHHHHHHHHH--HhcC--CHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012804          279 VTDGVQL-----DIVSYNTLINLY--CKEG--KLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMN  349 (456)
Q Consensus       279 ~~~~~~~-----~~~~~~~l~~~~--~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  349 (456)
                      .+.  .|     +..+...++.++  ...|  ++.+|..+|+++.+.  .|+..+-..++.++.+.|++++|...++.+.
T Consensus       163 ~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          163 TNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             Hhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            764  34     244555555553  2334  788888888887654  3443333334447778888888888887655


Q ss_pred             hC-----C----CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC
Q 012804          350 KI-----G----FDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK  386 (456)
Q Consensus       350 ~~-----~----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  386 (456)
                      +.     .    -+.++.++..++......|+  +|.++++++...
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence            42     0    13456666566666666676  777777777665

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.32  E-value=5.5e-09  Score=94.97  Aligned_cols=376  Identities=9%  Similarity=-0.043  Sum_probs=229.7

Q ss_pred             hhC-cHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCC-hhHH
Q 012804           19 KAN-RLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSL-LSCS   96 (456)
Q Consensus        19 ~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a   96 (456)
                      +.| +++.|..+|+.++..-  |.              |+++.+..+|++....  .|+...|...+....+.+. .+..
T Consensus         6 ~~~~~i~~aR~vyer~l~~~--P~--------------~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i   67 (493)
T 2uy1_A            6 KMGVELSSPSAIMEHARRLY--MS--------------KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKL   67 (493)
T ss_dssp             ------CCHHHHHHHHHHHH--HT--------------TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CT
T ss_pred             HcCcchHHHHHHHHHHHHHC--CC--------------CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHH
Confidence            345 3777888888877643  22              8899999999999875  5788899888887777663 4566


Q ss_pred             HHHHHHHHHC-CCC-CCHHhHHHHHHHHH----hcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHH
Q 012804           97 LDLLDEMLEM-GIP-PDVWSYNSLMHCLF----QLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMF  170 (456)
Q Consensus        97 ~~~~~~~~~~-~~~-~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  170 (456)
                      ..+|+..... |.. .+...|...+..+.    ..++.+.+.++|++.+......-...|...... ........+..++
T Consensus        68 ~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~f-E~~~~~~~~~~~~  146 (493)
T 2uy1_A           68 YEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENF-ELELNKITGKKIV  146 (493)
T ss_dssp             HHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHH-HHHHCHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHH-HHHhccccHHHHH
Confidence            7788877764 432 36677777776554    245688899999999874211111222222211 1111222232222


Q ss_pred             HHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcC-------chhHHHHHHHHH
Q 012804          171 RGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNR-------KYKLGLEILSAM  243 (456)
Q Consensus       171 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-------~~~~a~~~~~~~  243 (456)
                      .+..                     +.+..|..+++.+...-...+...|...+..-...+       ..+.+..+|+++
T Consensus       147 ~~~~---------------------~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~a  205 (493)
T 2uy1_A          147 GDTL---------------------PIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYI  205 (493)
T ss_dssp             HHHH---------------------HHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHh---------------------HHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHH
Confidence            2211                     122233333333221100013344544444322211       134567788888


Q ss_pred             HHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC------
Q 012804          244 KRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQG------  317 (456)
Q Consensus       244 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------  317 (456)
                      .... +.++..|...+..+.+.|+.+.|..+++.....  +.+...+.    .|....+.++.   ++.+.+.-      
T Consensus       206 l~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~~---~~~l~~~~~~~~~~  275 (493)
T 2uy1_A          206 LDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEAV---YGDLKRKYSMGEAE  275 (493)
T ss_dssp             HHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTHH---HHHHHHHTC-----
T ss_pred             HHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhHH---HHHHHHHHHhhccc
Confidence            8764 566778888888888999999999999999987  33433332    22222121222   22222110      


Q ss_pred             ------CCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC-CHHHHHHHHHHhccC---C
Q 012804          318 ------FECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDG-KIDHAINVFESMEVK---D  387 (456)
Q Consensus       318 ------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~---~  387 (456)
                            .......|...+....+.++.+.|..+|+.+ ... ..+..+|...+..-...+ +.+.|.++|+.....   +
T Consensus       276 ~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~  353 (493)
T 2uy1_A          276 SAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDS  353 (493)
T ss_dssp             -----CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTC
T ss_pred             hhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCC
Confidence                  0112245667777777788899999999999 322 235555554443333334 699999999988764   5


Q ss_pred             hhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHh
Q 012804          388 SFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       388 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      +..|...+....+.|+.+.|..+|+++.     .....|...+.--...|+.+.+++++++...
T Consensus       354 ~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          354 TLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            6667777887788999999999999972     2567788888877888999999998888765

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.31  E-value=2e-10  Score=95.90  Aligned_cols=104  Identities=9%  Similarity=-0.039  Sum_probs=77.0

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCC---HHhHHHHHHHHHccCChhHHHHHHHHHHhCCC-C-CCH
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPD---VVTYNMLIDAYCQFVSFDAGYTILNRMREAGI-S-PDV   77 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~-~~~   77 (456)
                      .+.++..+-.+...+.+.|++++|+..|+.+++..+. +   ...+..+..++.+.|++++|+..|+...+... . ...
T Consensus        11 ~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~   89 (261)
T 3qky_A           11 RHSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVP   89 (261)
T ss_dssp             CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHH
T ss_pred             CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhH
Confidence            4556777777788888888888888888888876543 3   56777788888888888888888888877531 1 124


Q ss_pred             hHHHHHHHHHHc--------CCChhHHHHHHHHHHHCC
Q 012804           78 VTYNSLIAGATR--------NSLLSCSLDLLDEMLEMG  107 (456)
Q Consensus        78 ~~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~  107 (456)
                      ..+..+..++..        .|++++|++.|+++.+..
T Consensus        90 ~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~  127 (261)
T 3qky_A           90 QAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY  127 (261)
T ss_dssp             HHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC
Confidence            456666777777        888888888888887754

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.31  E-value=1.6e-10  Score=96.53  Aligned_cols=190  Identities=8%  Similarity=-0.057  Sum_probs=116.2

Q ss_pred             CcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-c-CHH
Q 012804          249 TFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLD---IVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFE-C-DKY  323 (456)
Q Consensus       249 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~  323 (456)
                      +.+...+......+...|++++|...|+++++..+. +   ...+..+..+|...|++++|...|+...+.... | ...
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~   90 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQ   90 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHH
Confidence            345566667777888888888888888888876332 3   567777888888888888888888888875321 1 244


Q ss_pred             hHHHHHHHHHh--------cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCChhhHHHHH
Q 012804          324 THTILIDGLCK--------AGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMV  395 (456)
Q Consensus       324 ~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~  395 (456)
                      .+..+..++..        .|++++|...|+++++.. +.+......+..              +..........+..++
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~~~--------------~~~~~~~~~~~~~~la  155 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY-PNHELVDDATQK--------------IRELRAKLARKQYEAA  155 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC-TTCTTHHHHHHH--------------HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC-cCchhHHHHHHH--------------HHHHHHHHHHHHHHHH
Confidence            56677777777        888888888888887752 222222211110              0000000111234555


Q ss_pred             HHHHccCChhHHHHHHHHHHHcCCCC--CHHhHHHHHHHHHcc----------CChHHHHHHHHHHHhccc
Q 012804          396 HNLCKAKRLPSASKLLLSCLKSGVRI--LKSAQKAVVDGLRHS----------GCRREAKKIQSKIRMAKI  454 (456)
Q Consensus       396 ~~~~~~~~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~  454 (456)
                      ..|...|++++|+..|+++++..+..  ....+..++.++...          |++++|...++++.+..+
T Consensus       156 ~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p  226 (261)
T 3qky_A          156 RLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFP  226 (261)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCC
Confidence            66666666666666666666553221  233455555555544          566666666666655443

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.28  E-value=3.3e-10  Score=83.75  Aligned_cols=125  Identities=15%  Similarity=0.077  Sum_probs=61.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCCh
Q 012804          328 LIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRL  404 (456)
Q Consensus       328 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~  404 (456)
                      +...+...|++++|..+++.+.+.. +.+...+..++..+...|++++|...++++...   +...+..++..+...|++
T Consensus         7 l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   85 (136)
T 2fo7_A            7 LGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDY   85 (136)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCH
T ss_pred             HHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHhcCH
Confidence            3334444444444444444443332 223334444444444444444444444443322   333444555555555666


Q ss_pred             hHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhccc
Q 012804          405 PSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKI  454 (456)
Q Consensus       405 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  454 (456)
                      ++|.+.++++.+..+ .+...+..++.++...|++++|...++++.+..+
T Consensus        86 ~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~  134 (136)
T 2fo7_A           86 DEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP  134 (136)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHhCC-CChHHHHHHHHHHHHHccHHHHHHHHHHHHccCC
Confidence            666666665555432 2455555566666666666666666666555443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.28  E-value=5.9e-10  Score=90.59  Aligned_cols=189  Identities=10%  Similarity=-0.025  Sum_probs=125.1

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCcc--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCH--HhHHH
Q 012804          252 GFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQL--DIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDK--YTHTI  327 (456)
Q Consensus       252 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~  327 (456)
                      ...+......+...|++++|...|+++++..+..  ....+..+..+|.+.|++++|...|+++.+..+....  ..+..
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            3445556677888899999999999988753321  2356777888899999999999999998875332111  24445


Q ss_pred             HHHHHHh------------------cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCChh
Q 012804          328 LIDGLCK------------------AGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSF  389 (456)
Q Consensus       328 l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  389 (456)
                      +..++..                  .|++++|...|+++++.. |.+..........              ..+......
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-P~~~~a~~a~~~l--------------~~~~~~~~~  148 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY-PNSQYTTDATKRL--------------VFLKDRLAK  148 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC-TTCTTHHHHHHHH--------------HHHHHHHHH
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC-cCChhHHHHHHHH--------------HHHHHHHHH
Confidence            5555543                  456677777777766642 2222222111110              000000011


Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHHcCCCCC--HHhHHHHHHHHHccCChHHHHHHHHHHHhcccC
Q 012804          390 TYSSMVHNLCKAKRLPSASKLLLSCLKSGVRIL--KSAQKAVVDGLRHSGCRREAKKIQSKIRMAKIS  455 (456)
Q Consensus       390 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  455 (456)
                      ....++..|.+.|++++|+..|+++++..+...  ...+..++.++.+.|++++|...++++....+.
T Consensus       149 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~  216 (225)
T 2yhc_A          149 YEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSN  216 (225)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC
Confidence            224567788899999999999999998743311  256888999999999999999999999887654

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.27  E-value=1.2e-10  Score=110.85  Aligned_cols=171  Identities=9%  Similarity=-0.084  Sum_probs=101.1

Q ss_pred             HhhCcHHHHHHHHHHHH--------hcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHc
Q 012804           18 CKANRLEKAEAIIIDGI--------RLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATR   89 (456)
Q Consensus        18 ~~~g~~~~A~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   89 (456)
                      ...|++++|++.++++.        +..+ .+...+..+..++...|++++|++.|+++.+.+ +.+...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p-~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFS-ESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCT-TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccc-cchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            55666666666666666        3332 245556666666666666666666666666543 2345566666666666


Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHH
Q 012804           90 NSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRM  169 (456)
Q Consensus        90 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  169 (456)
                      .|++++|++.|++..+.... +...+..+..++.+.|++++ .+.|++..+.+ +.+...|..+..++.+.|++++|++.
T Consensus       480 ~g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            66666666666666665422 45556666666666666666 66666666554 44555666666666666666666666


Q ss_pred             HHHHHhCCCCCcHHHHHHHHHHHHH
Q 012804          170 FRGLQKHGFVPELVTYNILIKGLCK  194 (456)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~l~~~~~~  194 (456)
                      |++..+.+ +.+...+..+..++..
T Consensus       557 ~~~al~l~-P~~~~a~~~~~~~~~~  580 (681)
T 2pzi_A          557 LDEVPPTS-RHFTTARLTSAVTLLS  580 (681)
T ss_dssp             HHTSCTTS-TTHHHHHHHHHHHTC-
T ss_pred             HHhhcccC-cccHHHHHHHHHHHHc
Confidence            66665542 1134445445555444

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.27  E-value=5.9e-10  Score=89.32  Aligned_cols=134  Identities=15%  Similarity=0.055  Sum_probs=100.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC
Q 012804          292 TLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDG  371 (456)
Q Consensus       292 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  371 (456)
                      .+..+|...|++++|...+++..+..+ -+...+..+...+...|++++|...|+++++.. |.+...+..+..+|...|
T Consensus        59 ~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~  136 (208)
T 3urz_A           59 ELALAYKKNRNYDKAYLFYKELLQKAP-NNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTA  136 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHh
Confidence            388888999999999999999988643 367788889999999999999999999998874 667888888888876655


Q ss_pred             C--HHHHHHHHHHhccCChh--hHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHH
Q 012804          372 K--IDHAINVFESMEVKDSF--TYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAV  429 (456)
Q Consensus       372 ~--~~~a~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l  429 (456)
                      .  ...+...+..+...++.  .+.....++...|++++|+..|+++++.  .|+......+
T Consensus       137 ~~~~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~~l  196 (208)
T 3urz_A          137 EQEKKKLETDYKKLSSPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQKTL  196 (208)
T ss_dssp             HHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHHHH
Confidence            4  44566666666655433  3455667777889999999999999855  5665544433

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.27  E-value=4.1e-10  Score=90.20  Aligned_cols=190  Identities=12%  Similarity=-0.015  Sum_probs=96.8

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIA   85 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   85 (456)
                      ++..+......+...|++++|+..|+.+++..+. +...|...     .....              ..........+..
T Consensus         3 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~-----~~~~~--------------~~~~~~~~~~lg~   62 (208)
T 3urz_A            3 SVDEMLQKVSAAIEAGQNGQAVSYFRQTIALNID-RTEMYYWT-----NVDKN--------------SEISSKLATELAL   62 (208)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHH-HHHHHHHH-----HSCTT--------------SHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHh-----hhcch--------------hhhhHHHHHHHHH
Confidence            3444555666778889999999999988876532 33344330     00000              0001112233555


Q ss_pred             HHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCC--h
Q 012804           86 GATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRY--T  163 (456)
Q Consensus        86 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~  163 (456)
                      ++.+.|++++|+..|++..+..+. +...+..+..++...|++++|...|++.++.. |.+..++..+..++...|.  .
T Consensus        63 ~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~  140 (208)
T 3urz_A           63 AYKKNRNYDKAYLFYKELLQKAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEK  140 (208)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHH
Confidence            555666666666666666554322 45555566666666666666666666665554 4445555555555544332  2


Q ss_pred             HHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHH
Q 012804          164 DNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYT  221 (456)
Q Consensus       164 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  221 (456)
                      +.+...++....  ..|....+.....++...|++++|...|++..+.  .|+.....
T Consensus       141 ~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~  194 (208)
T 3urz_A          141 KKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQK  194 (208)
T ss_dssp             HHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHH
T ss_pred             HHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHH
Confidence            333444444322  1222223333444455556666666666666553  34444333

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.25  E-value=4e-11  Score=90.45  Aligned_cols=143  Identities=10%  Similarity=-0.016  Sum_probs=105.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC
Q 012804          293 LINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGK  372 (456)
Q Consensus       293 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  372 (456)
                      |...+...|++++|+..++...... +-+...+..+...|...|++++|+..|+++++.. +.+...|..+..+|...|+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCc
Confidence            3445556677888888887776542 1134456677888888888888888888888764 5677888888888888888


Q ss_pred             HHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHH-HHHHHHcCCCCCHHhHHHHHHHHHccCC
Q 012804          373 IDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKL-LLSCLKSGVRILKSAQKAVVDGLRHSGC  438 (456)
Q Consensus       373 ~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~g~  438 (456)
                      +++|+..|+++.+.   ++.+|..++.+|.+.|++++|.+. ++++++..+. ++.++......+...|+
T Consensus        81 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~-~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPG-SPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTCCC
T ss_pred             hHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhCc
Confidence            88888888887765   667888888888888888876665 5888877543 67777777777777775

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.24  E-value=7.9e-10  Score=81.63  Aligned_cols=131  Identities=13%  Similarity=0.139  Sum_probs=97.2

Q ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHH
Q 012804            8 RLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGA   87 (456)
Q Consensus         8 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   87 (456)
                      ..|..+...+...|++++|..+++++.+.++ .+...+..+...+...|++++|...++++.+.+ +.+...+..+...+
T Consensus         2 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            2 EAWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHcCcHHHHHHHHHHHHHcCC-cchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHH
Confidence            3567778888888888888888888887654 366677778888888888888888888877654 33566677777777


Q ss_pred             HcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 012804           88 TRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICG  141 (456)
Q Consensus        88 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  141 (456)
                      ...|++++|.+.++++..... .+...+..+...+...|++++|.+.++++...
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            888888888888887776542 25566667777777777777777777776643

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.23  E-value=1.2e-08  Score=85.70  Aligned_cols=214  Identities=7%  Similarity=-0.097  Sum_probs=126.1

Q ss_pred             HHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcC--chhHHHHHHHHHHHcCCCcChhhHHHHHHHH----HHc---CCh
Q 012804          198 LRTARWILKELGDSGHAPNAITYTTIMKCCFRNR--KYKLGLEILSAMKRKGYTFDGFGYCTVIAAF----VKI---GRL  268 (456)
Q Consensus       198 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~~~  268 (456)
                      .++|+..++.+...++. ....|+.--.++...+  ++++++.+++.+.... |.+..+++.-...+    ...   +++
T Consensus        49 s~~aL~~t~~~L~~nP~-~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~~~  126 (306)
T 3dra_A           49 SERALHITELGINELAS-HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDFDP  126 (306)
T ss_dssp             SHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCCCT
T ss_pred             CHHHHHHHHHHHHHCcH-HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccCCH
Confidence            35677777766664332 4445555555555556  6777777777776654 44445554443333    334   566


Q ss_pred             HHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHH--HHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCC------HHH
Q 012804          269 KEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLE--AAYLLLDEMEKQGFECDKYTHTILIDGLCKAGN------IKG  340 (456)
Q Consensus       269 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~  340 (456)
                      +++..+++.+.+.+++ +..+|+--...+.+.|.++  ++++.++.+.+.++. +...|+.-...+...+.      +++
T Consensus       127 ~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~e  204 (306)
T 3dra_A          127 YREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDE  204 (306)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHH
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHH
Confidence            6777777777665433 6666666666666666666  667777776665433 55556555555555554      666


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHH-HHHHHHHhccC------ChhhHHHHHHHHHccCChhHHHHHHHH
Q 012804          341 ARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDH-AINVFESMEVK------DSFTYSSMVHNLCKAKRLPSASKLLLS  413 (456)
Q Consensus       341 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~A~~~~~~  413 (456)
                      +++.++.++... +.|...|+.+...+.+.|+..+ +..+..++...      ++..+..++.++.+.|+.++|+++++.
T Consensus       205 El~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~  283 (306)
T 3dra_A          205 ELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDL  283 (306)
T ss_dssp             HHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Confidence            666666666553 5566666666666666666333 33444444321      455666666666666666667766666


Q ss_pred             HHH
Q 012804          414 CLK  416 (456)
Q Consensus       414 ~~~  416 (456)
                      +.+
T Consensus       284 l~~  286 (306)
T 3dra_A          284 LKS  286 (306)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            654

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.23  E-value=4e-10  Score=107.29  Aligned_cols=171  Identities=11%  Similarity=-0.031  Sum_probs=142.7

Q ss_pred             HhcCchhHHHHHHHHHH--------HcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHh
Q 012804          228 FRNRKYKLGLEILSAMK--------RKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCK  299 (456)
Q Consensus       228 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  299 (456)
                      ...|++++|++.++++.        +.. +.+...+..+..++...|++++|...++++.+.+.. +...+..+..+|..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHH
Confidence            77899999999999998        443 556677888889999999999999999999986433 77889999999999


Q ss_pred             cCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHH
Q 012804          300 EGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINV  379 (456)
Q Consensus       300 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  379 (456)
                      .|++++|...|++..+.... +...+..+..++...|++++ ...|+++.+.. +.+...+..+..++.+.|++++|++.
T Consensus       480 ~g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999999886432 67788899999999999999 99999998874 66788999999999999999999999


Q ss_pred             HHHhccC---ChhhHHHHHHHHHccCC
Q 012804          380 FESMEVK---DSFTYSSMVHNLCKAKR  403 (456)
Q Consensus       380 ~~~~~~~---~~~~~~~l~~~~~~~~~  403 (456)
                      |+++.+.   +...+..++.++...++
T Consensus       557 ~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HHhhcccCcccHHHHHHHHHHHHccCC
Confidence            9998876   45677777888766555

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.22  E-value=4.4e-09  Score=84.41  Aligned_cols=157  Identities=13%  Similarity=0.039  Sum_probs=70.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcC----CHHHHHHHHHHHHhCCCCCCHHHHH
Q 012804          286 DIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAG----NIKGARLHLEYMNKIGFDSNLEAYN  361 (456)
Q Consensus       286 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~  361 (456)
                      ++..+..+...|...+++++|...|++..+.|   +...+..+...|.. +    ++++|..+|++..+.+   +...+.
T Consensus        17 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~   89 (212)
T 3rjv_A           17 DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEI   89 (212)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            33444444444444455555555554444432   23334444444433 3    4455555555544432   334444


Q ss_pred             HHHHHHHh----CCCHHHHHHHHHHhccC-C----hhhHHHHHHHHHc----cCChhHHHHHHHHHHHcCCCCCHHhHHH
Q 012804          362 CIVDRLGK----DGKIDHAINVFESMEVK-D----SFTYSSMVHNLCK----AKRLPSASKLLLSCLKSGVRILKSAQKA  428 (456)
Q Consensus       362 ~l~~~~~~----~g~~~~a~~~~~~~~~~-~----~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~  428 (456)
                      .|...|..    .+++++|.+.|+++... +    +.++..|...|..    .+++++|+..|++..+.  ..++..+..
T Consensus        90 ~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~--~~~~~a~~~  167 (212)
T 3rjv_A           90 VLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL--SRTGYAEYW  167 (212)
T ss_dssp             HHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT--SCTTHHHHH
T ss_pred             HHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc--CCCHHHHHH
Confidence            44444444    44555555555554444 2    3444455555544    44555555555555443  112333444


Q ss_pred             HHHHHHcc-C-----ChHHHHHHHHHHHh
Q 012804          429 VVDGLRHS-G-----CRREAKKIQSKIRM  451 (456)
Q Consensus       429 l~~~~~~~-g-----~~~~A~~~~~~~~~  451 (456)
                      ++..|..- |     +.++|..+|++..+
T Consensus       168 Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~  196 (212)
T 3rjv_A          168 AGMMFQQGEKGFIEPNKQKALHWLNVSCL  196 (212)
T ss_dssp             HHHHHHHCBTTTBCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCCCCCCCHHHHHHHHHHHHH
Confidence            44444321 2     45555555554443

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.21  E-value=2.6e-10  Score=88.77  Aligned_cols=164  Identities=12%  Similarity=-0.016  Sum_probs=117.6

Q ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHH-
Q 012804            8 RLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAG-   86 (456)
Q Consensus         8 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-   86 (456)
                      ..+..+...+.+.|++++|+..|+++++..+. +...+..+..++...|++++|+..++.+.+..  |+...+..+... 
T Consensus         7 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~   83 (176)
T 2r5s_A            7 EQLLKQVSELLQQGEHAQALNVIQTLSDELQS-RGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLE   83 (176)
T ss_dssp             TTHHHHHHHHHHTTCHHHHHHHHHTSCHHHHT-SHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHH
Confidence            45566777888899999999999988876643 67788888889999999999999998877653  344333322212 


Q ss_pred             HHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC-ChhHHHHHHHHHHhcCChHH
Q 012804           87 ATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTP-CTATFNIMLNGLCKNRYTDN  165 (456)
Q Consensus        87 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~  165 (456)
                      +...+....+.+.+++..+..+. +...+..+..++...|++++|...|+++.+....+ +...+..+...+...|+.++
T Consensus        84 ~~~~~~~~~a~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~  162 (176)
T 2r5s_A           84 LHQQAAESPELKRLEQELAANPD-NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNA  162 (176)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCH
T ss_pred             HHhhcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCc
Confidence            12223334567778887775432 57777888888888888888888888888765322 34577788888888888888


Q ss_pred             HHHHHHHHHh
Q 012804          166 ALRMFRGLQK  175 (456)
Q Consensus       166 a~~~~~~~~~  175 (456)
                      |...|++...
T Consensus       163 A~~~y~~al~  172 (176)
T 2r5s_A          163 IASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8888876543

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.21  E-value=6.4e-10  Score=93.98  Aligned_cols=165  Identities=9%  Similarity=-0.038  Sum_probs=102.5

Q ss_pred             CHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHH-HHH
Q 012804           41 DVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYN-SLM  119 (456)
Q Consensus        41 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~  119 (456)
                      +...+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|.+.++++....  |+..... ...
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~~  192 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVAQ  192 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHHH
Confidence            44455566666667777777777777766653 2345566666777777777777777777665543  3332222 222


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-CcHHHHHHHHHHHHHcCCH
Q 012804          120 HCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFV-PELVTYNILIKGLCKAGRL  198 (456)
Q Consensus       120 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~  198 (456)
                      ..+...++.+.|.+.+++..... +.+...+..+...+...|++++|+..|+++.+.... .+...+..++..+...|+.
T Consensus       193 ~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~  271 (287)
T 3qou_A          193 IELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTG  271 (287)
T ss_dssp             HHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTT
T ss_pred             HHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCC
Confidence            23555666666777777766654 555666777777777777777777777776665221 1245666677777777777


Q ss_pred             HHHHHHHHHHh
Q 012804          199 RTARWILKELG  209 (456)
Q Consensus       199 ~~a~~~~~~~~  209 (456)
                      ++|...+++..
T Consensus       272 ~~a~~~~r~al  282 (287)
T 3qou_A          272 DALASXYRRQL  282 (287)
T ss_dssp             CHHHHHHHHHH
T ss_pred             CcHHHHHHHHH
Confidence            77766666543

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.21  E-value=1.4e-10  Score=87.42  Aligned_cols=146  Identities=8%  Similarity=-0.087  Sum_probs=95.5

Q ss_pred             HHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCC
Q 012804           13 CVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSL   92 (456)
Q Consensus        13 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   92 (456)
                      |...+...|++++|+..++......+ .+...+..+..+|.+.|++++|++.|++..+.. +-+..+|..+..++...|+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~p-~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSPR-QKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSHH-HHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCc
Confidence            34455667778888888777765432 234456667777778888888888888777664 3356777777777777888


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHH-HHHHHhCCCCCChhHHHHHHHHHHhcCC
Q 012804           93 LSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRV-FQDMICGDLTPCTATFNIMLNGLCKNRY  162 (456)
Q Consensus        93 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~  162 (456)
                      +++|+..|++..+..+. +..++..+..+|.+.|+++++.+. +++..+.. |.++.+|......+...|+
T Consensus        81 ~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPT-QKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCCC
T ss_pred             hHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCc
Confidence            88888887777775433 566777777777777777665554 46666554 4455666665555555543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.18  E-value=1.3e-07  Score=79.54  Aligned_cols=217  Identities=8%  Similarity=-0.010  Sum_probs=110.7

Q ss_pred             HHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcC--CHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH----Hhc---Cchh
Q 012804          164 DNALRMFRGLQKHGFVPELVTYNILIKGLCKAG--RLRTARWILKELGDSGHAPNAITYTTIMKCC----FRN---RKYK  234 (456)
Q Consensus       164 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~~~~  234 (456)
                      ++|+.+++.++..+ +-+...|+.--.++...+  ++++++..++.+...++. +..+|+.-...+    ...   ++++
T Consensus        50 ~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~~~  127 (306)
T 3dra_A           50 ERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFDPY  127 (306)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCCTH
T ss_pred             HHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCCHH
Confidence            45666666655542 223444555555555555  566666666665554332 333333322222    223   4555


Q ss_pred             HHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChH--HHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCC------HHHH
Q 012804          235 LGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLK--EATDYMEQMVTDGVQLDIVSYNTLINLYCKEGK------LEAA  306 (456)
Q Consensus       235 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~a  306 (456)
                      +++.+++.+.+.. +.+..++..-.-++.+.|.++  ++.+.++++++.++. |...|+.-...+...+.      ++++
T Consensus       128 ~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~eE  205 (306)
T 3dra_A          128 REFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDEE  205 (306)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHHH
Confidence            6666666666554 445555555555555555555  566666666655443 55555555555544444      5556


Q ss_pred             HHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCH-HHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHh
Q 012804          307 YLLLDEMEKQGFECDKYTHTILIDGLCKAGNI-KGARLHLEYMNKIG--FDSNLEAYNCIVDRLGKDGKIDHAINVFESM  383 (456)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  383 (456)
                      ++.++.+....+. |...|+.+...+.+.|+. +.+..+...+...+  -+.+...+..++..+.+.|+.++|.++++.+
T Consensus       206 l~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l  284 (306)
T 3dra_A          206 LNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLL  284 (306)
T ss_dssp             HHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            6666655554322 455555555555555543 22334444443321  1234455555556666666666666666655


Q ss_pred             cc
Q 012804          384 EV  385 (456)
Q Consensus       384 ~~  385 (456)
                      ..
T Consensus       285 ~~  286 (306)
T 3dra_A          285 KS  286 (306)
T ss_dssp             HH
T ss_pred             Hh
Confidence            54

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.18  E-value=4.5e-09  Score=84.35  Aligned_cols=176  Identities=13%  Similarity=0.004  Sum_probs=111.8

Q ss_pred             HHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCC----ChhHHHHHH
Q 012804           25 KAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNS----LLSCSLDLL  100 (456)
Q Consensus        25 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~  100 (456)
                      +|++.|+...+.|   ++.++..+...+...+++++|+++|++..+.|   ++..+..+...|.. +    ++++|.+.|
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            4666777776653   56667777777777777777777777777654   55666666666666 5    677777777


Q ss_pred             HHHHHCCCCCCHHhHHHHHHHHHh----cCChhHHHHHHHHHHhCCCC-CChhHHHHHHHHHHh----cCChHHHHHHHH
Q 012804          101 DEMLEMGIPPDVWSYNSLMHCLFQ----LGKPDEANRVFQDMICGDLT-PCTATFNIMLNGLCK----NRYTDNALRMFR  171 (456)
Q Consensus       101 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~  171 (456)
                      ++..+.|   +...+..|...|..    .+++++|++.|++..+.+.. ..+..+..|...|..    .+++++|+.+|+
T Consensus        77 ~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  153 (212)
T 3rjv_A           77 EKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFK  153 (212)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            7776654   55566666666665    66777777777777665411 124566666666666    566777777777


Q ss_pred             HHHhCCCCCcHHHHHHHHHHHHHc-C-----CHHHHHHHHHHHhhCC
Q 012804          172 GLQKHGFVPELVTYNILIKGLCKA-G-----RLRTARWILKELGDSG  212 (456)
Q Consensus       172 ~~~~~~~~~~~~~~~~l~~~~~~~-~-----~~~~a~~~~~~~~~~~  212 (456)
                      +..+.  +.+...+..|..+|... |     ++++|..+|+...+.|
T Consensus       154 ~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          154 GSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            76665  12333455555555432 2     6666666666665544

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.18  E-value=4.4e-09  Score=85.38  Aligned_cols=187  Identities=5%  Similarity=-0.097  Sum_probs=121.7

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCC--HHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCH---hHH
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPD--VVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDV---VTY   80 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~   80 (456)
                      ++..+..+...+.+.|++++|+..|+.+++..+...  ...+..+..++.+.|++++|+..|+++.+.... +.   ..+
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~-~~~~~~a~   81 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPT-HPNIDYVM   81 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTTHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcC-CCcHHHHH
Confidence            455667778889999999999999999998764322  357888899999999999999999999876422 22   234


Q ss_pred             HHHHHHHHc------------------CCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 012804           81 NSLIAGATR------------------NSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGD  142 (456)
Q Consensus        81 ~~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  142 (456)
                      ..+..++..                  .|++++|...|+++.+..+. +...+......          ..+...+    
T Consensus        82 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~-~~~a~~a~~~l----------~~~~~~~----  146 (225)
T 2yhc_A           82 YMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPN-SQYTTDATKRL----------VFLKDRL----  146 (225)
T ss_dssp             HHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTT-CTTHHHHHHHH----------HHHHHHH----
T ss_pred             HHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcC-ChhHHHHHHHH----------HHHHHHH----
Confidence            444444433                  34556666666666554211 11111111000          0000000    


Q ss_pred             CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCc---HHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCC
Q 012804          143 LTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPE---LVTYNILIKGLCKAGRLRTARWILKELGDSGH  213 (456)
Q Consensus       143 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  213 (456)
                          ......+...+.+.|++++|+..|+++.+.. +.+   ...+..+..++.+.|++++|...++.+...++
T Consensus       147 ----~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~  215 (225)
T 2yhc_A          147 ----AKYEYSVAEYYTERGAWVAVVNRVEGMLRDY-PDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSS  215 (225)
T ss_dssp             ----HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCS
T ss_pred             ----HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHC-cCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCC
Confidence                0111345677888999999999999888762 212   24677788889999999999999988877543

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.17  E-value=9.3e-10  Score=102.96  Aligned_cols=161  Identities=11%  Similarity=0.014  Sum_probs=121.5

Q ss_pred             cCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHH
Q 012804          265 IGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLH  344 (456)
Q Consensus       265 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  344 (456)
                      .|++++|...+++..+.... +...+..+...+...|++++|...+++..+... .+...+..+...+...|++++|...
T Consensus         2 ~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQ-DFVAWLMLADAELGMGDTTAGEMAVQRGLALHP-GHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTST-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            47889999999999876433 678899999999999999999999999988643 3678899999999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHcc---CChhHHHHHHHHHHHcC
Q 012804          345 LEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKA---KRLPSASKLLLSCLKSG  418 (456)
Q Consensus       345 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~---~~~~~A~~~~~~~~~~~  418 (456)
                      ++++.+.. +.+...+..+..++.+.|++++|.+.++++.+.   +...+..++.++...   |++++|.+.++++++.+
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            99998874 667889999999999999999999999988765   677888999999999   99999999999999886


Q ss_pred             CCCCHHhHHHH
Q 012804          419 VRILKSAQKAV  429 (456)
Q Consensus       419 ~~~~~~~~~~l  429 (456)
                      +. +...+..+
T Consensus       159 p~-~~~~~~~l  168 (568)
T 2vsy_A          159 VG-AVEPFAFL  168 (568)
T ss_dssp             CC-CSCHHHHT
T ss_pred             Cc-ccChHHHh
Confidence            44 33344333

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.16  E-value=1.7e-09  Score=91.37  Aligned_cols=157  Identities=10%  Similarity=-0.033  Sum_probs=69.3

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHH-HHHHHH
Q 012804          254 GYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHT-ILIDGL  332 (456)
Q Consensus       254 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~  332 (456)
                      .+..+...+...|++++|...++++....+. +...+..+...+...|++++|...++++...  .|+..... .....+
T Consensus       119 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~~~l  195 (287)
T 3qou_A          119 LXAQQAMQLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQIEL  195 (287)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHHHHH
Confidence            3334444444555555555555555444222 3444444555555555555555555544433  12222111 111123


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC-----ChhhHHHHHHHHHccCChhHH
Q 012804          333 CKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK-----DSFTYSSMVHNLCKAKRLPSA  407 (456)
Q Consensus       333 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~A  407 (456)
                      ...++.+.|...+++..... +.+...+..+...+...|++++|...|.++...     +...+..++..+...|+.++|
T Consensus       196 ~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a  274 (287)
T 3qou_A          196 LXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDAL  274 (287)
T ss_dssp             HHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHH
T ss_pred             HhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcH
Confidence            33444444444454444432 334444444444444455555544444444432     133344444444444444444


Q ss_pred             HHHHHHH
Q 012804          408 SKLLLSC  414 (456)
Q Consensus       408 ~~~~~~~  414 (456)
                      ...+++.
T Consensus       275 ~~~~r~a  281 (287)
T 3qou_A          275 ASXYRRQ  281 (287)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.14  E-value=1.2e-09  Score=84.89  Aligned_cols=57  Identities=11%  Similarity=0.060  Sum_probs=27.6

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012804          258 VIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEK  315 (456)
Q Consensus       258 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  315 (456)
                      ....+...|++++|...+++..+..+ .+...+..+...+...|++++|...++....
T Consensus        12 ~a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~   68 (176)
T 2r5s_A           12 QVSELLQQGEHAQALNVIQTLSDELQ-SRGDVKLAKADCLLETKQFELAQELLATIPL   68 (176)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSCHHHH-TSHHHHHHHHHHHHHTTCHHHHHHHHTTCCG
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHhhh
Confidence            33444455555555555555444321 1344445555555555555555555555443

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.12  E-value=2e-09  Score=92.04  Aligned_cols=159  Identities=9%  Similarity=-0.042  Sum_probs=72.5

Q ss_pred             HHHHhcCchhHHHHHHHHHHHcCCC-----cChhhHHHHHHHHHHcCChHHHHHHHHHHHHC----CCc-cCHHHHHHHH
Q 012804          225 KCCFRNRKYKLGLEILSAMKRKGYT-----FDGFGYCTVIAAFVKIGRLKEATDYMEQMVTD----GVQ-LDIVSYNTLI  294 (456)
Q Consensus       225 ~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~  294 (456)
                      ..|...|++++|...+.+..+....     .-..++..+..+|...|++++|...+++.+..    +-. ....++..+.
T Consensus        44 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  123 (307)
T 2ifu_A           44 VAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAG  123 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3455566666666666655433100     01234455555555556666666666555432    100 0123444455


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCc-----CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHH
Q 012804          295 NLYCKEGKLEAAYLLLDEMEKQGFEC-----DKYTHTILIDGLCKAGNIKGARLHLEYMNKI----GFDSN-LEAYNCIV  364 (456)
Q Consensus       295 ~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~  364 (456)
                      ..|.. |++++|+..+++..+.....     ...++..+...+...|++++|+..++++.+.    +..+. ...+..++
T Consensus       124 ~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g  202 (307)
T 2ifu_A          124 KLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQV  202 (307)
T ss_dssp             HHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHH
Confidence            55554 55555555555544321000     0234444555555555555555555554432    10000 11333334


Q ss_pred             HHHHhCCCHHHHHHHHHHhc
Q 012804          365 DRLGKDGKIDHAINVFESME  384 (456)
Q Consensus       365 ~~~~~~g~~~~a~~~~~~~~  384 (456)
                      .++...|++++|...|++..
T Consensus       203 ~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          203 LVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHcCCHHHHHHHHHHHh
Confidence            44444455555555555544

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.12  E-value=3.3e-09  Score=99.23  Aligned_cols=153  Identities=11%  Similarity=-0.014  Sum_probs=118.7

Q ss_pred             cCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHH
Q 012804          230 NRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLL  309 (456)
Q Consensus       230 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  309 (456)
                      .|++++|...++++.+.. +.+...+..+...+...|++++|...+++..+.... +...+..+..+|...|++++|...
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPG-HPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHH
Confidence            478899999999998775 556788889999999999999999999999987443 688899999999999999999999


Q ss_pred             HHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhC---CCHHHHHHHHHHhccC
Q 012804          310 LDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKD---GKIDHAINVFESMEVK  386 (456)
Q Consensus       310 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~  386 (456)
                      +++..+... .+...+..+...+...|++++|...++++.+.. +.+...+..+..++...   |+.++|.+.++++...
T Consensus        80 ~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAAP-EHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            999988643 367889999999999999999999999998874 56688899999999999   9999999999988776

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.10  E-value=1.8e-09  Score=92.34  Aligned_cols=221  Identities=10%  Similarity=-0.033  Sum_probs=157.8

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHh-cCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHH
Q 012804          195 AGRLRTARWILKELGDSGHAPNAITYTTIMKCCFR-NRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATD  273 (456)
Q Consensus       195 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  273 (456)
                      .|++++|.+++++..+....           .+.. .++++.|...|..+               ...|...|++++|..
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~-----------~~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKT-----------SFMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCC-----------CSSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHccc-----------cccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            46777888888776653111           0222 56777777776654               456778899999999


Q ss_pred             HHHHHHHCCC-----ccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC---Cc--CHHhHHHHHHHHHhcCCHHHHHH
Q 012804          274 YMEQMVTDGV-----QLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGF---EC--DKYTHTILIDGLCKAGNIKGARL  343 (456)
Q Consensus       274 ~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a~~  343 (456)
                      .+.+......     ..-..++..+...|...|++++|...+++..+...   .+  ...++..+...|.. |++++|+.
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            9988876411     11245788889999999999999999998765311   11  23577788888888 99999999


Q ss_pred             HHHHHHhCCC---CC--CHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---C------hhhHHHHHHHHHccCChhHHHH
Q 012804          344 HLEYMNKIGF---DS--NLEAYNCIVDRLGKDGKIDHAINVFESMEVK---D------SFTYSSMVHNLCKAKRLPSASK  409 (456)
Q Consensus       344 ~~~~~~~~~~---~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~------~~~~~~l~~~~~~~~~~~~A~~  409 (456)
                      .+++..+...   .+  ...++..+...+.+.|++++|++.|+++...   +      ...+..++.++...|++++|..
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            9999875410   11  1467888899999999999999999988764   1      2356677788888999999999


Q ss_pred             HHHHHHHcCCCC-CHH---hHHHHHHHHHccCChHHHHH
Q 012804          410 LLLSCLKSGVRI-LKS---AQKAVVDGLRHSGCRREAKK  444 (456)
Q Consensus       410 ~~~~~~~~~~~~-~~~---~~~~l~~~~~~~g~~~~A~~  444 (456)
                      .|++.+ ..+.. +..   .+..++.++ ..|+.+.+..
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            999998 53221 221   244455555 5778776666

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.08  E-value=4.8e-09  Score=76.15  Aligned_cols=104  Identities=9%  Similarity=0.003  Sum_probs=73.8

Q ss_pred             CCCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHH
Q 012804            2 FGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYN   81 (456)
Q Consensus         2 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   81 (456)
                      ++|-.+..+......|.+.|++++|++.|+++++..+. +...|..+..++.+.|++++|++.|++..+.+ +.+...|.
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~   85 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPE-NAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYI   85 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHH
Confidence            44555666777777777777777777777777776643 66677777777777777777777777777653 33566677


Q ss_pred             HHHHHHHcCCChhHHHHHHHHHHHCC
Q 012804           82 SLIAGATRNSLLSCSLDLLDEMLEMG  107 (456)
Q Consensus        82 ~l~~~~~~~~~~~~a~~~~~~~~~~~  107 (456)
                      .+..++...|++++|++.|++..+..
T Consensus        86 ~lg~~~~~~~~~~~A~~~~~~al~l~  111 (126)
T 4gco_A           86 RKAACLVAMREWSKAQRAYEDALQVD  111 (126)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            77777777777777777777777654

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=99.03  E-value=1e-07  Score=80.85  Aligned_cols=159  Identities=14%  Similarity=0.095  Sum_probs=105.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCC-CcCHH----hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC----HHHHHH
Q 012804          293 LINLYCKEGKLEAAYLLLDEMEKQGF-ECDKY----THTILIDGLCKAGNIKGARLHLEYMNKIGFD-SN----LEAYNC  362 (456)
Q Consensus       293 l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~  362 (456)
                      .+..+...|++++|..++++..+... .|+..    .+..+...+...+++++|...++++.+.... ++    ..+++.
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            35566777788888877777765321 12211    2223555556667778888888877763211 12    235777


Q ss_pred             HHHHHHhCCCHHHHHHHHHHhccC----------ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC----CCCC-HHhHH
Q 012804          363 IVDRLGKDGKIDHAINVFESMEVK----------DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSG----VRIL-KSAQK  427 (456)
Q Consensus       363 l~~~~~~~g~~~~a~~~~~~~~~~----------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~----~~~~-~~~~~  427 (456)
                      ++.+|...|++++|...|+++...          ...++..++.+|.+.|++++|++.++++++..    ..+. ..++.
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            777788888888888888776631          23467778888888888888888888876542    1111 56777


Q ss_pred             HHHHHHHccCC-hHHHHHHHHHHHh
Q 012804          428 AVVDGLRHSGC-RREAKKIQSKIRM  451 (456)
Q Consensus       428 ~l~~~~~~~g~-~~~A~~~~~~~~~  451 (456)
                      .++.++.+.|+ +++|...+++...
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            88888888884 5888888877654

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.03  E-value=2.2e-09  Score=80.37  Aligned_cols=97  Identities=8%  Similarity=-0.002  Sum_probs=79.6

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHH
Q 012804          321 DKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHN  397 (456)
Q Consensus       321 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~  397 (456)
                      +...+..+...+...|++++|...|+++.... |.+...|..+..++...|++++|+..|+++...   ++..|..++.+
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~  113 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHH
Confidence            34567777788888888999999888888764 667888888888888888888888888887665   67788888888


Q ss_pred             HHccCChhHHHHHHHHHHHcC
Q 012804          398 LCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       398 ~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      |...|++++|++.|+++++..
T Consensus       114 ~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHcCCHHHHHHHHHHHHHhC
Confidence            888888888888888888764

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.02  E-value=1.2e-08  Score=74.07  Aligned_cols=107  Identities=15%  Similarity=0.040  Sum_probs=72.3

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHH
Q 012804          323 YTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLC  399 (456)
Q Consensus       323 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~  399 (456)
                      ..+......+.+.|++++|+..|+++++.. +.+...|..+..++.+.|++++|++.|+++...   +...|..++.++.
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            345566666777777777777777766653 555667777777777777777777777766554   5566777777777


Q ss_pred             ccCChhHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 012804          400 KAKRLPSASKLLLSCLKSGVRILKSAQKAVVD  431 (456)
Q Consensus       400 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  431 (456)
                      ..|++++|++.|+++++..+. +...+..+..
T Consensus        93 ~~~~~~~A~~~~~~al~l~P~-~~~a~~~l~~  123 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQVDPS-NEEAREGVRN  123 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHCcC-CHHHHHHHHH
Confidence            777777777777777766433 5555554443

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.02  E-value=3.2e-08  Score=79.57  Aligned_cols=126  Identities=10%  Similarity=-0.140  Sum_probs=75.9

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHh
Q 012804          255 YCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCK  334 (456)
Q Consensus       255 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  334 (456)
                      +..+...+...|++++|...+++..    .|+...+..+...|...|++++|...+++..... +.+...+..+...+..
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~   83 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQ   83 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHH
Confidence            3344555666677777776666553    3456666666666667777777777776666543 2245566666666666


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCC----------------HHHHHHHHHHHHhCCCHHHHHHHHHHhccC
Q 012804          335 AGNIKGARLHLEYMNKIGFDSN----------------LEAYNCIVDRLGKDGKIDHAINVFESMEVK  386 (456)
Q Consensus       335 ~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  386 (456)
                      .|++++|...++.+.+.. +.+                ...+..+..++...|++++|.+.|+++...
T Consensus        84 ~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           84 TEKYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             TTCHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             cccHHHHHHHHHHHHHhC-CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            677777777766666542 211                245555555666666666666666655554

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=99.01  E-value=1.6e-07  Score=79.69  Aligned_cols=159  Identities=13%  Similarity=0.033  Sum_probs=114.6

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCC-ccCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-cC----HHhHHH
Q 012804          258 VIAAFVKIGRLKEATDYMEQMVTDGV-QLDI----VSYNTLINLYCKEGKLEAAYLLLDEMEKQGFE-CD----KYTHTI  327 (456)
Q Consensus       258 l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~  327 (456)
                      .+..+...|++++|..++++...... .|+.    ..+..+...+...|++++|...+++..+.... ++    ..+++.
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            35667788888888888888876422 2221    12334666667778889999999888763222 22    236788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC-----CCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---------ChhhHH
Q 012804          328 LIDGLCKAGNIKGARLHLEYMNKI-----GFDS-NLEAYNCIVDRLGKDGKIDHAINVFESMEVK---------DSFTYS  392 (456)
Q Consensus       328 l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---------~~~~~~  392 (456)
                      +...|...|++++|...++++.+.     +..+ ...++..++.+|.+.|++++|.+.++++...         -..+|.
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            888888999999999999887741     1111 1346778888899999999999998877654         156788


Q ss_pred             HHHHHHHccCC-hhHHHHHHHHHHH
Q 012804          393 SMVHNLCKAKR-LPSASKLLLSCLK  416 (456)
Q Consensus       393 ~l~~~~~~~~~-~~~A~~~~~~~~~  416 (456)
                      .++.++.+.|+ +++|.+.+++++.
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            88889999995 5899999888864

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.00  E-value=8.6e-08  Score=81.28  Aligned_cols=90  Identities=14%  Similarity=0.152  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHhccC----------ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCC----C-CH
Q 012804          359 AYNCIVDRLGKDGKIDHAINVFESMEVK----------DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVR----I-LK  423 (456)
Q Consensus       359 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~----------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~----~-~~  423 (456)
                      ++..++..|...|++++|...|+++...          ...++..++.+|...|++++|++.++++++....    . -.
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            3444444444444444444444443311          0124444444445555555555554444332100    0 03


Q ss_pred             HhHHHHHHHHHccCChHHH-HHHHHH
Q 012804          424 SAQKAVVDGLRHSGCRREA-KKIQSK  448 (456)
Q Consensus       424 ~~~~~l~~~~~~~g~~~~A-~~~~~~  448 (456)
                      .++..++.++...|++++| ...+++
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~  262 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKK  262 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            3444444455555555555 443443

>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=98.99  E-value=1.7e-08  Score=81.14  Aligned_cols=127  Identities=11%  Similarity=-0.057  Sum_probs=109.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 012804          287 IVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDR  366 (456)
Q Consensus       287 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  366 (456)
                      ...+..+...+...|++++|...+++..    .|+...+..+...+...|++++|...++++.... +.+...+..+..+
T Consensus         6 ~~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~   80 (213)
T 1hh8_A            6 AISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGML   80 (213)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHH
Confidence            3445667888889999999999998774    5678899999999999999999999999998874 6678889999999


Q ss_pred             HHhCCCHHHHHHHHHHhccC---Ch----------------hhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          367 LGKDGKIDHAINVFESMEVK---DS----------------FTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       367 ~~~~g~~~~a~~~~~~~~~~---~~----------------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      +...|++++|.+.|+++...   +.                ..+..++.++...|++++|.+.++++++..
T Consensus        81 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           81 YYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            99999999999999998774   22                778899999999999999999999998664

>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=98.99  E-value=3.2e-07  Score=77.92  Aligned_cols=214  Identities=8%  Similarity=-0.028  Sum_probs=112.8

Q ss_pred             hhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcC-ChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhc-C-CHHHHHHH
Q 012804          233 YKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIG-RLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKE-G-KLEAAYLL  309 (456)
Q Consensus       233 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~~~~a~~~  309 (456)
                      .++|+++++.++..+ +.+..+++.--.++...| .++++..+++.++..+++ +..+|+.-...+... + ++++++.+
T Consensus        70 se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~EL~~  147 (349)
T 3q7a_A           70 SERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSEIEY  147 (349)
T ss_dssp             SHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHHHHH
T ss_pred             CHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHHHHH
Confidence            345566666665554 444445554444555555 366666666666655433 555555555444444 4 55666666


Q ss_pred             HHHHHHcCCCcCHHhHHHHHHHHHhcCCHH--------HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC-------HH
Q 012804          310 LDEMEKQGFECDKYTHTILIDGLCKAGNIK--------GARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGK-------ID  374 (456)
Q Consensus       310 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-------~~  374 (456)
                      ++.+.+.... +..+|..-...+.+.|.++        +++..++++++.. +-|...|+.....+.+.++       ++
T Consensus       148 ~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~~~~  225 (349)
T 3q7a_A          148 IHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSRSLQ  225 (349)
T ss_dssp             HHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHHHHH
T ss_pred             HHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchHHHH
Confidence            6666554322 4445544444443333333        5666666666553 4455666666555555554       45


Q ss_pred             HHHHHHHHhccC---ChhhHHHHHHHHHccCCh--------------------hHHHHHHHHHHHcC-----CCCCHHhH
Q 012804          375 HAINVFESMEVK---DSFTYSSMVHNLCKAKRL--------------------PSASKLLLSCLKSG-----VRILKSAQ  426 (456)
Q Consensus       375 ~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~--------------------~~A~~~~~~~~~~~-----~~~~~~~~  426 (456)
                      ++++.++++...   |...|+.+...+.+.|+.                    .+..+...++...+     ..+.+..+
T Consensus       226 eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al  305 (349)
T 3q7a_A          226 DELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLAL  305 (349)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHH
Confidence            666666555443   555665555555554443                    12222222222111     02456667


Q ss_pred             HHHHHHHHccCChHHHHHHHHHHH
Q 012804          427 KAVVDGLRHSGCRREAKKIQSKIR  450 (456)
Q Consensus       427 ~~l~~~~~~~g~~~~A~~~~~~~~  450 (456)
                      ..++..|...|+.++|.++++.+.
T Consensus       306 ~~l~d~~~~~~~~~~a~~~~~~l~  329 (349)
T 3q7a_A          306 EYLADSFIEQNRVDDAAKVFEKLS  329 (349)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHH
Confidence            777777777777777777777764

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.98  E-value=1.4e-08  Score=83.17  Aligned_cols=185  Identities=8%  Similarity=-0.083  Sum_probs=96.7

Q ss_pred             hcCchhHHHHHHHHHHHcCCCcChhhHHHH-------HHHHHHcCChHHHHHHHHHHHHCC-----CccC----------
Q 012804          229 RNRKYKLGLEILSAMKRKGYTFDGFGYCTV-------IAAFVKIGRLKEATDYMEQMVTDG-----VQLD----------  286 (456)
Q Consensus       229 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~----------  286 (456)
                      ..++...|.+.|.++.+.. |-....|..+       ...+...++..++...+.......     ...+          
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~~   96 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDITY   96 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCEE
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCccccccc
Confidence            4567777777777777664 4444555544       344444444444444444443310     0001          


Q ss_pred             -----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHH
Q 012804          287 -----IVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSN--LEA  359 (456)
Q Consensus       287 -----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~  359 (456)
                           ......+...+...|++++|.++|..+...+  |+......+...+.+.+++++|+..|+...... .|.  ...
T Consensus        97 ~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a  173 (282)
T 4f3v_A           97 PVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAA  173 (282)
T ss_dssp             ECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHH
T ss_pred             ccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHH
Confidence                 1223344555666666666666666665432  322244444445566666666666665443321 111  234


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhccCC------hhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          360 YNCIVDRLGKDGKIDHAINVFESMEVKD------SFTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       360 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      +..+..++...|++++|++.|+++...+      +..+.....++.+.|+.++|...|+++...
T Consensus       174 ~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          174 GVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            5555666666666666666666654321      124455555666666666666666666655

>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=98.98  E-value=6.5e-07  Score=76.03  Aligned_cols=184  Identities=8%  Similarity=-0.000  Sum_probs=124.7

Q ss_pred             HHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccC-ChhHHHHHHHHHHhCCCCCCHhHHHHHHHHH
Q 012804            9 LLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFV-SFDAGYTILNRMREAGISPDVVTYNSLIAGA   87 (456)
Q Consensus         9 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   87 (456)
                      +++.+-....+.+..++|+++++.++..++. +..+|+.--.++...| .++++++.++.+.... +-+..+|+.-...+
T Consensus        56 ~~~~~r~~~~~~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL  133 (349)
T 3q7a_A           56 AMDYFRAIAAKEEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLL  133 (349)
T ss_dssp             HHHHHHHHHHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            3444444445555667888888888887754 6667887777777777 4888888888888764 33566676666666


Q ss_pred             HcC-C-ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChh--------HHHHHHHHHHhCCCCCChhHHHHHHHHH
Q 012804           88 TRN-S-LLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPD--------EANRVFQDMICGDLTPCTATFNIMLNGL  157 (456)
Q Consensus        88 ~~~-~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~  157 (456)
                      ... + ++++++++++.+.+.... |..+|+.-..++.+.|.++        ++++.++++++.+ +-+...|+.....+
T Consensus       134 ~~l~~~~~~~EL~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL  211 (349)
T 3q7a_A          134 DRISPQDPVSEIEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLR  211 (349)
T ss_dssp             HHHCCSCCHHHHHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHhcCCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            555 5 778888888888876544 6677766665655555555        7788888877765 56677777777777


Q ss_pred             HhcCC-------hHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCC
Q 012804          158 CKNRY-------TDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGR  197 (456)
Q Consensus       158 ~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  197 (456)
                      .+.+.       ++++++.+++..... +-|...|+.+-..+.+.|+
T Consensus       212 ~~l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          212 VSRPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             TTSTTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HhccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCC
Confidence            66665       567777777766652 3366666665555555443

>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=98.97  E-value=2.5e-08  Score=76.49  Aligned_cols=95  Identities=13%  Similarity=0.006  Sum_probs=47.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 012804          288 VSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRL  367 (456)
Q Consensus       288 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  367 (456)
                      ..+..+...+...|++++|...+++..+.. +.+..++..+...+...|++++|...+++..+.. +.+...+..++.++
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~   91 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            334445555555555555555555555432 1234445555555555555555555555555442 33344444444445


Q ss_pred             HhCCCHHHHHHHHHHhc
Q 012804          368 GKDGKIDHAINVFESME  384 (456)
Q Consensus       368 ~~~g~~~~a~~~~~~~~  384 (456)
                      ...|++++|.+.|+++.
T Consensus        92 ~~~~~~~~A~~~~~~a~  108 (166)
T 1a17_A           92 MALGKFRAALRDYETVV  108 (166)
T ss_dssp             HHTTCHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHH
Confidence            55555555555554443

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.97  E-value=2.5e-09  Score=80.22  Aligned_cols=109  Identities=11%  Similarity=-0.016  Sum_probs=89.9

Q ss_pred             HHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC-
Q 012804          308 LLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK-  386 (456)
Q Consensus       308 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-  386 (456)
                      ..++++.... +.+...+..+...+...|++++|...|+.+.... +.+...|..+..++...|++++|++.|+++... 
T Consensus         8 ~~~~~al~~~-p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~   85 (148)
T 2vgx_A            8 GTIAMLNEIS-SDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD   85 (148)
T ss_dssp             CSHHHHTTCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             hhHHHHHcCC-HhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            3455555432 1245567778888999999999999999998874 667888999999999999999999999988765 


Q ss_pred             --ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          387 --DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       387 --~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                        ++..+..++.+|...|++++|++.|+++++..
T Consensus        86 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  119 (148)
T 2vgx_A           86 IXEPRFPFHAAECLLQXGELAEAESGLFLAQELI  119 (148)
T ss_dssp             TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence              67888899999999999999999999998764

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.96  E-value=1e-06  Score=74.61  Aligned_cols=163  Identities=12%  Similarity=0.032  Sum_probs=117.9

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHCCCccC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC---CcC--HH
Q 012804          254 GYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLD-----IVSYNTLINLYCKEGKLEAAYLLLDEMEKQGF---ECD--KY  323 (456)
Q Consensus       254 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~--~~  323 (456)
                      .+...+..+...|++++|...+.+..+......     ...+..+...+...|++++|...+++..+...   .+.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            344456677788888888888887776532211     12234455667778899999999988875321   111  44


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCC----HHHHHHHHHHHHhCCCHHHHHHHHHHhccC---------Ch
Q 012804          324 THTILIDGLCKAGNIKGARLHLEYMNKI--GFDSN----LEAYNCIVDRLGKDGKIDHAINVFESMEVK---------DS  388 (456)
Q Consensus       324 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---------~~  388 (456)
                      +++.+...|...|++++|...++++.+.  ..+.+    ..++..++.+|...|++++|.+.++++...         -.
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            7888888899999999999999987632  11221    257888888999999999999999887654         15


Q ss_pred             hhHHHHHHHHHccCChhHH-HHHHHHHHH
Q 012804          389 FTYSSMVHNLCKAKRLPSA-SKLLLSCLK  416 (456)
Q Consensus       389 ~~~~~l~~~~~~~~~~~~A-~~~~~~~~~  416 (456)
                      .+|..++.+|...|++++| ...+++++.
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            6788889999999999999 777887764

>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=98.95  E-value=2.7e-09  Score=89.76  Aligned_cols=192  Identities=9%  Similarity=0.013  Sum_probs=107.2

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHH
Q 012804          216 NAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLIN  295 (456)
Q Consensus       216 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  295 (456)
                      +...+..+...+...|++++|...++.+.+.. +.+...+..+..++...|++++|...+++.++.... +...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            44556666777777778888887777777764 446667777777777777777777777777765332 5667777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHH
Q 012804          296 LYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDH  375 (456)
Q Consensus       296 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  375 (456)
                      +|...|++++|...+++..+.+.. +...+...+....+.   ..+... ........+.+......+...  ..|+.++
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~i~~~l~~l--~~~~~~~  153 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLAKE-QRLNFGDDIPSALRI---AKKKRW-NSIEERRIHQESELHSYLTRL--IAAERER  153 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHH-TTCCCCSHHHHHHHH---HHHHHH-HHHHHTCCCCCCHHHHHHHHH--HHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHH---HHHHHH-HHHHHHHHhhhHHHHHHHHHH--HHHHHHH
Confidence            777777777777777776653211 111111111111111   111111 112222234444444433332  2566677


Q ss_pred             HHHHHHHhccCCh---hhHHHHHHHHHcc-CChhHHHHHHHHHHH
Q 012804          376 AINVFESMEVKDS---FTYSSMVHNLCKA-KRLPSASKLLLSCLK  416 (456)
Q Consensus       376 a~~~~~~~~~~~~---~~~~~l~~~~~~~-~~~~~A~~~~~~~~~  416 (456)
                      |.+.++.+.+.++   .....+...+.+. +.+++|.++|.++.+
T Consensus       154 A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          154 ELEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            7777766655522   2223333333333 556666666666654

>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=98.94  E-value=4.8e-09  Score=88.24  Aligned_cols=196  Identities=9%  Similarity=-0.015  Sum_probs=123.9

Q ss_pred             CCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHH
Q 012804            4 KLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSL   83 (456)
Q Consensus         4 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   83 (456)
                      |.++..+..+...+.+.|++++|+..|+.+++..+. +...|..+..++.+.|++++|...+++..+.. +.+...+..+
T Consensus         1 p~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   78 (281)
T 2c2l_A            1 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFL   78 (281)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            456778888889999999999999999999887643 77788888999999999999999999888764 3467778888


Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCh
Q 012804           84 IAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYT  163 (456)
Q Consensus        84 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  163 (456)
                      ..++...|++++|.+.|++..+.+.. +...+...+....+.   .++.. +........+.+......+...  ..|+.
T Consensus        79 g~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~i~~~l~~l--~~~~~  151 (281)
T 2c2l_A           79 GQCQLEMESYDEAIANLQRAYSLAKE-QRLNFGDDIPSALRI---AKKKR-WNSIEERRIHQESELHSYLTRL--IAAER  151 (281)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHH-TTCCCCSHHHHHHHH---HHHHH-HHHHHHTCCCCCCHHHHHHHHH--HHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHH---HHHHH-HHHHHHHHHhhhHHHHHHHHHH--HHHHH
Confidence            88899999999999998887764311 111111111111111   11111 1112222324444443333222  25777


Q ss_pred             HHHHHHHHHHHhCCCCCc-HHHHHHHHHHHHHc-CCHHHHHHHHHHHhh
Q 012804          164 DNALRMFRGLQKHGFVPE-LVTYNILIKGLCKA-GRLRTARWILKELGD  210 (456)
Q Consensus       164 ~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~  210 (456)
                      ++|++.++...+.  .|+ ......+...+.+. +.++++.++|..+..
T Consensus       152 ~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          152 ERELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            7777777776654  333 33333333334443 556777777776654

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.93  E-value=1.4e-08  Score=75.93  Aligned_cols=99  Identities=13%  Similarity=0.035  Sum_probs=69.6

Q ss_pred             CHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 012804           41 DVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMH  120 (456)
Q Consensus        41 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  120 (456)
                      +...+..+...+.+.|++++|...|+++.+.. +.+...|..+..++...|++++|++.|++..+..+. ++..|..+..
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg~  112 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHHHHH
Confidence            44466667777777777777777777777653 335666777777777777777777777777765433 5566777777


Q ss_pred             HHHhcCChhHHHHHHHHHHhC
Q 012804          121 CLFQLGKPDEANRVFQDMICG  141 (456)
Q Consensus       121 ~~~~~~~~~~a~~~~~~~~~~  141 (456)
                      +|...|++++|...|++....
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            777777777777777777765

>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=98.92  E-value=1.6e-08  Score=78.70  Aligned_cols=121  Identities=8%  Similarity=0.060  Sum_probs=98.6

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHhCCCH--
Q 012804          297 YCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDR-LGKDGKI--  373 (456)
Q Consensus       297 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~--  373 (456)
                      +...|++++|...++...+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+..+ +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcch
Confidence            346788999999999988764 2367888999999999999999999999988764 5577888888888 7889998  


Q ss_pred             HHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCC
Q 012804          374 DHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGV  419 (456)
Q Consensus       374 ~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  419 (456)
                      ++|...++++...   +...+..++.++...|++++|...++++++..+
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  146 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNS  146 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCC
Confidence            9999999988765   677888899999999999999999999987753

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.91  E-value=8.9e-08  Score=69.23  Aligned_cols=113  Identities=11%  Similarity=0.103  Sum_probs=71.6

Q ss_pred             hHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 012804            7 TRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAG   86 (456)
Q Consensus         7 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   86 (456)
                      +..|..+...+...|++++|.+.++++.+..+ .+..++..+..++...|++++|...++++.+.. +.+...+..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            56666777777777777777777777776543 355666667777777777777777777766553 3345566666666


Q ss_pred             HHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHH
Q 012804           87 ATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCL  122 (456)
Q Consensus        87 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  122 (456)
                      +...|++++|.+.++++.+.... +...+..+...+
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~  121 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELDPN-NAEAKQNLGNAK  121 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHH
Confidence            66777777777777666654322 344444444433

>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=98.91  E-value=7.6e-08  Score=73.76  Aligned_cols=129  Identities=13%  Similarity=0.036  Sum_probs=79.8

Q ss_pred             hHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 012804            7 TRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAG   86 (456)
Q Consensus         7 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   86 (456)
                      +..+..+...+...|++++|...|+.+++..+. +..++..+..++...|++++|...+++..+.. +.+...+..+..+
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~   90 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            445666666777777777777777777766532 56666667777777777777777777766653 2345566666666


Q ss_pred             HHcCCChhHHHHHHHHHHHCCCCCCHHhHH--HHHHHHHhcCChhHHHHHHHHH
Q 012804           87 ATRNSLLSCSLDLLDEMLEMGIPPDVWSYN--SLMHCLFQLGKPDEANRVFQDM  138 (456)
Q Consensus        87 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~  138 (456)
                      +...|++++|.+.+++..+.... +...+.  ..+..+...|++++|.+.+...
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            66777777777777766664322 333332  2233355556666666666554

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.89  E-value=5.7e-08  Score=71.26  Aligned_cols=118  Identities=9%  Similarity=0.086  Sum_probs=67.3

Q ss_pred             CCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHH
Q 012804            4 KLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSL   83 (456)
Q Consensus         4 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   83 (456)
                      +.++..|..+...+...|++++|...|+++.+..+ .+...+..+..++...|++++|...+++..+.. +.+...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNP-KDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            44556666666666666666666666666665543 255566666666666666666666666665542 2244555555


Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHh
Q 012804           84 IAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQ  124 (456)
Q Consensus        84 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  124 (456)
                      ..++...|++++|.+.+++..+.... +...+..+..++..
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~  130 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLDSS-CKEAADGYQRCMMA  130 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCGG-GTHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHH
Confidence            66666666666666666665554211 23334444444443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.89  E-value=4.2e-08  Score=78.10  Aligned_cols=151  Identities=14%  Similarity=0.041  Sum_probs=72.3

Q ss_pred             cCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCC-cCHHhHHHHHHHHHhcCCHH
Q 012804          265 IGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQ----GFE-CDKYTHTILIDGLCKAGNIK  339 (456)
Q Consensus       265 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~  339 (456)
                      .|++++|.+.++.+... ......++..+...+...|++++|...+++....    +.. ....++..+...+...|+++
T Consensus         5 ~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   83 (203)
T 3gw4_A            5 AHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWD   83 (203)
T ss_dssp             --CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             cccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            45555555533333221 2223444555555555555555555555554431    111 12234445555555556666


Q ss_pred             HHHHHHHHHHhC----CCCC--CHHHHHHHHHHHHhCCCHHHHHHHHHHhccC-----C----hhhHHHHHHHHHccCCh
Q 012804          340 GARLHLEYMNKI----GFDS--NLEAYNCIVDRLGKDGKIDHAINVFESMEVK-----D----SFTYSSMVHNLCKAKRL  404 (456)
Q Consensus       340 ~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~----~~~~~~l~~~~~~~~~~  404 (456)
                      +|...+++..+.    +-.+  ....+..+...+...|++++|...+++....     +    ..++..+..++...|++
T Consensus        84 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  163 (203)
T 3gw4_A           84 AARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNL  163 (203)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCH
Confidence            665555554432    1011  1233445555555566666666555554422     1    12345556666666666


Q ss_pred             hHHHHHHHHHHH
Q 012804          405 PSASKLLLSCLK  416 (456)
Q Consensus       405 ~~A~~~~~~~~~  416 (456)
                      ++|.+.++++++
T Consensus       164 ~~A~~~~~~al~  175 (203)
T 3gw4_A          164 LEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            666666666654

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.89  E-value=7e-08  Score=70.44  Aligned_cols=122  Identities=12%  Similarity=0.052  Sum_probs=78.0

Q ss_pred             CCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHH
Q 012804            4 KLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSL   83 (456)
Q Consensus         4 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   83 (456)
                      +.++..+..+...+...|++++|...++++.+..+ .+...+..+..++...|++++|.+.++...+.. +.+...+..+
T Consensus         9 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~   86 (131)
T 2vyi_A            9 SAEAERLKTEGNEQMKVENFEAAVHFYGKAIELNP-ANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRM   86 (131)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             hhhhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHH
Confidence            34556666777777777777777777777776543 256666677777777777777777777766553 2345566666


Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCh
Q 012804           84 IAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKP  128 (456)
Q Consensus        84 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  128 (456)
                      ...+...|++++|.+.+++..+.... +...+..+..++...|++
T Consensus        87 ~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           87 GLALSSLNKHVEAVAYYKKALELDPD-NETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHhcC
Confidence            66666777777777777666665322 455555555555555543

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.88  E-value=4.2e-08  Score=78.12  Aligned_cols=154  Identities=13%  Similarity=-0.041  Sum_probs=116.4

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHhCCC
Q 012804          298 CKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKI----GF-DSNLEAYNCIVDRLGKDGK  372 (456)
Q Consensus       298 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~  372 (456)
                      ...|++++|.+.++.+... ......++..+...+...|++++|...+++....    +. +.....+..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            4679999999966555442 2235678888999999999999999999998762    11 2235677888889999999


Q ss_pred             HHHHHHHHHHhccC------C----hhhHHHHHHHHHccCChhHHHHHHHHHHHcCC-CCC----HHhHHHHHHHHHccC
Q 012804          373 IDHAINVFESMEVK------D----SFTYSSMVHNLCKAKRLPSASKLLLSCLKSGV-RIL----KSAQKAVVDGLRHSG  437 (456)
Q Consensus       373 ~~~a~~~~~~~~~~------~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~g  437 (456)
                      +++|.+.+++....      +    ...+..+...+...|++++|.+.+++.++... ..+    ..++..++.++...|
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  161 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEK  161 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCc
Confidence            99999999987654      2    23577888999999999999999999875411 112    234577889999999


Q ss_pred             ChHHHHHHHHHHHhc
Q 012804          438 CRREAKKIQSKIRMA  452 (456)
Q Consensus       438 ~~~~A~~~~~~~~~~  452 (456)
                      ++++|...+++..+.
T Consensus       162 ~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          162 NLLEAQQHWLRARDI  176 (203)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999887653

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.88  E-value=4.9e-08  Score=71.60  Aligned_cols=114  Identities=13%  Similarity=-0.028  Sum_probs=67.7

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHH
Q 012804          322 KYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNL  398 (456)
Q Consensus       322 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~  398 (456)
                      ...+..+...+...|++++|...++++.+.. +.+...+..+..++...|++++|.+.++++...   +...+..++.++
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~   94 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            4455555556666666666666666665542 334556666666666666666666666655543   455666666666


Q ss_pred             HccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccC
Q 012804          399 CKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSG  437 (456)
Q Consensus       399 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  437 (456)
                      ...|++++|.+.++++++..+. +...+..+..++...|
T Consensus        95 ~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALDLDSS-CKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCGG-GTHHHHHHHHHHHHHT
T ss_pred             HHHhhHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHhc
Confidence            7777777777777776655322 3445555555555444

>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=98.87  E-value=5.5e-08  Score=75.55  Aligned_cols=122  Identities=8%  Similarity=0.044  Sum_probs=98.3

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHH-HHhcCCH--
Q 012804          262 FVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDG-LCKAGNI--  338 (456)
Q Consensus       262 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--  338 (456)
                      +...|++++|...++....... .+...+..+...|...|++++|...+++..+... .+...+..+... +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRANP-QNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRG-ENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHCC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCCcch
Confidence            3467889999999998887643 3778889999999999999999999999887642 366778888888 7788998  


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC
Q 012804          339 KGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK  386 (456)
Q Consensus       339 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  386 (456)
                      ++|...++.+.+.. +.+...+..+..++...|++++|...|+++...
T Consensus        98 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           98 AQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            99999999998874 556788888999999999999999999988776

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.87  E-value=6.7e-08  Score=70.55  Aligned_cols=115  Identities=12%  Similarity=-0.039  Sum_probs=65.1

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHH
Q 012804          323 YTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLC  399 (456)
Q Consensus       323 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~  399 (456)
                      ..+..+...+...|++++|...++++.... +.+...+..++.++...|++++|.+.++++...   +...+..++.++.
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLALS   91 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHHH
Confidence            344444555555555555555555555432 334555555555555556666666555554433   4455566666666


Q ss_pred             ccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCCh
Q 012804          400 KAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCR  439 (456)
Q Consensus       400 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  439 (456)
                      ..|++++|.+.++++++..+. +...+..++.++...|++
T Consensus        92 ~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           92 SLNKHVEAVAYYKKALELDPD-NETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTTC
T ss_pred             HhCCHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHhcC
Confidence            667777777777766665432 555666666666655543

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.87  E-value=1.1e-07  Score=68.74  Aligned_cols=110  Identities=15%  Similarity=0.114  Sum_probs=59.0

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHH
Q 012804          323 YTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLC  399 (456)
Q Consensus       323 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~  399 (456)
                      ..+..+...+...|++++|...++++.+.. +.+...+..++..+...|++++|...++++...   +...+..++..+.
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~   88 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHH
Confidence            344444455555555555555555554432 334445555555555555555555555554432   4445556666666


Q ss_pred             ccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHH
Q 012804          400 KAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLR  434 (456)
Q Consensus       400 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  434 (456)
                      ..|++++|...++++.+..+. +...+..+..++.
T Consensus        89 ~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~  122 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALELDPN-NAEAKQNLGNAKQ  122 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHH
Confidence            666666666666666655322 4445555554443

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.86  E-value=3.4e-07  Score=75.11  Aligned_cols=187  Identities=7%  Similarity=-0.129  Sum_probs=125.3

Q ss_pred             hhCcHHHHHHHHHHHHhcCCCCCHHhHHHH-------HHHHHccCChhHHHHHHHHHHhCCCCCC---------------
Q 012804           19 KANRLEKAEAIIIDGIRLGVLPDVVTYNML-------IDAYCQFVSFDAGYTILNRMREAGISPD---------------   76 (456)
Q Consensus        19 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------   76 (456)
                      ..++...|++.|.++.+..+. ....|..+       ...+...++..+++..+.....  +.|+               
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~-~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES-ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhChh-hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            578999999999999988754 66677777       5666666666666665555443  2222               


Q ss_pred             -------HhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC--h
Q 012804           77 -------VVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPC--T  147 (456)
Q Consensus        77 -------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~  147 (456)
                             ......+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  .
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~  171 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAG  171 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHH
Confidence                   1223345666777888888888888777644  333355556667888888888888887554432 121  2


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC--cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC
Q 012804          148 ATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVP--ELVTYNILIKGLCKAGRLRTARWILKELGDS  211 (456)
Q Consensus       148 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  211 (456)
                      ..+..+..++...|++++|+..|++.......|  ..........++.+.|+.++|...|+++...
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            356667778888888888888888876443213  3335556666777888888888888887764

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.85  E-value=1.3e-08  Score=75.79  Aligned_cols=97  Identities=9%  Similarity=-0.046  Sum_probs=83.8

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHH
Q 012804          321 DKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHN  397 (456)
Q Consensus       321 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~  397 (456)
                      +...+..+...+...|++++|...|+.+.... +.+...|..+..++...|++++|+..|+++...   ++..+..++.+
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~   95 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAEC   95 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Confidence            44566677788899999999999999998874 667888999999999999999999999988765   67788899999


Q ss_pred             HHccCChhHHHHHHHHHHHcC
Q 012804          398 LCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       398 ~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      +...|++++|++.|+++++..
T Consensus        96 ~~~~g~~~~A~~~~~~al~~~  116 (142)
T 2xcb_A           96 HLQLGDLDGAESGFYSARALA  116 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC
Confidence            999999999999999998764

>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=98.83  E-value=7.5e-08  Score=83.21  Aligned_cols=148  Identities=13%  Similarity=0.010  Sum_probs=85.8

Q ss_pred             CChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcC--------------HHhHHHHHHH
Q 012804          266 GRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECD--------------KYTHTILIDG  331 (456)
Q Consensus       266 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~  331 (456)
                      +++++|...++...... +.+...+..+...|.+.|++++|...|++..+......              ..++..+..+
T Consensus       127 ~~~~~A~~~~~~a~~~~-p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~  205 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEEK-LEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMC  205 (336)
T ss_dssp             EEEECCCCGGGCCHHHH-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHH
T ss_pred             eecccccchhcCCHHHH-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHH
Confidence            34444544444333221 11456677777788888888888888888776532211              3556666666


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHH-
Q 012804          332 LCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSA-  407 (456)
Q Consensus       332 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A-  407 (456)
                      +.+.|++++|+..++++++.. +.+...+..+..+|...|++++|+..|+++...   +..++..+..++...|++++| 
T Consensus       206 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~  284 (336)
T 1p5q_A          206 HLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLARE  284 (336)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666666666553 445555666666666666666666666655443   445555555555556665555 


Q ss_pred             HHHHHHHH
Q 012804          408 SKLLLSCL  415 (456)
Q Consensus       408 ~~~~~~~~  415 (456)
                      ...+++|.
T Consensus       285 ~~~~~~~~  292 (336)
T 1p5q_A          285 KKLYANMF  292 (336)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            33444443

>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=98.81  E-value=8.1e-06  Score=69.05  Aligned_cols=135  Identities=8%  Similarity=0.015  Sum_probs=62.5

Q ss_pred             HcCCHH-HHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCc----------hhHHHHHHHHHHHcCCCcChhhHHHHHHHH
Q 012804          194 KAGRLR-TARWILKELGDSGHAPNAITYTTIMKCCFRNRK----------YKLGLEILSAMKRKGYTFDGFGYCTVIAAF  262 (456)
Q Consensus       194 ~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  262 (456)
                      +.|.++ +|+.++..+...++. +..+|+.--.++...+.          +++++.+++.+.... |.+..+|+.-..++
T Consensus        41 ~~~e~s~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wlL  118 (331)
T 3dss_A           41 QAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLL  118 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            344433 566666666654332 33333332222222221          345555555555443 44444544444444


Q ss_pred             HHcC--ChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCC-HHHHHHHHHHHHHcCCCcCHHhHHHHHHHH
Q 012804          263 VKIG--RLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGK-LEAAYLLLDEMEKQGFECDKYTHTILIDGL  332 (456)
Q Consensus       263 ~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  332 (456)
                      ...+  .++++..+++.+.+.++. +...|+--...+...|. ++++++.++.+.+..+. |...|+.....+
T Consensus       119 ~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll  189 (331)
T 3dss_A          119 SRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLL  189 (331)
T ss_dssp             HHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHH
T ss_pred             hccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHH
Confidence            4444  245555555555554333 45555544444445554 35555555555554322 444444443333

>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=98.81  E-value=4.6e-08  Score=73.27  Aligned_cols=111  Identities=11%  Similarity=-0.054  Sum_probs=88.8

Q ss_pred             HHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 012804          273 DYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIG  352 (456)
Q Consensus       273 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  352 (456)
                      ..++++.... +.+...+..+...+...|++++|...|+....... .+...+..+..++...|++++|...++++....
T Consensus         8 ~~~~~al~~~-p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~   85 (148)
T 2vgx_A            8 GTIAMLNEIS-SDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDH-YDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD   85 (148)
T ss_dssp             CSHHHHTTCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             hhHHHHHcCC-HhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            3455665543 22566677788889999999999999999887643 377788888889999999999999999988864


Q ss_pred             CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC
Q 012804          353 FDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK  386 (456)
Q Consensus       353 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  386 (456)
                       +.+...+..+..++...|++++|.+.|+++...
T Consensus        86 -p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           86 -IXEPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             -TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence             556788888899999999999999999887664

>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=98.80  E-value=2.2e-07  Score=67.44  Aligned_cols=100  Identities=14%  Similarity=0.084  Sum_probs=81.9

Q ss_pred             CchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHH
Q 012804            5 LSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLI   84 (456)
Q Consensus         5 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   84 (456)
                      .++..|..+...+.+.|++++|+..|+++++..+. +...|..+..++.+.|++++|+..+++..+.. +.+...|..+.
T Consensus         2 ~~a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg   79 (126)
T 3upv_A            2 MKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKA   79 (126)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            45677888888889999999999999998887643 77788888888888999999999888888764 33577788888


Q ss_pred             HHHHcCCChhHHHHHHHHHHHC
Q 012804           85 AGATRNSLLSCSLDLLDEMLEM  106 (456)
Q Consensus        85 ~~~~~~~~~~~a~~~~~~~~~~  106 (456)
                      .++...|++++|.+.+++..+.
T Consensus        80 ~~~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           80 TAQIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCHHHHHHHHHHHHHh
Confidence            8888888888888888887764

>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=98.79  E-value=1.3e-07  Score=81.62  Aligned_cols=130  Identities=8%  Similarity=-0.017  Sum_probs=74.0

Q ss_pred             HhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCC--------------HhHHHHHHHHHHcCCChhHHHHHHHHHHHCCC
Q 012804           43 VTYNMLIDAYCQFVSFDAGYTILNRMREAGISPD--------------VVTYNSLIAGATRNSLLSCSLDLLDEMLEMGI  108 (456)
Q Consensus        43 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  108 (456)
                      ..+..+...+.+.|++++|+..|++..+......              ...|..+..++.+.|++++|++.+++.++...
T Consensus       148 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p  227 (336)
T 1p5q_A          148 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDS  227 (336)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            3444444555555555555555555444321110              35566666666666666666666666666542


Q ss_pred             CCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHH-HHHHHHHH
Q 012804          109 PPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNA-LRMFRGLQ  174 (456)
Q Consensus       109 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a-~~~~~~~~  174 (456)
                      . +...+..+..+|...|++++|...|++..+.. +.+...+..+..++...|+.+++ ..+++.|.
T Consensus       228 ~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          228 N-NEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             T-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             C-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2 55666666666666667777766666666554 44555666666666666666666 33444443

>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=98.79  E-value=2.2e-07  Score=67.41  Aligned_cols=103  Identities=17%  Similarity=0.105  Sum_probs=67.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCC----------hhhHHH
Q 012804          324 THTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKD----------SFTYSS  393 (456)
Q Consensus       324 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----------~~~~~~  393 (456)
                      .+..+...+.+.|++++|+..|+++++.. |.+...|..+..+|.+.|++++|++.++++...+          ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            44556666666666666666666666653 4456666666666667777777766666655431          135666


Q ss_pred             HHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHH
Q 012804          394 MVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAV  429 (456)
Q Consensus       394 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l  429 (456)
                      ++.++...|++++|++.|++.++.  .||+.+...+
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~~l  122 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVKKV  122 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHHHH
Confidence            777888888899999988888765  4565554433

>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=98.79  E-value=6.7e-08  Score=70.22  Aligned_cols=96  Identities=15%  Similarity=-0.018  Sum_probs=80.8

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHH
Q 012804          322 KYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNL  398 (456)
Q Consensus       322 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~  398 (456)
                      ...+..+...+...|++++|...|++..+.. +.+...+..+..++.+.|++++|+..++++...   ++..|..++.++
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            4567778888889999999999999988764 567888888889999999999999999887765   667888888899


Q ss_pred             HccCChhHHHHHHHHHHHcC
Q 012804          399 CKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       399 ~~~~~~~~A~~~~~~~~~~~  418 (456)
                      ...|++++|++.|+++++..
T Consensus        83 ~~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           83 IAVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHhC
Confidence            99999999999999888764

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.77  E-value=1.5e-07  Score=66.45  Aligned_cols=103  Identities=6%  Similarity=-0.103  Sum_probs=78.2

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCC--CHhHH
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISP--DVVTY   80 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~   80 (456)
                      .|.++..+..+...+...|++++|...++++.+..+ .+...+..+..++...|++++|.+.+++..+.. +.  +...+
T Consensus         2 ~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~   79 (112)
T 2kck_A            2 VDQNPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDP-EESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVW   79 (112)
T ss_dssp             CCSSTTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHH
Confidence            466777788888888888888888888888887764 366677778888888888888888888877753 23  46667


Q ss_pred             HHHHHHHHcC-CChhHHHHHHHHHHHCC
Q 012804           81 NSLIAGATRN-SLLSCSLDLLDEMLEMG  107 (456)
Q Consensus        81 ~~l~~~~~~~-~~~~~a~~~~~~~~~~~  107 (456)
                      ..+..++... |++++|.+.++......
T Consensus        80 ~~l~~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           80 AAKADALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HHHHHHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHhhcc
Confidence            7777777778 88888888887777654

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.76  E-value=1e-07  Score=72.98  Aligned_cols=98  Identities=10%  Similarity=-0.075  Sum_probs=87.4

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHH
Q 012804          321 DKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHN  397 (456)
Q Consensus       321 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~  397 (456)
                      +...+..+...+...|++++|+..|+++++.. +.+...+..+..+|.+.|++++|+..|+++...   +...|..+..+
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~   88 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            45678888899999999999999999998874 567889999999999999999999999988766   67889999999


Q ss_pred             HHccCChhHHHHHHHHHHHcCC
Q 012804          398 LCKAKRLPSASKLLLSCLKSGV  419 (456)
Q Consensus       398 ~~~~~~~~~A~~~~~~~~~~~~  419 (456)
                      |...|++++|++.|+++++..+
T Consensus        89 ~~~~g~~~~A~~~~~~al~~~p  110 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEAEG  110 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHS
T ss_pred             HHHccCHHHHHHHHHHHHHhCC
Confidence            9999999999999999998743

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.76  E-value=1.1e-07  Score=70.60  Aligned_cols=101  Identities=8%  Similarity=-0.119  Sum_probs=61.5

Q ss_pred             CCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHH
Q 012804            4 KLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSL   83 (456)
Q Consensus         4 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   83 (456)
                      |.++..+..+...+.+.|++++|+..|+.+++.++. +...|..+..++...|++++|+..|+...+.+ +.++..+..+
T Consensus        15 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l   92 (142)
T 2xcb_A           15 EDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLDHY-DARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHA   92 (142)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHH
Confidence            344555555666666666666666666666665532 55566666666666666666666666666553 2344555556


Q ss_pred             HHHHHcCCChhHHHHHHHHHHHC
Q 012804           84 IAGATRNSLLSCSLDLLDEMLEM  106 (456)
Q Consensus        84 ~~~~~~~~~~~~a~~~~~~~~~~  106 (456)
                      ..++...|++++|.+.|+...+.
T Consensus        93 g~~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           93 AECHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh
Confidence            66666666666666666665553

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.75  E-value=6.8e-08  Score=69.42  Aligned_cols=90  Identities=16%  Similarity=0.045  Sum_probs=45.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccC
Q 012804          326 TILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAK  402 (456)
Q Consensus       326 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~  402 (456)
                      ..+...+.+.|++++|...++++++.. +.+...+..+..++...|++++|+..|+++...   +...+..++.++...|
T Consensus        21 ~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~g   99 (121)
T 1hxi_A           21 MEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEH   99 (121)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            334444555555555555555555442 334455555555555555555555555544433   3344445555555555


Q ss_pred             ChhHHHHHHHHHHH
Q 012804          403 RLPSASKLLLSCLK  416 (456)
Q Consensus       403 ~~~~A~~~~~~~~~  416 (456)
                      ++++|+..++++++
T Consensus       100 ~~~~A~~~~~~al~  113 (121)
T 1hxi_A          100 NANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHH
Confidence            55555555555543

>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=98.74  E-value=1.5e-08  Score=80.49  Aligned_cols=85  Identities=8%  Similarity=-0.091  Sum_probs=45.8

Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHH
Q 012804          358 EAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLR  434 (456)
Q Consensus       358 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  434 (456)
                      ..+..+..++...|++++|+..++++...   +...+..++.++...|++++|++.|+++++..+. +...+..+..++.
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~  167 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN-NLDIRNSYELCVN  167 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHH
Confidence            44455555555555555555555555443   4445555566666666666666666666555322 4555555555555


Q ss_pred             ccCChHHHH
Q 012804          435 HSGCRREAK  443 (456)
Q Consensus       435 ~~g~~~~A~  443 (456)
                      ..|+.+++.
T Consensus       168 ~~~~~~~~~  176 (198)
T 2fbn_A          168 KLKEARKKD  176 (198)
T ss_dssp             HHHHHHC--
T ss_pred             HHHHHHHHH
Confidence            555555544

>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=98.73  E-value=5.2e-07  Score=64.32  Aligned_cols=93  Identities=18%  Similarity=0.019  Sum_probs=50.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHc
Q 012804          324 THTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCK  400 (456)
Q Consensus       324 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~  400 (456)
                      .+..+...+...|++++|...++.+.... +.+...+..++.++...|++++|...++++...   ++..+..++.++..
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~   84 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEF   84 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            34444444555555555555555554432 334445555555555555555555555554433   34455556666666


Q ss_pred             cCChhHHHHHHHHHHHc
Q 012804          401 AKRLPSASKLLLSCLKS  417 (456)
Q Consensus       401 ~~~~~~A~~~~~~~~~~  417 (456)
                      .|++++|.+.++++.+.
T Consensus        85 ~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           85 LNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             TTCHHHHHHHHHHHHTT
T ss_pred             HhhHHHHHHHHHHHHHc
Confidence            66666666666666654

>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=98.72  E-value=2.1e-08  Score=79.54  Aligned_cols=167  Identities=8%  Similarity=-0.080  Sum_probs=66.2

Q ss_pred             HHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCC
Q 012804           13 CVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSL   92 (456)
Q Consensus        13 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   92 (456)
                      .+......|+++++.+.|+...... ......+..+...+...|++++|+..|++..+.... +. .+...        .
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~-~~~~~--------~   78 (198)
T 2fbn_A           10 HSSGRENLYFQGAKKSIYDYTDEEK-VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIH-TE-EWDDQ--------I   78 (198)
T ss_dssp             ------------CCCSGGGCCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTT-CT-TCCCH--------H
T ss_pred             hhhhhhhhhhccccCchhhCCHHHH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhc-cc-ccchh--------h
Confidence            3344444555555555554322211 112334555566666666666666666666653211 11 00000        0


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHH
Q 012804           93 LSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRG  172 (456)
Q Consensus        93 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  172 (456)
                      ..   .....       .....+..+..+|...|++++|+..++...... +.+...+..+..++...|++++|+..|++
T Consensus        79 ~~---~~~~~-------~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~  147 (198)
T 2fbn_A           79 LL---DKKKN-------IEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYK  147 (198)
T ss_dssp             HH---HHHHH-------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HH---HHHHH-------HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            00   00000       001344444455555555555555555544433 33444455555555555555555555555


Q ss_pred             HHhCCCCCcHHHHHHHHHHHHHcCCHHHHH
Q 012804          173 LQKHGFVPELVTYNILIKGLCKAGRLRTAR  202 (456)
Q Consensus       173 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  202 (456)
                      ..+.. +.+...+..+..++...++.+++.
T Consensus       148 al~~~-p~~~~~~~~l~~~~~~~~~~~~~~  176 (198)
T 2fbn_A          148 AASLN-PNNLDIRNSYELCVNKLKEARKKD  176 (198)
T ss_dssp             HHHHS-TTCHHHHHHHHHHHHHHHHHHC--
T ss_pred             HHHHC-CCcHHHHHHHHHHHHHHHHHHHHH
Confidence            44431 223344444444444444444333

>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=98.71  E-value=1.1e-06  Score=62.59  Aligned_cols=100  Identities=13%  Similarity=0.027  Sum_probs=70.6

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIA   85 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   85 (456)
                      ++..+..+...+...|++++|...++.+.+..+ .+...+..+..++...|++++|...+++..+.. +.+...+..+..
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~   80 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLDP-HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            456677777777788888888888888777653 356677777777777777777777777776653 234566666677


Q ss_pred             HHHcCCChhHHHHHHHHHHHCC
Q 012804           86 GATRNSLLSCSLDLLDEMLEMG  107 (456)
Q Consensus        86 ~~~~~~~~~~a~~~~~~~~~~~  107 (456)
                      ++...|++++|.+.+++..+.+
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHhhHHHHHHHHHHHHHcC
Confidence            7777777777777777766643

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.69  E-value=2.1e-07  Score=65.70  Aligned_cols=97  Identities=19%  Similarity=0.105  Sum_probs=56.2

Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCC--CHHhHHHHHHH
Q 012804          358 EAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRI--LKSAQKAVVDG  432 (456)
Q Consensus       358 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~  432 (456)
                      ..+..++..+...|++++|...++++...   +...+..++.++...|++++|++.++++++.. +.  +...+..++.+
T Consensus         7 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            7 EEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADA   85 (112)
T ss_dssp             TGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHH
Confidence            34444555555555555555555554433   44555556666666666666666666666552 22  35556666666


Q ss_pred             HHcc-CChHHHHHHHHHHHhcccC
Q 012804          433 LRHS-GCRREAKKIQSKIRMAKIS  455 (456)
Q Consensus       433 ~~~~-g~~~~A~~~~~~~~~~~~~  455 (456)
                      +... |++++|.+.++++....++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p~  109 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHHH  109 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhcccC
Confidence            6666 6666666666666655443

>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=98.68  E-value=3.8e-07  Score=67.26  Aligned_cols=98  Identities=7%  Similarity=-0.200  Sum_probs=85.6

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHH
Q 012804          320 CDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVH  396 (456)
Q Consensus       320 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~  396 (456)
                      .+...+..+...+...|++++|...++.+.... +.+...+..+..++...|++++|...++++...   ++..|..++.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   85 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   85 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHH
Confidence            467788889999999999999999999988874 566888999999999999999999999988765   6778889999


Q ss_pred             HHHccCChhHHHHHHHHHHHcC
Q 012804          397 NLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       397 ~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      ++...|++++|+..|+++++..
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~~  107 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSLA  107 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHC
Confidence            9999999999999999998663

>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=98.68  E-value=4.2e-07  Score=65.89  Aligned_cols=99  Identities=16%  Similarity=0.101  Sum_probs=68.2

Q ss_pred             hHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCC--CCC----HhHH
Q 012804            7 TRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGI--SPD----VVTY   80 (456)
Q Consensus         7 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~   80 (456)
                      +..+..+...+.+.|++++|+..|+++++..+. +...|..+..+|.+.|++++|++.+++..+.+.  .++    ..+|
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            345667777888888888888888888877643 677777788888888888888888877765421  111    1245


Q ss_pred             HHHHHHHHcCCChhHHHHHHHHHHHC
Q 012804           81 NSLIAGATRNSLLSCSLDLLDEMLEM  106 (456)
Q Consensus        81 ~~l~~~~~~~~~~~~a~~~~~~~~~~  106 (456)
                      ..+..++...|++++|++.|++.+..
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~  112 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSE  112 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            55666666677777777777666653

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.67  E-value=1.8e-06  Score=77.70  Aligned_cols=193  Identities=7%  Similarity=0.015  Sum_probs=104.7

Q ss_pred             HHHHHhcCchhHHHHHHHHHHHcCCCcCh----------------hhHHHHHHHHHHcCChHHHHHHHHHHHHCCCc-cC
Q 012804          224 MKCCFRNRKYKLGLEILSAMKRKGYTFDG----------------FGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQ-LD  286 (456)
Q Consensus       224 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~  286 (456)
                      ...+...|++++|.+.+..+.+.......                ..+..+...|...|++++|.+.+..+...... ++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            44566778888888888887766422111                12455666677777777777777665542101 11


Q ss_pred             H----HHHHHHHHHHHhcCCHHHHHHHHHHHHH----cCCCc-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC--CC--
Q 012804          287 I----VSYNTLINLYCKEGKLEAAYLLLDEMEK----QGFEC-DKYTHTILIDGLCKAGNIKGARLHLEYMNKI--GF--  353 (456)
Q Consensus       287 ~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~--  353 (456)
                      .    .+.+.+...+...|+++.|..+++....    .+..+ -..++..+...+...|++++|..+++.+...  +.  
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            1    1122223333345666777766666542    11111 2345556666666777777777766665432  11  


Q ss_pred             -CCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC------C----hhhHHHHHHHHHccCChhHHHHHHHHHHH
Q 012804          354 -DSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK------D----SFTYSSMVHNLCKAKRLPSASKLLLSCLK  416 (456)
Q Consensus       354 -~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  416 (456)
                       +....++..++..|...|++++|..+++++...      +    ...+..++..+...|++++|...|.++.+
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence             111345555666666666666666666655432      1    12344444555556666666666666553

>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=98.67  E-value=6.2e-05  Score=63.70  Aligned_cols=197  Identities=9%  Similarity=0.003  Sum_probs=92.9

Q ss_pred             hhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCC--hhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCC-hHHHHHH
Q 012804           93 LSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGK--PDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRY-TDNALRM  169 (456)
Q Consensus        93 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~  169 (456)
                      +++++++++.+....++ +..+|+.-..++...|+  +++++.+++.+.+.+ +.+..+|+.-..++...|. ++++++.
T Consensus        90 l~~EL~~~~~~L~~~PK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~  167 (331)
T 3dss_A           90 VKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAF  167 (331)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHH
Confidence            34455555555544332 44444444444444442  455555555555444 4444555544444444444 3555555


Q ss_pred             HHHHHhCCCCCcHHHHHHHHHHHHHc--------------CCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhc-----
Q 012804          170 FRGLQKHGFVPELVTYNILIKGLCKA--------------GRLRTARWILKELGDSGHAPNAITYTTIMKCCFRN-----  230 (456)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----  230 (456)
                      ++.+.+.. +-|...|+.....+...              +.++++++.+.......+. |...|+-+-..+.+.     
T Consensus       168 ~~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~~~~~~~  245 (331)
T 3dss_A          168 TDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGAGSGRCE  245 (331)
T ss_dssp             HHHHHHHC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHSSSCGGG
T ss_pred             HHHHHHHC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccCccc
Confidence            55555442 22444444443333332              2355555555555543322 444444332222222     


Q ss_pred             ------CchhHHHHHHHHHHHcCCCcChhhHHHHHHH---HHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHH
Q 012804          231 ------RKYKLGLEILSAMKRKGYTFDGFGYCTVIAA---FVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLIN  295 (456)
Q Consensus       231 ------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  295 (456)
                            +.++++++.++++.+.. |.+...+..++..   ....+..+++...+.++.+.++. ...-|..+..
T Consensus       246 ~~~~~~~~l~~el~~~~elle~~-pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~-r~~~y~d~~~  317 (331)
T 3dss_A          246 LSVEKSTVLQSELESCKELQELE-PENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPM-RAAYLDDLRS  317 (331)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGG-GHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHhhC-cccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcc-hhhHHHHHHH
Confidence                  34667777777777664 2232222222211   11345667777788887765322 3333444433

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.64  E-value=9.4e-07  Score=67.48  Aligned_cols=102  Identities=7%  Similarity=-0.046  Sum_probs=82.6

Q ss_pred             CCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHH
Q 012804            4 KLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSL   83 (456)
Q Consensus         4 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   83 (456)
                      +.++..+..+...+.+.|++++|+..|+++++..+. +...|..+..++.+.|++++|+..|++..+.. +.+...|..+
T Consensus         8 ~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l   85 (164)
T 3sz7_A            8 TPESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRL   85 (164)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            446677888888888889999999999988887643 77788888888888888888888888888764 3357778888


Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCC
Q 012804           84 IAGATRNSLLSCSLDLLDEMLEMG  107 (456)
Q Consensus        84 ~~~~~~~~~~~~a~~~~~~~~~~~  107 (456)
                      ..++...|++++|.+.|++..+..
T Consensus        86 g~~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           86 GLARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhC
Confidence            888888888888888888887754

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.64  E-value=6.2e-07  Score=65.33  Aligned_cols=108  Identities=11%  Similarity=0.085  Sum_probs=68.8

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---C-------hhhHH
Q 012804          323 YTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---D-------SFTYS  392 (456)
Q Consensus       323 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~-------~~~~~  392 (456)
                      ..+..+...+...|++++|...++.+.... +.+...+..++.++...|++++|...++++...   +       ..++.
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            344555555666666666666666665542 445556666666666666666666666665543   2       55677


Q ss_pred             HHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 012804          393 SMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGL  433 (456)
Q Consensus       393 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  433 (456)
                      .++.++...|++++|.+.++++++..  |++.....+..+.
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~  122 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAEH--RTPDVLKKCQQAE  122 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhC--CCHHHHHHHHHHH
Confidence            77888888888888888888888763  4555555554443

>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=98.63  E-value=9.8e-07  Score=64.96  Aligned_cols=102  Identities=14%  Similarity=-0.006  Sum_probs=68.0

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHH
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNS   82 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   82 (456)
                      .+.++..|..+...+...|++++|+..|+.+++..+. +...+..+..++...|++++|...++...+.. +.+...+..
T Consensus         5 ~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~   82 (137)
T 3q49_B            5 KSPSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFF   82 (137)
T ss_dssp             -CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             ccccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcC-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHH
Confidence            3456667777777777777777777777777766543 56667777777777777777777777766653 234556666


Q ss_pred             HHHHHHcCCChhHHHHHHHHHHHC
Q 012804           83 LIAGATRNSLLSCSLDLLDEMLEM  106 (456)
Q Consensus        83 l~~~~~~~~~~~~a~~~~~~~~~~  106 (456)
                      +..++...|++++|.+.|++..+.
T Consensus        83 l~~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           83 LGQCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHH
Confidence            666666777777777666666553

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.62  E-value=1.9e-06  Score=64.30  Aligned_cols=109  Identities=19%  Similarity=0.010  Sum_probs=64.3

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHH
Q 012804          321 DKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSN----LEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSS  393 (456)
Q Consensus       321 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~  393 (456)
                      +...+..+...+...|++++|...+++..+.  .|+    ...+..+..++...|++++|...++++...   +...+..
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  104 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYR  104 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHH
Confidence            3445555555566666666666666666554  233    455555666666666666666666655443   4556666


Q ss_pred             HHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 012804          394 MVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDG  432 (456)
Q Consensus       394 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  432 (456)
                      ++.++...|++++|.+.++++++..+. +...+..+...
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~  142 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSLEPK-NKVFQEALRNI  142 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHH
Confidence            667777777777777777777665422 44444444443

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.61  E-value=4.8e-07  Score=65.91  Aligned_cols=112  Identities=8%  Similarity=0.001  Sum_probs=81.1

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCC--CCC----HhH
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGI--SPD----VVT   79 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~   79 (456)
                      .+..+..+...+...|++++|...|+.+.+..+ .+...+..+..++...|++++|...++...+...  .++    ..+
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   81 (131)
T 1elr_A            3 QALKEKELGNDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKA   81 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHH
Confidence            456778888888888999999999998888764 3677788888888888888888888888776521  111    556


Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 012804           80 YNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMH  120 (456)
Q Consensus        80 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  120 (456)
                      +..+..++...|++++|.+.++...+..  |+......+..
T Consensus        82 ~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~  120 (131)
T 1elr_A           82 YARIGNSYFKEEKYKDAIHFYNKSLAEH--RTPDVLKKCQQ  120 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhC--CCHHHHHHHHH
Confidence            6677777777788888888777777643  34444444433

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.58  E-value=2.1e-06  Score=64.01  Aligned_cols=101  Identities=14%  Similarity=0.027  Sum_probs=60.7

Q ss_pred             CCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCC---HHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHH
Q 012804            4 KLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPD---VVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTY   80 (456)
Q Consensus         4 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   80 (456)
                      +.+...+..+...+...|++++|+..|+++.+..+. +   ...+..+..++...|++++|+..++...+.. +.+...+
T Consensus        25 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           25 ASSVEQLRKEGNELFKCGDYGGALAAYTQALGLDAT-PQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             hHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHccc-chHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            345566666666666777777777777766654422 1   4455666666666666666666666665542 2244555


Q ss_pred             HHHHHHHHcCCChhHHHHHHHHHHHC
Q 012804           81 NSLIAGATRNSLLSCSLDLLDEMLEM  106 (456)
Q Consensus        81 ~~l~~~~~~~~~~~~a~~~~~~~~~~  106 (456)
                      ..+..++...|++++|.+.+++....
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            55566666666666666666666554

>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=98.57  E-value=4.3e-07  Score=67.12  Aligned_cols=29  Identities=17%  Similarity=0.037  Sum_probs=19.8

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 012804          323 YTHTILIDGLCKAGNIKGARLHLEYMNKI  351 (456)
Q Consensus       323 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  351 (456)
                      ..+......+...|++++|+..|++.++.
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l   40 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAMEI   40 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence            34555566667777777777777777665

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.56  E-value=5.8e-07  Score=64.51  Aligned_cols=94  Identities=11%  Similarity=-0.093  Sum_probs=57.4

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHcc
Q 012804          360 YNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHS  436 (456)
Q Consensus       360 ~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  436 (456)
                      +..+...+.+.|++++|+..|+++...   +...|..++.++...|++++|+..++++++..+. +...+..++.++...
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNE   98 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHc
Confidence            344455566666666666666666544   5556666666666666666666666666665433 555666666666666


Q ss_pred             CChHHHHHHHHHHHhccc
Q 012804          437 GCRREAKKIQSKIRMAKI  454 (456)
Q Consensus       437 g~~~~A~~~~~~~~~~~~  454 (456)
                      |++++|...+++..+.++
T Consensus        99 g~~~~A~~~~~~al~~~P  116 (121)
T 1hxi_A           99 HNANAALASLRAWLLSQP  116 (121)
T ss_dssp             HHHHHHHHHHHHHHC---
T ss_pred             CCHHHHHHHHHHHHHhCc
Confidence            666666666666655544

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.55  E-value=3.9e-06  Score=75.50  Aligned_cols=198  Identities=10%  Similarity=-0.039  Sum_probs=144.4

Q ss_pred             HHHHHHcCCHHHHHHHHHHHhhCCCCCCH----------------HHHHHHHHHHHhcCchhHHHHHHHHHHHcCCC-cC
Q 012804          189 IKGLCKAGRLRTARWILKELGDSGHAPNA----------------ITYTTIMKCCFRNRKYKLGLEILSAMKRKGYT-FD  251 (456)
Q Consensus       189 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~  251 (456)
                      ...+.+.|++++|.+.|..+.+.......                ..+..+...|...|++++|.+.+..+.+.... ++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            45678899999999999999875443211                23677889999999999999999988754211 11


Q ss_pred             h----hhHHHHHHHHHHcCChHHHHHHHHHHHHC----CCc-cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCC-
Q 012804          252 G----FGYCTVIAAFVKIGRLKEATDYMEQMVTD----GVQ-LDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQ--GFE-  319 (456)
Q Consensus       252 ~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~-  319 (456)
                      .    .+.+.+...+...|+.+.+..+++.....    +.. .-..++..+...|...|++++|..+++++...  +.. 
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            1    12223333444568999999999887653    222 23567788999999999999999999988642  111 


Q ss_pred             -c-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCC----HHHHHHHHHHHHhCCCHHHHHHHHHHhccC
Q 012804          320 -C-DKYTHTILIDGLCKAGNIKGARLHLEYMNKI--GFDSN----LEAYNCIVDRLGKDGKIDHAINVFESMEVK  386 (456)
Q Consensus       320 -~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  386 (456)
                       + ...++..++..|...|++++|..++++....  .+..+    ...+..++..+...|++++|...|.++...
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~~  245 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFES  245 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence             1 2457888899999999999999999987643  12212    345666677788899999999999887765

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.54  E-value=1.1e-06  Score=66.67  Aligned_cols=61  Identities=15%  Similarity=0.048  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-cC----HHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012804          289 SYNTLINLYCKEGKLEAAYLLLDEMEKQGFE-CD----KYTHTILIDGLCKAGNIKGARLHLEYMN  349 (456)
Q Consensus       289 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~  349 (456)
                      ++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++..
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~   76 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTL   76 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4455555566666666666666555432100 01    1244455555556666666666655544

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.53  E-value=1.4e-06  Score=66.23  Aligned_cols=131  Identities=15%  Similarity=0.015  Sum_probs=104.0

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhCCCHHHHHHHHHHhccC---------C
Q 012804          322 KYTHTILIDGLCKAGNIKGARLHLEYMNKIGF-DSN----LEAYNCIVDRLGKDGKIDHAINVFESMEVK---------D  387 (456)
Q Consensus       322 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---------~  387 (456)
                      ..++..+...+...|++++|...+++..+... .++    ...+..+...+...|++++|.+.++++...         .
T Consensus         9 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~   88 (164)
T 3ro3_A            9 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVE   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHH
Confidence            34677888889999999999999999875410 111    246788888999999999999999987654         1


Q ss_pred             hhhHHHHHHHHHccCChhHHHHHHHHHHHcC----CC-CCHHhHHHHHHHHHccCChHHHHHHHHHHHhc
Q 012804          388 SFTYSSMVHNLCKAKRLPSASKLLLSCLKSG----VR-ILKSAQKAVVDGLRHSGCRREAKKIQSKIRMA  452 (456)
Q Consensus       388 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~----~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  452 (456)
                      ...+..++..+...|++++|.+.++++++..    .. ....++..++.++...|++++|...+++..+.
T Consensus        89 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A           89 AQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            4567888999999999999999999987541    11 12356778889999999999999999988764

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.53  E-value=1.2e-06  Score=63.69  Aligned_cols=93  Identities=9%  Similarity=-0.032  Sum_probs=76.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhCCCHHHHHHHHHHhccC---C---hhhHHHHH
Q 012804          325 HTILIDGLCKAGNIKGARLHLEYMNKIGFDSNL---EAYNCIVDRLGKDGKIDHAINVFESMEVK---D---SFTYSSMV  395 (456)
Q Consensus       325 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~---~~~~~~l~  395 (456)
                      +..+...+...|++++|...++.+.+.. +.+.   ..+..+..++...|++++|...|+++...   +   +..+..++
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la   83 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHH
Confidence            4556777889999999999999988763 3333   57788888999999999999999988765   3   56688889


Q ss_pred             HHHHccCChhHHHHHHHHHHHcC
Q 012804          396 HNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       396 ~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      .++...|++++|...|+++++..
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC
Confidence            99999999999999999998774

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.48  E-value=1.7e-06  Score=65.88  Aligned_cols=99  Identities=12%  Similarity=-0.051  Sum_probs=81.5

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC--------C---------CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHh
Q 012804          321 DKYTHTILIDGLCKAGNIKGARLHLEYMNKI--------G---------FDSNLEAYNCIVDRLGKDGKIDHAINVFESM  383 (456)
Q Consensus       321 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~---------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  383 (456)
                      ....+......+.+.|++++|...|...+..        .         -+.+...+..+..+|.+.|++++|+..++++
T Consensus        10 ~a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~a   89 (162)
T 3rkv_A           10 SVEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEV   89 (162)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            3556778888999999999999999998765        1         0223467888888999999999999999988


Q ss_pred             ccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCC
Q 012804          384 EVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGV  419 (456)
Q Consensus       384 ~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  419 (456)
                      ...   ++..|..++.+|...|++++|+..|+++++..+
T Consensus        90 l~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p  128 (162)
T 3rkv_A           90 LKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHP  128 (162)
T ss_dssp             HHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCG
T ss_pred             HhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCC
Confidence            765   677888899999999999999999999987743

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.47  E-value=4.9e-06  Score=60.39  Aligned_cols=94  Identities=12%  Similarity=-0.027  Sum_probs=75.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCH---HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHH
Q 012804          291 NTLINLYCKEGKLEAAYLLLDEMEKQGFECDK---YTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSN---LEAYNCIV  364 (456)
Q Consensus       291 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~  364 (456)
                      ..+...+...|++++|...++.+.+.... +.   ..+..+..++...|++++|...++.+.+.. +.+   ...+..+.
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la   83 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHH
Confidence            44667788899999999999998875322 23   477788888899999999999999988763 334   67788888


Q ss_pred             HHHHhCCCHHHHHHHHHHhccC
Q 012804          365 DRLGKDGKIDHAINVFESMEVK  386 (456)
Q Consensus       365 ~~~~~~g~~~~a~~~~~~~~~~  386 (456)
                      .++...|++++|...|+++...
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            8999999999999999888765

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.46  E-value=1.9e-05  Score=73.05  Aligned_cols=171  Identities=9%  Similarity=-0.070  Sum_probs=128.7

Q ss_pred             ChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCC----------HHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcC
Q 012804          267 RLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGK----------LEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAG  336 (456)
Q Consensus       267 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  336 (456)
                      ..++|.+.+++++..++. +..+|+.-..++...|+          ++++++.++.+.+...+ +..+|..-...+.+.+
T Consensus        44 ~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           44 LDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             CSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCS
T ss_pred             CCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcc
Confidence            345667777777776444 56666666666666666          78888888888876543 6777777777777888


Q ss_pred             --CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC-CHHHHHHHHHHhccC---ChhhHHHHHHHHHcc---------
Q 012804          337 --NIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDG-KIDHAINVFESMEVK---DSFTYSSMVHNLCKA---------  401 (456)
Q Consensus       337 --~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~---------  401 (456)
                        +++++...++++.+.. +-+...|+.-..++.+.| .++++++.++++.+.   +..+|.....++.+.         
T Consensus       122 ~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          122 EPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             cccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccccccc
Confidence              6688888888888875 567788888777888888 788888888888776   667777777766653         


Q ss_pred             -----CChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHH
Q 012804          402 -----KRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRRE  441 (456)
Q Consensus       402 -----~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  441 (456)
                           +.++++++.+++++...+. |...|......+.+.|..++
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~~P~-~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHCSS-CSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccHHHHHHHHHHHHHHHhhCCC-CccHHHHHHHHHhcCCCccc
Confidence                 5578999999999988654 88999988888888776443

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.46  E-value=1.8e-06  Score=75.40  Aligned_cols=137  Identities=12%  Similarity=-0.038  Sum_probs=88.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 012804          287 IVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDR  366 (456)
Q Consensus       287 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  366 (456)
                      ...+..+...+.+.|++++|...|++..+.  .+...          .....       ...... .+.+...+..+..+
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~--~~~~~----------~~~~~-------~~~~~~-~~~~~~~~~nla~~  282 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRY--VEGSR----------AAAED-------ADGAKL-QPVALSCVLNIGAC  282 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HHHHH----------HHSCH-------HHHGGG-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHH--hhcCc----------cccCh-------HHHHHH-HHHHHHHHHHHHHH
Confidence            344556666667777777777777666542  00000          00000       011111 12235667777778


Q ss_pred             HHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHH
Q 012804          367 LGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAK  443 (456)
Q Consensus       367 ~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  443 (456)
                      |.+.|++++|++.++++...   +...|..++.+|...|++++|++.|+++++..+. +...+..+..++...++.+++.
T Consensus       283 ~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~-~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          283 KLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888888877765   5667778888888888888888888888877533 6777777777777777777665


Q ss_pred             H
Q 012804          444 K  444 (456)
Q Consensus       444 ~  444 (456)
                      +
T Consensus       362 k  362 (370)
T 1ihg_A          362 K  362 (370)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=98.44  E-value=2.4e-06  Score=77.24  Aligned_cols=149  Identities=12%  Similarity=-0.036  Sum_probs=104.9

Q ss_pred             CChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcC--------------HHhHHHHHHH
Q 012804          266 GRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECD--------------KYTHTILIDG  331 (456)
Q Consensus       266 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~  331 (456)
                      +++++|...++...... +-....+..+...+.+.|++++|...|++..+......              ...|..+..+
T Consensus       248 ~~~~~A~~~~~~~~~~~-~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~  326 (457)
T 1kt0_A          248 KSFEKAKESWEMDTKEK-LEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMC  326 (457)
T ss_dssp             EEEECCCCGGGSCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhcccCcchhhcCHHHH-HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHH
Confidence            34445555544333321 12456777888889999999999999999887532211              4677788888


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHH
Q 012804          332 LCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSAS  408 (456)
Q Consensus       332 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~  408 (456)
                      +.+.|++++|+..++++++.. +.+...+..+..+|...|++++|+..|+++...   +..++..+..++.+.++.+++.
T Consensus       327 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          327 YLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888888764 556778888888888888888888888887766   5567777888888888777765


Q ss_pred             H-HHHHHHH
Q 012804          409 K-LLLSCLK  416 (456)
Q Consensus       409 ~-~~~~~~~  416 (456)
                      + .+++|..
T Consensus       406 ~~~~~~~f~  414 (457)
T 1kt0_A          406 RRIYANMFK  414 (457)
T ss_dssp             HHHHHHC--
T ss_pred             HHHHHHHHh
Confidence            3 4555543

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.44  E-value=5e-07  Score=81.96  Aligned_cols=116  Identities=12%  Similarity=-0.043  Sum_probs=58.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHH
Q 012804          296 LYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDH  375 (456)
Q Consensus       296 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  375 (456)
                      .+.+.|++++|.+.+++..+... .+..++..+..++.+.|++++|...++++.+.. +.+...+..+..+|...|++++
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~e   92 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRA   92 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            34455666666666666555421 235555555566666666666666666655542 3345555555555555555555


Q ss_pred             HHHHHHHhccC---ChhhHHHHHHH--HHccCChhHHHHHHHH
Q 012804          376 AINVFESMEVK---DSFTYSSMVHN--LCKAKRLPSASKLLLS  413 (456)
Q Consensus       376 a~~~~~~~~~~---~~~~~~~l~~~--~~~~~~~~~A~~~~~~  413 (456)
                      |.+.|+++.+.   +...+..+..+  +.+.|++++|++.+++
T Consensus        93 A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           93 ALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             HHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            55555555443   33334444333  4455555555555543

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.44  E-value=2.8e-06  Score=77.08  Aligned_cols=120  Identities=15%  Similarity=0.083  Sum_probs=76.3

Q ss_pred             HHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCH
Q 012804          224 MKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKL  303 (456)
Q Consensus       224 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  303 (456)
                      ...+...|++++|...++++.+.. +.+...+..+..++.+.|++++|...+++..+.... +...+..+..+|...|++
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCH
Confidence            344566777777777777777664 445667777777777777777777777777776432 566677777777777777


Q ss_pred             HHHHHHHHHHHHcCCCcCHHhHHHHHHH--HHhcCCHHHHHHHHH
Q 012804          304 EAAYLLLDEMEKQGFECDKYTHTILIDG--LCKAGNIKGARLHLE  346 (456)
Q Consensus       304 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~  346 (456)
                      ++|...+++..+.... +...+..+..+  +.+.|++++|...++
T Consensus        91 ~eA~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           91 RAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            7777777777664321 33344444444  666677777777766

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.42  E-value=4.5e-07  Score=64.71  Aligned_cols=83  Identities=17%  Similarity=0.035  Sum_probs=49.9

Q ss_pred             cCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHH
Q 012804          335 AGNIKGARLHLEYMNKIG--FDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASK  409 (456)
Q Consensus       335 ~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~  409 (456)
                      .|++++|+..|+++++.+  -+.+...+..+..++...|++++|++.|+++...   ++..+..++.++...|++++|++
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            456666666666666542  1233455666666666666666666666666544   55566666677777777777777


Q ss_pred             HHHHHHHc
Q 012804          410 LLLSCLKS  417 (456)
Q Consensus       410 ~~~~~~~~  417 (456)
                      .++++++.
T Consensus        83 ~~~~al~~   90 (117)
T 3k9i_A           83 LLLKIIAE   90 (117)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            77776655

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.42  E-value=5.9e-07  Score=77.62  Aligned_cols=148  Identities=16%  Similarity=0.022  Sum_probs=66.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 012804          286 DIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVD  365 (456)
Q Consensus       286 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  365 (456)
                      ....+..+...+.+.|++++|...|++....  .|+...       +...++.+++...+.          ...+..+..
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~  238 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH----------HHHHHHHHH
Confidence            3556777778888889999999999988775  333321       111122222221110          124555566


Q ss_pred             HHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHH-HHccCChHH
Q 012804          366 RLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDG-LRHSGCRRE  441 (456)
Q Consensus       366 ~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~  441 (456)
                      +|.+.|++++|+..++++...   +...|..++.+|...|++++|+..|+++++..+. +...+..+..+ ....+..+.
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~-~~~a~~~L~~l~~~~~~~~~~  317 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD-DKAIRRELRALAEQEKALYQK  317 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666666665543   4555666666666666666666666666544322 33444444443 223445555


Q ss_pred             HHHHHHHHHhcc
Q 012804          442 AKKIQSKIRMAK  453 (456)
Q Consensus       442 A~~~~~~~~~~~  453 (456)
                      +...|+++....
T Consensus       318 a~~~~~~~l~~~  329 (338)
T 2if4_A          318 QKEMYKGIFKGK  329 (338)
T ss_dssp             ------------
T ss_pred             HHHHHHHhhCCC
Confidence            666666655443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.40  E-value=9.4e-07  Score=63.02  Aligned_cols=86  Identities=13%  Similarity=0.017  Sum_probs=71.6

Q ss_pred             hCCCHHHHHHHHHHhccC------ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHH
Q 012804          369 KDGKIDHAINVFESMEVK------DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREA  442 (456)
Q Consensus       369 ~~g~~~~a~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  442 (456)
                      ..|++++|+..|+++...      +...+..++.+|...|++++|++.++++++..+. +...+..++.++...|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHH
Confidence            468899999999988765      3567889999999999999999999999988654 788899999999999999999


Q ss_pred             HHHHHHHHhcccC
Q 012804          443 KKIQSKIRMAKIS  455 (456)
Q Consensus       443 ~~~~~~~~~~~~~  455 (456)
                      ...+++..+..+.
T Consensus        81 ~~~~~~al~~~p~   93 (117)
T 3k9i_A           81 VELLLKIIAETSD   93 (117)
T ss_dssp             HHHHHHHHHHHCC
T ss_pred             HHHHHHHHHhCCC
Confidence            9999998876543

>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=98.39  E-value=3.7e-06  Score=75.95  Aligned_cols=129  Identities=7%  Similarity=-0.030  Sum_probs=78.5

Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHhCCCCC--------------CHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCC
Q 012804           44 TYNMLIDAYCQFVSFDAGYTILNRMREAGISP--------------DVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIP  109 (456)
Q Consensus        44 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  109 (456)
                      .+..+...+.+.|++++|+..|++..+.....              ....|..+..++.+.|++++|+..+++.++....
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~  349 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDSA  349 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc
Confidence            44444445555555555555555444431110              1456677777777777777777777777775433


Q ss_pred             CCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHH-HHHHHH
Q 012804          110 PDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALR-MFRGLQ  174 (456)
Q Consensus       110 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~-~~~~~~  174 (456)
                       +...|..+..+|...|++++|...|+++.+.. +.+...+..+..++.+.++.+++.+ .+..|.
T Consensus       350 -~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          350 -NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             -cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             56677777777778888888888887777664 4455677777777777777766553 344443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.38  E-value=1.8e-06  Score=65.73  Aligned_cols=103  Identities=10%  Similarity=-0.066  Sum_probs=86.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--------CC---------CcCHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 012804          286 DIVSYNTLINLYCKEGKLEAAYLLLDEMEKQ--------GF---------ECDKYTHTILIDGLCKAGNIKGARLHLEYM  348 (456)
Q Consensus       286 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~---------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  348 (456)
                      ....+......+.+.|++++|...|......        ..         +.+...+..+..++.+.|++++|...++.+
T Consensus        10 ~a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~a   89 (162)
T 3rkv_A           10 SVEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEV   89 (162)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            4567788889999999999999999998764        10         113457888899999999999999999999


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCChh
Q 012804          349 NKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSF  389 (456)
Q Consensus       349 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  389 (456)
                      ++.. +.+...+..++.++...|++++|...|+++...++.
T Consensus        90 l~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~  129 (162)
T 3rkv_A           90 LKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPA  129 (162)
T ss_dssp             HHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGG
T ss_pred             HhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCC
Confidence            9874 667889999999999999999999999998876443

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.35  E-value=1.3e-05  Score=58.85  Aligned_cols=110  Identities=12%  Similarity=-0.064  Sum_probs=72.7

Q ss_pred             CCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----CCCHHHH
Q 012804          301 GKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGK----DGKIDHA  376 (456)
Q Consensus       301 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a  376 (456)
                      +++++|...|++..+.| .|+..    +...|...+.+++|..+|++..+.|   +......|...|..    .+++++|
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            35667777777777665 22322    5555656666677777777776654   55666666666666    6677777


Q ss_pred             HHHHHHhccC-ChhhHHHHHHHHHc----cCChhHHHHHHHHHHHcC
Q 012804          377 INVFESMEVK-DSFTYSSMVHNLCK----AKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       377 ~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~  418 (456)
                      .+.|+++.+. ++..+..+...|..    .+++++|.+.|+++.+.|
T Consensus        81 ~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           81 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            7777776655 66667777777766    667777777777776665

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.30  E-value=3.7e-06  Score=72.63  Aligned_cols=147  Identities=15%  Similarity=0.029  Sum_probs=86.7

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHH
Q 012804          252 GFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDG  331 (456)
Q Consensus       252 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  331 (456)
                      ...+..+...+.+.|++++|...|++.+..  .|+...       +...|+.+++...+          ....+..+..+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l----------~~~~~~nla~~  239 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV----------KNPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH----------HTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH----------HHHHHHHHHHH
Confidence            445667777888999999999999998875  233221       22334444443222          12367888889


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHH-HccCChhHH
Q 012804          332 LCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNL-CKAKRLPSA  407 (456)
Q Consensus       332 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~-~~~~~~~~A  407 (456)
                      +.+.|++++|...++++++.. +.+...+..+..+|...|++++|...|+++...   +...+..+.... ...+..+++
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999998864 567888999999999999999999999998776   455666665553 345677788


Q ss_pred             HHHHHHHHHcC
Q 012804          408 SKLLLSCLKSG  418 (456)
Q Consensus       408 ~~~~~~~~~~~  418 (456)
                      .+.|+++....
T Consensus       319 ~~~~~~~l~~~  329 (338)
T 2if4_A          319 KEMYKGIFKGK  329 (338)
T ss_dssp             -----------
T ss_pred             HHHHHHhhCCC
Confidence            88999887553

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.29  E-value=8.7e-06  Score=71.12  Aligned_cols=138  Identities=14%  Similarity=-0.077  Sum_probs=73.4

Q ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHH
Q 012804            8 RLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGA   87 (456)
Q Consensus         8 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   87 (456)
                      ..+..+...+.+.|++++|+..|+++++.-.  ...          ....       .+...+. .+.+...|..+..++
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~--~~~----------~~~~-------~~~~~~~-~~~~~~~~~nla~~~  283 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVE--GSR----------AAAE-------DADGAKL-QPVALSCVLNIGACK  283 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH--HHH----------HHSC-------HHHHGGG-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhh--cCc----------cccC-------hHHHHHH-HHHHHHHHHHHHHHH
Confidence            3456666777777777777777777765210  000          0000       0000001 012344555566666


Q ss_pred             HcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHH
Q 012804           88 TRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNAL  167 (456)
Q Consensus        88 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  167 (456)
                      .+.|++++|++.+++.++... .+...+..+..+|...|++++|.+.|++..+.. +.+...+..+..++...++.+++.
T Consensus       284 ~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          284 LKMSDWQGAVDSCLEALEIDP-SNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccCHHHHHHHHHHHHHhCc-hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666666665432 245556666666666666666666666665543 334555555555555555555544

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.27  E-value=7.4e-05  Score=69.10  Aligned_cols=170  Identities=8%  Similarity=-0.052  Sum_probs=128.2

Q ss_pred             hhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCC----------hHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcC-
Q 012804          233 YKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGR----------LKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEG-  301 (456)
Q Consensus       233 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-  301 (456)
                      .++|++.++.+...+ +.+..+|+.--.++...|+          ++++.+.++.+...+++ +..+|..-..++.+.| 
T Consensus        45 ~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           45 DESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             SHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSS
T ss_pred             CHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHccc
Confidence            456777888887775 5556666665555666666          78888888888887554 7788887777788888 


Q ss_pred             -CHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhC---------
Q 012804          302 -KLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAG-NIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKD---------  370 (456)
Q Consensus       302 -~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---------  370 (456)
                       +++++++.++++.+.... +..+|+.-..++.+.| .++++.+.+.++++.. +.|...|+.....+.+.         
T Consensus       123 ~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          123 PNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             CCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             ccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhccccccccc
Confidence             668999999998887544 7778887777777888 7888888888888764 56777887777766653         


Q ss_pred             -----CCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhH
Q 012804          371 -----GKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPS  406 (456)
Q Consensus       371 -----g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~  406 (456)
                           +.++++++.++++...   +..+|..+...+.+.+++++
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                 4578888888887754   77889888888888777544

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.26  E-value=2.1e-05  Score=57.70  Aligned_cols=108  Identities=7%  Similarity=-0.144  Sum_probs=61.5

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC-ChhhHHHHHHHHHc----cCChhHHHHHH
Q 012804          337 NIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK-DSFTYSSMVHNLCK----AKRLPSASKLL  411 (456)
Q Consensus       337 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~A~~~~  411 (456)
                      ++++|..+|++..+.+ .++..    +...|...+.+++|.+.|++.... ++..+..+...|..    .+++++|++.|
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~   84 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYY   84 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHHH
Confidence            4556666666665554 22222    555555555566666666655554 55566666666655    55666666666


Q ss_pred             HHHHHcCCCCCHHhHHHHHHHHHc----cCChHHHHHHHHHHHhc
Q 012804          412 LSCLKSGVRILKSAQKAVVDGLRH----SGCRREAKKIQSKIRMA  452 (456)
Q Consensus       412 ~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~  452 (456)
                      +++.+.|   ++..+..+...|..    .++.++|..++++.-+.
T Consensus        85 ~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A           85 SKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRL  126 (138)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHC
Confidence            6665543   44555555555655    56666666666655443

>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=98.25  E-value=2.3e-05  Score=57.92  Aligned_cols=64  Identities=16%  Similarity=0.050  Sum_probs=39.3

Q ss_pred             hHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCC------CH-----HhHHHHHHHHHccCChhHHHHHHHHHHh
Q 012804            7 TRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLP------DV-----VTYNMLIDAYCQFVSFDAGYTILNRMRE   70 (456)
Q Consensus         7 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~------~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~   70 (456)
                      ...+......+.+.|++++|+..|+++++..+..      +.     ..|..+..++.+.|++++|+..+++..+
T Consensus        11 a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~   85 (159)
T 2hr2_A           11 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALH   85 (159)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3455666777888888888888888888765441      11     1444455555555555555555554443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.23  E-value=7.1e-06  Score=73.97  Aligned_cols=88  Identities=14%  Similarity=-0.126  Sum_probs=41.3

Q ss_pred             HHhcCCHHHHHHHHHHHHHc---CCCc----CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C--CCCCHHHHHH
Q 012804          297 YCKEGKLEAAYLLLDEMEKQ---GFEC----DKYTHTILIDGLCKAGNIKGARLHLEYMNKI-----G--FDSNLEAYNC  362 (456)
Q Consensus       297 ~~~~~~~~~a~~~~~~~~~~---~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~  362 (456)
                      +...|++++|..++++..+.   -+.|    ...+++.|..+|...|++++|..++++++..     |  .+....+++.
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            33455566665555554321   0111    1234555555555555555555555554321     1  0111334445


Q ss_pred             HHHHHHhCCCHHHHHHHHHHhc
Q 012804          363 IVDRLGKDGKIDHAINVFESME  384 (456)
Q Consensus       363 l~~~~~~~g~~~~a~~~~~~~~  384 (456)
                      |...|...|++++|..+++++.
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al  420 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAY  420 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHH
Confidence            5555555555555555555443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.16  E-value=1.2e-06  Score=61.64  Aligned_cols=89  Identities=15%  Similarity=0.084  Sum_probs=46.7

Q ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCC------HHhHH
Q 012804          357 LEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRIL------KSAQK  427 (456)
Q Consensus       357 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~------~~~~~  427 (456)
                      ...+..+...+...|++++|++.|+++...   ++..|..++.++...|++++|++.++++++..+. +      ...+.
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~   82 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTST-AEHVAIRSKLQY   82 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSS-TTSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ccHHHHHHHHHH
Confidence            344445555555555555555555554433   4455555666666666666666666666544322 2      33444


Q ss_pred             HHHHHHHccCChHHHHHHH
Q 012804          428 AVVDGLRHSGCRREAKKIQ  446 (456)
Q Consensus       428 ~l~~~~~~~g~~~~A~~~~  446 (456)
                      .++.++...|+.++|...+
T Consensus        83 ~~~~~~~~~~~~~~a~~~~  101 (111)
T 2l6j_A           83 RLELAQGAVGSVQIPVVEV  101 (111)
T ss_dssp             HHHHHHHHHHCCCCCSSSS
T ss_pred             HHHHHHHHHHhHhhhHhHH
Confidence            4555555555555444433

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.13  E-value=2.2e-05  Score=70.86  Aligned_cols=119  Identities=10%  Similarity=-0.034  Sum_probs=59.1

Q ss_pred             HhcCCHHHHHHHHHHHHhC---CCCC----CHHHHHHHHHHHHhCCCHHHHHHHHHHhccC-----------ChhhHHHH
Q 012804          333 CKAGNIKGARLHLEYMNKI---GFDS----NLEAYNCIVDRLGKDGKIDHAINVFESMEVK-----------DSFTYSSM  394 (456)
Q Consensus       333 ~~~~~~~~a~~~~~~~~~~---~~~~----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----------~~~~~~~l  394 (456)
                      ...|++++|+.++++.++.   -+.+    ...+++.|+.+|...|++++|..+++++...           ...+++.|
T Consensus       320 ~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nL  399 (490)
T 3n71_A          320 RSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRA  399 (490)
T ss_dssp             HTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHH
T ss_pred             HhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            3455566666555554422   0111    1344555555666666666666655554432           22345555


Q ss_pred             HHHHHccCChhHHHHHHHHHHHc-----CCC-CC-HHhHHHHHHHHHccCChHHHHHHHHHHHh
Q 012804          395 VHNLCKAKRLPSASKLLLSCLKS-----GVR-IL-KSAQKAVVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       395 ~~~~~~~~~~~~A~~~~~~~~~~-----~~~-~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      +..|...|++++|+.+++++++.     |.. |+ ..+...+..++...|.+++|...+.+++.
T Consensus       400 a~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          400 GLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666665555421     221 11 12233444455555566666666655554

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.10  E-value=4e-06  Score=58.92  Aligned_cols=92  Identities=8%  Similarity=-0.116  Sum_probs=63.8

Q ss_pred             CchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCC-------H
Q 012804            5 LSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPD-------V   77 (456)
Q Consensus         5 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------~   77 (456)
                      +++..+..+...+...|++++|+..|+++++..+. +...+..+..++.+.|++++|++.+++..+..  |+       .
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~   78 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQ-NPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT--STAEHVAIRS   78 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC--SSTTSHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCccHHHHHH
Confidence            45667778888888888888888888888877643 66777788888888888888888888887653  33       3


Q ss_pred             hHHHHHHHHHHcCCChhHHHHH
Q 012804           78 VTYNSLIAGATRNSLLSCSLDL   99 (456)
Q Consensus        78 ~~~~~l~~~~~~~~~~~~a~~~   99 (456)
                      ..+..+..++...|+.+.+.+.
T Consensus        79 ~~~~~~~~~~~~~~~~~~a~~~  100 (111)
T 2l6j_A           79 KLQYRLELAQGAVGSVQIPVVE  100 (111)
T ss_dssp             HHHHHHHHHHHHHHCCCCCSSS
T ss_pred             HHHHHHHHHHHHHHhHhhhHhH
Confidence            3444445555555554444433

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.09  E-value=4.5e-05  Score=51.08  Aligned_cols=81  Identities=12%  Similarity=0.104  Sum_probs=55.2

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIA   85 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   85 (456)
                      ++..+..+...+...|++++|+..++++.+..+ .+...+..+..++.+.|++++|...+++..+.. +.+...+..+..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~   85 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            456777777777888888888888888777653 356677777777777777777777777776653 224455555544


Q ss_pred             HHH
Q 012804           86 GAT   88 (456)
Q Consensus        86 ~~~   88 (456)
                      ++.
T Consensus        86 ~~~   88 (91)
T 1na3_A           86 AKQ   88 (91)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.08  E-value=1.7e-05  Score=56.14  Aligned_cols=76  Identities=16%  Similarity=0.055  Sum_probs=37.9

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          341 ARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       341 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      +...++.+.+.. +.+...+..+...+...|++++|+..|+++...   +...|..++.++...|++++|...|+++++.
T Consensus         4 a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~   82 (115)
T 2kat_A            4 ITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAA   82 (115)
T ss_dssp             HHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            344444444432 334445555555555555555555555544433   3444555555555555555555555555443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.04  E-value=2.1e-05  Score=55.64  Aligned_cols=78  Identities=15%  Similarity=0.078  Sum_probs=67.3

Q ss_pred             HHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHh
Q 012804          375 HAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       375 ~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      +|++.|+++...   ++..+..++.++...|++++|+..++++++..+. +...+..++.++...|++++|...+++..+
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPT-YSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            566777776654   7788999999999999999999999999988643 678899999999999999999999999876


Q ss_pred             cc
Q 012804          452 AK  453 (456)
Q Consensus       452 ~~  453 (456)
                      ..
T Consensus        82 ~~   83 (115)
T 2kat_A           82 AA   83 (115)
T ss_dssp             HH
T ss_pred             hc
Confidence            43

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.03  E-value=3.7e-05  Score=51.46  Aligned_cols=79  Identities=14%  Similarity=0.145  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 012804          357 LEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGL  433 (456)
Q Consensus       357 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  433 (456)
                      ...+..+...+...|++++|...++++...   +...+..++.++...|++++|.+.++++++..+. +...+..++.++
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~l~~~~   87 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CHHHHHHHHHHH
Confidence            344555555666666666666666655443   4555666666777777777777777777665432 555555555555


Q ss_pred             Hcc
Q 012804          434 RHS  436 (456)
Q Consensus       434 ~~~  436 (456)
                      ...
T Consensus        88 ~~~   90 (91)
T 1na3_A           88 QKQ   90 (91)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            443

>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=97.98  E-value=9.9e-06  Score=59.73  Aligned_cols=86  Identities=10%  Similarity=0.014  Sum_probs=66.7

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCH----------HHHHHHHHHhccC---ChhhHHHHHHHH
Q 012804          332 LCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKI----------DHAINVFESMEVK---DSFTYSSMVHNL  398 (456)
Q Consensus       332 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~----------~~a~~~~~~~~~~---~~~~~~~l~~~~  398 (456)
                      ..+.+.+++|...++...+.. +.+...|..+..++...+++          ++|+..|+++...   +..+|..++.+|
T Consensus        12 ~~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay   90 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHH
Confidence            345677889999999988875 66788888888888887765          4888888877665   566788888888


Q ss_pred             HccC-----------ChhHHHHHHHHHHHcC
Q 012804          399 CKAK-----------RLPSASKLLLSCLKSG  418 (456)
Q Consensus       399 ~~~~-----------~~~~A~~~~~~~~~~~  418 (456)
                      ...|           ++++|++.|+++++.+
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~  121 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDEQ  121 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHhC
Confidence            7764           7888888888888664

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.93  E-value=6e-05  Score=51.64  Aligned_cols=69  Identities=14%  Similarity=-0.032  Sum_probs=54.8

Q ss_pred             CCCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhC
Q 012804            2 FGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREA   71 (456)
Q Consensus         2 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   71 (456)
                      ..|.++..+..+...+...|++++|+..|+++++.++. +...|..+..++...|++++|++.|++..+.
T Consensus         2 ~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            2 EDPEDPFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             ---CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            35677888888888888889999999999988887754 6668888888888888888888888877653

>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=97.93  E-value=5.1e-05  Score=55.95  Aligned_cols=98  Identities=10%  Similarity=0.035  Sum_probs=71.7

Q ss_pred             HHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChh----------HHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 012804           17 FCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFD----------AGYTILNRMREAGISPDVVTYNSLIAG   86 (456)
Q Consensus        17 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~----------~a~~~~~~~~~~~~~~~~~~~~~l~~~   86 (456)
                      ..+.+.+++|++.++..++..+. +...|..+..++...++++          +|+..|++..+.+ +.+..+|..+..+
T Consensus        12 ~~r~~~feeA~~~~~~Ai~l~P~-~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~a   89 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHH
Confidence            45678899999999999998864 8888988888888887754          8888888887764 2356677777777


Q ss_pred             HHcCC-----------ChhHHHHHHHHHHHCCCCCCHHhHHHH
Q 012804           87 ATRNS-----------LLSCSLDLLDEMLEMGIPPDVWSYNSL  118 (456)
Q Consensus        87 ~~~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~l  118 (456)
                      |...|           ++++|++.|++.++.  .|+...|...
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~a  130 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKS  130 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHH
Confidence            77654           677777777777764  3554444333

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.92  E-value=6e-05  Score=51.64  Aligned_cols=82  Identities=11%  Similarity=0.026  Sum_probs=61.0

Q ss_pred             CCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCC-CCCHHhHHHH
Q 012804          354 DSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGV-RILKSAQKAV  429 (456)
Q Consensus       354 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~l  429 (456)
                      +.+...+..+..++...|++++|++.|+++...   ++..|..++.+|...|++++|++.++++++... .++......+
T Consensus         4 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~l   83 (100)
T 3ma5_A            4 PEDPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGTQKDLSEL   83 (100)
T ss_dssp             -CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhcCCchhHHHHH
Confidence            446778888888999999999999999988765   567888889999999999999999998876522 2344444444


Q ss_pred             HHHHHc
Q 012804          430 VDGLRH  435 (456)
Q Consensus       430 ~~~~~~  435 (456)
                      ...+..
T Consensus        84 ~~~l~~   89 (100)
T 3ma5_A           84 QDAKLK   89 (100)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444443

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.68  E-value=0.001  Score=56.65  Aligned_cols=64  Identities=11%  Similarity=-0.007  Sum_probs=31.5

Q ss_pred             CCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC--ChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          354 DSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK--DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       354 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      +.+...+..+...+...|++++|...++++...  +...|..+...+.-.|++++|.+.++++...
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL  339 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNL  339 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            334444444444444445555555555555444  2223334444455555555555555555544

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.67  E-value=0.0021  Score=54.75  Aligned_cols=143  Identities=10%  Similarity=0.005  Sum_probs=89.2

Q ss_pred             CCCCHHhHHHHHHHHHc--c---CChhHHHHHHHHHHhCCCCCC-HhHHHHHHHHHHc----CCCh-hHH---HHHHHHH
Q 012804           38 VLPDVVTYNMLIDAYCQ--F---VSFDAGYTILNRMREAGISPD-VVTYNSLIAGATR----NSLL-SCS---LDLLDEM  103 (456)
Q Consensus        38 ~~~~~~~~~~l~~~~~~--~---~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~----~~~~-~~a---~~~~~~~  103 (456)
                      ++.+...|...+++...  .   .+..+|+.+|++..+..  |+ ...|..+.-++..    .+.. ...   ...++..
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lD--P~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~  267 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSS--PEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNI  267 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHH
Confidence            34567777776665432  2   23467888888887763  43 3344433333321    1111 111   1122211


Q ss_pred             HH-CCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcH
Q 012804          104 LE-MGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPEL  182 (456)
Q Consensus       104 ~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  182 (456)
                      .. ...+.++.+|..+...+...|++++|...+++++..+  |+...|..+...+.-.|++++|.+.+++....  .|..
T Consensus       268 ~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~  343 (372)
T 3ly7_A          268 VTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGA  343 (372)
T ss_dssp             HTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSH
T ss_pred             HhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCc
Confidence            11 1224577778777777777899999999999988875  67777777888888899999999999888775  4566


Q ss_pred             HHHH
Q 012804          183 VTYN  186 (456)
Q Consensus       183 ~~~~  186 (456)
                      .+|.
T Consensus       344 ~t~~  347 (372)
T 3ly7_A          344 NTLY  347 (372)
T ss_dssp             HHHH
T ss_pred             ChHH
Confidence            6654

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.67  E-value=7.5e-05  Score=50.97  Aligned_cols=52  Identities=19%  Similarity=0.172  Sum_probs=26.3

Q ss_pred             HHHhCCCHHHHHHHHHHhccC---Chh-hHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          366 RLGKDGKIDHAINVFESMEVK---DSF-TYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       366 ~~~~~g~~~~a~~~~~~~~~~---~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      .+.+.|++++|.+.|+++...   +.. .+..++.++...|++++|++.|+++++.
T Consensus         9 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            344445555555555544333   333 4455555555555555555555555544

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.52  E-value=0.00075  Score=45.11  Aligned_cols=69  Identities=6%  Similarity=0.126  Sum_probs=56.4

Q ss_pred             CCCchHHHHHHHHHHHhhCc---HHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCC
Q 012804            3 GKLSTRLLNICVCTFCKANR---LEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAG   72 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   72 (456)
                      .|.|+..+..+..++...++   .++|..+++++++.++. ++.....+...+.+.|++++|+..|+.+.+..
T Consensus         2 ~p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            2 NAVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CCCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            46788888888888865555   68899999998888754 77788888888888999999999999888764

>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=97.46  E-value=0.00032  Score=62.20  Aligned_cols=82  Identities=7%  Similarity=-0.095  Sum_probs=50.6

Q ss_pred             cCCHHHHHHHHHHHHhC---CCCC----CHHHHHHHHHHHHhCCCHHHHHHHHHHhccC-----------ChhhHHHHHH
Q 012804          335 AGNIKGARLHLEYMNKI---GFDS----NLEAYNCIVDRLGKDGKIDHAINVFESMEVK-----------DSFTYSSMVH  396 (456)
Q Consensus       335 ~~~~~~a~~~~~~~~~~---~~~~----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----------~~~~~~~l~~  396 (456)
                      .|++++|+.++++.++.   -+.|    ...+++.++.+|...|++++|..+++++...           ...+++.|+.
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            45666777666665432   1111    1345666667777777777777777665443           2345667777


Q ss_pred             HHHccCChhHHHHHHHHHHH
Q 012804          397 NLCKAKRLPSASKLLLSCLK  416 (456)
Q Consensus       397 ~~~~~~~~~~A~~~~~~~~~  416 (456)
                      .|...|++++|+.+++++++
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHH
Confidence            77777777777777777653

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.44  E-value=0.0011  Score=44.30  Aligned_cols=66  Identities=14%  Similarity=0.001  Sum_probs=52.9

Q ss_pred             CCCHHHHHHHHHHHHhCCC---HHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCC
Q 012804          354 DSNLEAYNCIVDRLGKDGK---IDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGV  419 (456)
Q Consensus       354 ~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  419 (456)
                      +.+...+..+..++...++   .++|..+++++...   ++..+..++..+.+.|++++|+..|+++++..+
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p   74 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSND   74 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            5677888888887765554   68899999888766   667778888888999999999999999987743

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.38  E-value=0.00072  Score=45.90  Aligned_cols=62  Identities=15%  Similarity=0.043  Sum_probs=54.0

Q ss_pred             HHHHHHHccCChhHHHHHHHHHHHcCCCCCHH-hHHHHHHHHHccCChHHHHHHHHHHHhcccC
Q 012804          393 SMVHNLCKAKRLPSASKLLLSCLKSGVRILKS-AQKAVVDGLRHSGCRREAKKIQSKIRMAKIS  455 (456)
Q Consensus       393 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  455 (456)
                      ..+..+...|++++|++.++++++..+. +.. .+..++.++...|++++|...|++..+.++.
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~   67 (99)
T 2kc7_A            5 KTIKELINQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPD   67 (99)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence            4567788999999999999999988543 667 8899999999999999999999999887664

>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=97.38  E-value=0.00091  Score=59.40  Aligned_cols=86  Identities=12%  Similarity=0.013  Sum_probs=55.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCC---CCCC----HHHHHHHHHHHHhCCCHHHHHHHHHHhccC-----------ChhhHH
Q 012804          331 GLCKAGNIKGARLHLEYMNKIG---FDSN----LEAYNCIVDRLGKDGKIDHAINVFESMEVK-----------DSFTYS  392 (456)
Q Consensus       331 ~~~~~~~~~~a~~~~~~~~~~~---~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----------~~~~~~  392 (456)
                      .+...|++++|+.++++.++..   +.|+    ..+++.++.+|...|++++|+.+++++...           ...+++
T Consensus       296 ~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~  375 (429)
T 3qwp_A          296 ELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVM  375 (429)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHH
T ss_pred             HHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHH
Confidence            3455667777777777665431   1121    445666677777777777777777765543           234567


Q ss_pred             HHHHHHHccCChhHHHHHHHHHHH
Q 012804          393 SMVHNLCKAKRLPSASKLLLSCLK  416 (456)
Q Consensus       393 ~l~~~~~~~~~~~~A~~~~~~~~~  416 (456)
                      .|+..|...|++++|+.+++++++
T Consensus       376 nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          376 KVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH
Confidence            777788888888888887777753

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.38  E-value=3.6e-06  Score=72.82  Aligned_cols=245  Identities=11%  Similarity=0.034  Sum_probs=152.8

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIA   85 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   85 (456)
                      .+.+|+.|..+....|+..+|++-|-++      .|+..|..++.+..+.|.+++-+..+...++..-  ++..=+.|+-
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIkA------~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~  124 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIF  124 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCCC------SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHhC------CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHH
Confidence            4567888888999888888888766432      3566788899999999999999988887766533  3344457888


Q ss_pred             HHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCC--------------------CCC
Q 012804           86 GATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGD--------------------LTP  145 (456)
Q Consensus        86 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------------------~~~  145 (456)
                      +|++.++..+..+++.       .||..-...+.+-|...|.++.|.-+|..+....                    -..
T Consensus       125 ayAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAn  197 (624)
T 3lvg_A          125 ALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKAN  197 (624)
T ss_dssp             HHHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCC
T ss_pred             HHHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            8999988776554431       2566566677777777887777777665542110                    123


Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012804          146 CTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMK  225 (456)
Q Consensus       146 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  225 (456)
                      ++.+|-.+..+|...+.+.-|.-.--.+.-.   |+  -...++..|-..|.+++.+.+++.-... -......|+-|.-
T Consensus       198 s~ktWKeV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaI  271 (624)
T 3lvg_A          198 STRTWKEVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAI  271 (624)
T ss_dssp             SSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHH
T ss_pred             ChhHHHHHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHH
Confidence            5678888888888888877766554333322   11  1223455667777777777777766532 1235566666666


Q ss_pred             HHHhcCchhHHHHHHHHHHHc-CCCc------ChhhHHHHHHHHHHcCChHHHH
Q 012804          226 CCFRNRKYKLGLEILSAMKRK-GYTF------DGFGYCTVIAAFVKIGRLKEAT  272 (456)
Q Consensus       226 ~~~~~~~~~~a~~~~~~~~~~-~~~~------~~~~~~~l~~~~~~~~~~~~a~  272 (456)
                      .|++- ++++..+.++....+ +++.      ....|.-+.-.|..-.+++.|.
T Consensus       272 LYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          272 LYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             HHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             HHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            55543 445444444332221 2111      2334555566666666666544

>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=97.35  E-value=0.00063  Score=60.29  Aligned_cols=83  Identities=11%  Similarity=-0.069  Sum_probs=67.2

Q ss_pred             hCCCHHHHHHHHHHhccC-----------ChhhHHHHHHHHHccCChhHHHHHHHHHHHc-----CC-CC-CHHhHHHHH
Q 012804          369 KDGKIDHAINVFESMEVK-----------DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS-----GV-RI-LKSAQKAVV  430 (456)
Q Consensus       369 ~~g~~~~a~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~-~~-~~~~~~~l~  430 (456)
                      ..|++++|..++++....           ...+++.++.+|...|++++|+.+++++++.     |. .| ...+++.++
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            457899999999876553           2357889999999999999999999998643     32 12 235788899


Q ss_pred             HHHHccCChHHHHHHHHHHHh
Q 012804          431 DGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       431 ~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      ..|..+|++++|..++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999998865

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.35  E-value=0.038  Score=53.99  Aligned_cols=187  Identities=17%  Similarity=0.135  Sum_probs=109.9

Q ss_pred             HHHcCCHHHHHH-HHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHH
Q 012804          192 LCKAGRLRTARW-ILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKE  270 (456)
Q Consensus       192 ~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  270 (456)
                      ....+++++|.+ ++..+      ++......++..+.+.|.++.|.++.+.         .   ..-.......|+++.
T Consensus       609 ~~~~~~~~~a~~~~l~~i------~~~~~~~~~~~~l~~~~~~~~a~~~~~~---------~---~~~f~~~l~~~~~~~  670 (814)
T 3mkq_A          609 LTLRGEIEEAIENVLPNV------EGKDSLTKIARFLEGQEYYEEALNISPD---------Q---DQKFELALKVGQLTL  670 (814)
T ss_dssp             HHHTTCHHHHHHHTGGGC------CCHHHHHHHHHHHHHTTCHHHHHHHCCC---------H---HHHHHHHHHHTCHHH
T ss_pred             HHHhCCHHHHHHHHHhcC------CchHHHHHHHHHHHhCCChHHheecCCC---------c---chheehhhhcCCHHH
Confidence            345677777765 44211      1122235566666777777777765421         1   111234456788888


Q ss_pred             HHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 012804          271 ATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNK  350 (456)
Q Consensus       271 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  350 (456)
                      |.++.+.+      .+...|..+...+.+.|+++.|.+.|.++.+         |..+...+...|+.+...++.+....
T Consensus       671 A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~  735 (814)
T 3mkq_A          671 ARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAET  735 (814)
T ss_dssp             HHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHH
Confidence            88875433      3677888888889999999999888887743         23444445556777766666655555


Q ss_pred             CCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCH----HhH
Q 012804          351 IGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILK----SAQ  426 (456)
Q Consensus       351 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~  426 (456)
                      .|   +   +.....+|.+.|++++|++++.                  +.+++++|..+-++.   +  |..    ...
T Consensus       736 ~~---~---~~~A~~~~~~~g~~~~a~~~~~------------------~~~~~~~A~~lA~~~---~--~~~~~i~~~~  786 (814)
T 3mkq_A          736 TG---K---FNLAFNAYWIAGDIQGAKDLLI------------------KSQRFSEAAFLGSTY---G--LGDNEVNDIV  786 (814)
T ss_dssp             TT---C---HHHHHHHHHHHTCHHHHHHHHH------------------HTTCHHHHHHHHHHT---T--CCHHHHHHHH
T ss_pred             cC---c---hHHHHHHHHHcCCHHHHHHHHH------------------HcCChHHHHHHHHHh---C--CChHHHHHHH
Confidence            43   1   2333345666777777777654                  446666666655543   2  233    344


Q ss_pred             HHHHHHHHccCChH
Q 012804          427 KAVVDGLRHSGCRR  440 (456)
Q Consensus       427 ~~l~~~~~~~g~~~  440 (456)
                      ......+...|+.+
T Consensus       787 ~~~~~~L~~~~~~~  800 (814)
T 3mkq_A          787 TKWKENLILNGKNT  800 (814)
T ss_dssp             HHHHHHHHTTTCHH
T ss_pred             HHHHHHHHhccchh
Confidence            44444555566543

>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=97.29  E-value=0.0019  Score=57.37  Aligned_cols=88  Identities=10%  Similarity=-0.066  Sum_probs=70.8

Q ss_pred             HHHHHhCCCHHHHHHHHHHhccC-----------ChhhHHHHHHHHHccCChhHHHHHHHHHHHc-----CCC-C-CHHh
Q 012804          364 VDRLGKDGKIDHAINVFESMEVK-----------DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS-----GVR-I-LKSA  425 (456)
Q Consensus       364 ~~~~~~~g~~~~a~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~~-~-~~~~  425 (456)
                      +..+.+.|++++|+.+++++...           ...+++.++.+|...|++++|+.+++++++.     |.. | ...+
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            44566789999999999987654           2457888999999999999999999998643     221 2 2356


Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHh
Q 012804          426 QKAVVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       426 ~~~l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      +..++..|..+|++++|..++++..+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            77899999999999999999998765

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.27  E-value=0.0012  Score=48.16  Aligned_cols=82  Identities=12%  Similarity=0.015  Sum_probs=63.2

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHhccCC-----hhhHHHHHHHHHccCChhHHH
Q 012804          337 NIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDG---KIDHAINVFESMEVKD-----SFTYSSMVHNLCKAKRLPSAS  408 (456)
Q Consensus       337 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~A~  408 (456)
                      ....+.+-|......+ +++..+.-.+..++++.+   ++++++.+++.....+     ...+..+.-++.+.|++++|.
T Consensus        13 ~l~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHH
Confidence            3456677777766665 578888888888888888   5668888888776654     356777888889999999999


Q ss_pred             HHHHHHHHcCC
Q 012804          409 KLLLSCLKSGV  419 (456)
Q Consensus       409 ~~~~~~~~~~~  419 (456)
                      +.++++++..+
T Consensus        92 ~y~~~lL~ieP  102 (152)
T 1pc2_A           92 KYVRGLLQTEP  102 (152)
T ss_dssp             HHHHHHHHHCT
T ss_pred             HHHHHHHhcCC
Confidence            99999987743

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.26  E-value=0.0018  Score=44.48  Aligned_cols=63  Identities=11%  Similarity=-0.058  Sum_probs=47.6

Q ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHhccC----------ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          356 NLEAYNCIVDRLGKDGKIDHAINVFESMEVK----------DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       356 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      +..-...++..+.+.|++..|...|+.+...          ....+..++.++.+.|++++|...++++++..
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~   76 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            4555667778888888888888888876543          34567778888888888888888888887664

>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=97.21  E-value=0.044  Score=44.76  Aligned_cols=103  Identities=14%  Similarity=0.130  Sum_probs=70.4

Q ss_pred             HHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhC-----CCHHHHHHHHHHhccC----ChhhHHHHHHHHHc-cCChh
Q 012804          339 KGARLHLEYMNKIGFDSN---LEAYNCIVDRLGKD-----GKIDHAINVFESMEVK----DSFTYSSMVHNLCK-AKRLP  405 (456)
Q Consensus       339 ~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~-----g~~~~a~~~~~~~~~~----~~~~~~~l~~~~~~-~~~~~  405 (456)
                      ..|...++++++.  .|+   ...+..++..|...     |+.++|.+.|+++...    +..++......+++ .|+.+
T Consensus       180 ~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          180 HAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHH
T ss_pred             HHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHH
Confidence            5667777777765  455   45777788888774     8888888888887765    35667777777777 48888


Q ss_pred             HHHHHHHHHHHcCCC--CCHHhHHHHHHHHHccCChHHHHHHHHHHHh
Q 012804          406 SASKLLLSCLKSGVR--ILKSAQKAVVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       406 ~A~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      +|.+.+++++...+.  |+....+.        +..++|+.++.++..
T Consensus       258 ~a~~~L~kAL~a~p~~~P~~~lan~--------~~q~eA~~LL~~~~d  297 (301)
T 3u64_A          258 GFDEALDRALAIDPESVPHNKLLVI--------LSQKRARWLKAHVQD  297 (301)
T ss_dssp             HHHHHHHHHHHCCGGGCSSCHHHHH--------HHHHHHHHHHHTHHH
T ss_pred             HHHHHHHHHHcCCCCCCCChhHHHH--------HHHHHHHHHHHHhHH
Confidence            888888888877655  54333332        233566666665543

>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=97.15  E-value=0.0076  Score=43.26  Aligned_cols=106  Identities=12%  Similarity=-0.049  Sum_probs=55.6

Q ss_pred             CCCCchHHHHHHHHHHHhhCcH------HHHHHHHHHHHhcCCCCCHH-hHHHHHHHH------HccCChhHHHHHHHHH
Q 012804            2 FGKLSTRLLNICVCTFCKANRL------EKAEAIIIDGIRLGVLPDVV-TYNMLIDAY------CQFVSFDAGYTILNRM   68 (456)
Q Consensus         2 ~~~~~~~~~~~l~~~~~~~g~~------~~A~~~~~~~~~~~~~~~~~-~~~~l~~~~------~~~~~~~~a~~~~~~~   68 (456)
                      ..|.|+.+|-..+..+-+.|++      ++.+++|+++...- +|+.. .|..-+..+      ...++.++|.++|+.+
T Consensus         8 ~~p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~~-Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a   86 (161)
T 4h7y_A            8 MMANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEAL-PPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMA   86 (161)
T ss_dssp             --CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHHS-CGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHH
T ss_pred             eCCCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHcC-CccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            4567777777777777777777      77777777777653 33321 111111111      1224555555555555


Q ss_pred             HhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCC
Q 012804           69 REAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIP  109 (456)
Q Consensus        69 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  109 (456)
                      .+.+ +-=...|....+.=.++|++..|.+++...+..+..
T Consensus        87 ~~~h-KkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           87 RANC-KKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             HHHC-TTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             HHHh-HHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            4431 111444444444445555555555555555554433

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.92  E-value=0.011  Score=40.47  Aligned_cols=67  Identities=13%  Similarity=0.023  Sum_probs=47.8

Q ss_pred             CchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcC------CCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhC
Q 012804            5 LSTRLLNICVCTFCKANRLEKAEAIIIDGIRLG------VLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREA   71 (456)
Q Consensus         5 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   71 (456)
                      .++..+-.+...+.+.|++..|...|+.+.+..      ..+....+..+..++.+.|+++.|+..++++.+.
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            456667777888888888888888888877642      1234556777777777777777777777777665

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.69  E-value=0.12  Score=50.47  Aligned_cols=154  Identities=13%  Similarity=0.099  Sum_probs=89.1

Q ss_pred             HHHHhhCcHHHHHH-HHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCCh
Q 012804           15 CTFCKANRLEKAEA-IIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLL   93 (456)
Q Consensus        15 ~~~~~~g~~~~A~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   93 (456)
                      ......+++++|.+ ++..     + ++......++..+.+.|..+.|.++.+.         ..   .-.......|++
T Consensus       607 ~~~~~~~~~~~a~~~~l~~-----i-~~~~~~~~~~~~l~~~~~~~~a~~~~~~---------~~---~~f~~~l~~~~~  668 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPN-----V-EGKDSLTKIARFLEGQEYYEEALNISPD---------QD---QKFELALKVGQL  668 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGG-----C-CCHHHHHHHHHHHHHTTCHHHHHHHCCC---------HH---HHHHHHHHHTCH
T ss_pred             hHHHHhCCHHHHHHHHHhc-----C-CchHHHHHHHHHHHhCCChHHheecCCC---------cc---hheehhhhcCCH
Confidence            34456778887766 4421     1 1122336677777778888877765521         11   112334567888


Q ss_pred             hHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHH
Q 012804           94 SCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGL  173 (456)
Q Consensus        94 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  173 (456)
                      +.|.++.+.+      .+...|..+...+.+.|+++.|.+.|.++..         |..+...+...|+.+...++.+..
T Consensus       669 ~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a  733 (814)
T 3mkq_A          669 TLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDA  733 (814)
T ss_dssp             HHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHH
Confidence            8887775432      3667788888888888888888888877642         334444455566666555555544


Q ss_pred             HhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 012804          174 QKHGFVPELVTYNILIKGLCKAGRLRTARWILKE  207 (456)
Q Consensus       174 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  207 (456)
                      ...|.      ++....+|.+.|++++|.+++..
T Consensus       734 ~~~~~------~~~A~~~~~~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          734 ETTGK------FNLAFNAYWIAGDIQGAKDLLIK  761 (814)
T ss_dssp             HHTTC------HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHcCc------hHHHHHHHHHcCCHHHHHHHHHH
Confidence            44421      22233344555666665555443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.55  E-value=0.036  Score=40.39  Aligned_cols=79  Identities=10%  Similarity=0.046  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHCCCccCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHcCCCc--CHHhHHHHHHHHHhcCCHHHHHHHH
Q 012804          271 ATDYMEQMVTDGVQLDIVSYNTLINLYCKEG---KLEAAYLLLDEMEKQGFEC--DKYTHTILIDGLCKAGNIKGARLHL  345 (456)
Q Consensus       271 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~  345 (456)
                      +++.|......+. ++..+...+..++++.+   +.++++.+|+...+.. .|  ....+-.+.-++.+.|++++|.+++
T Consensus        17 ~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~   94 (152)
T 1pc2_A           17 FEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKYV   94 (152)
T ss_dssp             HHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHHHH
T ss_pred             HHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHHHH
Confidence            3344444333332 34444444555555544   3345555555555432 12  2333444444555555555555555


Q ss_pred             HHHHhC
Q 012804          346 EYMNKI  351 (456)
Q Consensus       346 ~~~~~~  351 (456)
                      +.+++.
T Consensus        95 ~~lL~i  100 (152)
T 1pc2_A           95 RGLLQT  100 (152)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            555553

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.55  E-value=0.092  Score=39.33  Aligned_cols=26  Identities=19%  Similarity=0.174  Sum_probs=10.9

Q ss_pred             HhHHHHHHHHHHcCCChhHHHHHHHH
Q 012804           77 VVTYNSLIAGATRNSLLSCSLDLLDE  102 (456)
Q Consensus        77 ~~~~~~l~~~~~~~~~~~~a~~~~~~  102 (456)
                      ...|..|.......|+++-|.+.|..
T Consensus        34 ~~~Wk~Lg~~AL~~gn~~lAe~cy~~   59 (177)
T 3mkq_B           34 SITWERLIQEALAQGNASLAEMIYQT   59 (177)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            33444444444444444444444433

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.54  E-value=0.13  Score=37.08  Aligned_cols=111  Identities=12%  Similarity=0.080  Sum_probs=57.2

Q ss_pred             CHHHHHHHHHHHHhcCch------hHHHHHHHHHHHcCCCcChh-hHHHHHH------HHHHcCChHHHHHHHHHHHHCC
Q 012804          216 NAITYTTIMKCCFRNRKY------KLGLEILSAMKRKGYTFDGF-GYCTVIA------AFVKIGRLKEATDYMEQMVTDG  282 (456)
Q Consensus       216 ~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~-~~~~l~~------~~~~~~~~~~a~~~~~~~~~~~  282 (456)
                      |..+|-..+....+.|++      +...++|++....- ||+.. .+...+.      .+...++.++|.++|+.+++.+
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~~-Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEAL-PPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHHS-CGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHcC-CccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            455555555555555555      56666666666542 44321 1111111      1123356666777776665542


Q ss_pred             CccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHH
Q 012804          283 VQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILI  329 (456)
Q Consensus       283 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  329 (456)
                      -.. ...|....+--.++|+..+|.+++......+.. +...+...+
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k-~~~~le~a~  135 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAV-PLEMLEIAL  135 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB-CHHHHHHHH
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC-cHHHHHHHH
Confidence            222 555555555555667777777777666665544 333343333

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.50  E-value=0.032  Score=45.58  Aligned_cols=88  Identities=11%  Similarity=0.013  Sum_probs=57.5

Q ss_pred             cHHHHHHHHHHHHhcCCCC-CHHhHHHHHHHHHc-----cCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcC-CChh
Q 012804           22 RLEKAEAIIIDGIRLGVLP-DVVTYNMLIDAYCQ-----FVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRN-SLLS   94 (456)
Q Consensus        22 ~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~   94 (456)
                      ....|...++++++.++.- +...|..+...|.+     -|+.++|.+.|++..+.+..-+..++......+++. |+.+
T Consensus       178 ~l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          178 TVHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHH
T ss_pred             hHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHH
Confidence            4567777777777765321 24467777777776     377777777777777764222366666667777664 7777


Q ss_pred             HHHHHHHHHHHCCCC
Q 012804           95 CSLDLLDEMLEMGIP  109 (456)
Q Consensus        95 ~a~~~~~~~~~~~~~  109 (456)
                      .+.+.+++.......
T Consensus       258 ~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          258 GFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHcCCCC
Confidence            777777777775443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.49  E-value=0.013  Score=40.92  Aligned_cols=90  Identities=12%  Similarity=0.025  Sum_probs=64.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHH---HHHHHHHhccCC-h----hhHHHHHHHHHc
Q 012804          329 IDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDH---AINVFESMEVKD-S----FTYSSMVHNLCK  400 (456)
Q Consensus       329 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---a~~~~~~~~~~~-~----~~~~~l~~~~~~  400 (456)
                      +..-........+..-+......| .++..+--.+..++.+..+..+   ++.+++.....+ +    .....+.-++.+
T Consensus         8 l~~~~~~~~l~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yk   86 (126)
T 1nzn_A            8 LNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYR   86 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHH
T ss_pred             HhccCCHHHHHHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHH
Confidence            333344445566677777666655 4777777778888888887666   888888776663 2    345667788889


Q ss_pred             cCChhHHHHHHHHHHHcCC
Q 012804          401 AKRLPSASKLLLSCLKSGV  419 (456)
Q Consensus       401 ~~~~~~A~~~~~~~~~~~~  419 (456)
                      .|++++|.+.++.+++..+
T Consensus        87 lg~Y~~A~~~~~~lL~~eP  105 (126)
T 1nzn_A           87 LKEYEKALKYVRGLLQTEP  105 (126)
T ss_dssp             TTCHHHHHHHHHHHHHHCT
T ss_pred             hhhHHHHHHHHHHHHHhCC
Confidence            9999999999998887743

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=96.40  E-value=0.79  Score=44.55  Aligned_cols=21  Identities=10%  Similarity=-0.168  Sum_probs=10.8

Q ss_pred             HHHHHhhCcHHHHHHHHHHHH
Q 012804           14 VCTFCKANRLEKAEAIIIDGI   34 (456)
Q Consensus        14 ~~~~~~~g~~~~A~~~~~~~~   34 (456)
                      ++.+.+.++.+.+.++|..+.
T Consensus       237 ~~~ai~LnD~~li~~if~~l~  257 (963)
T 4ady_A          237 NKVVVNLNDAGLALQLFKKLK  257 (963)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHH
Confidence            334444455555555555554

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.08  E-value=0.22  Score=35.07  Aligned_cols=146  Identities=14%  Similarity=0.108  Sum_probs=85.1

Q ss_pred             HHHHHHH--HHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 012804          290 YNTLINL--YCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRL  367 (456)
Q Consensus       290 ~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  367 (456)
                      ...|+.+  ..-.|..++..++..+....   .+..-++.++--....-+-+-..++++.+-+.   .|          .
T Consensus         8 ~kkLmeAK~~ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FD----------i   71 (172)
T 1wy6_A            8 IRKLMDAKKFLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FD----------L   71 (172)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SC----------G
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh---cC----------c
Confidence            3444443  34467778888887777664   24555666665555555555555555554332   11          1


Q ss_pred             HhCCCHHHHHHHHHHhccCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHH
Q 012804          368 GKDGKIDHAINVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQS  447 (456)
Q Consensus       368 ~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  447 (456)
                      ..+|++......+-.+.. +.......+..+..+|.-++-.+++...+. +.+|++..+..+..||.+.|+..+|.+++.
T Consensus        72 s~C~NlKrVi~C~~~~n~-~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~  149 (172)
T 1wy6_A           72 DKCQNLKSVVECGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLI  149 (172)
T ss_dssp             GGCSCTHHHHHHHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HhhhcHHHHHHHHHHhcc-hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHH
Confidence            223333333333332222 334445556667777777777777777544 346677788888888888888888888777


Q ss_pred             HHHhcc
Q 012804          448 KIRMAK  453 (456)
Q Consensus       448 ~~~~~~  453 (456)
                      +.=+.+
T Consensus       150 ~AC~kG  155 (172)
T 1wy6_A          150 EACKKG  155 (172)
T ss_dssp             HHHHTT
T ss_pred             HHHHhh
Confidence            765544

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.99  E-value=0.33  Score=36.37  Aligned_cols=100  Identities=12%  Similarity=0.118  Sum_probs=49.3

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHH
Q 012804          157 LCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLG  236 (456)
Q Consensus       157 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  236 (456)
                      ....|+++.|.++.+.+      .+...|..|.......|+++-|.+.|.+..+         +..+.-.|...|+.+..
T Consensus        15 AL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L   79 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKL   79 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHH
T ss_pred             HHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHH
Confidence            34455666665555544      1445566666666666666666666555432         23333334445555444


Q ss_pred             HHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHH
Q 012804          237 LEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQ  277 (456)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  277 (456)
                      .++-+.....+      -++....++.-.|+++++.+++.+
T Consensus        80 ~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           80 SKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHH
Confidence            44433333332      123333344455666666665543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.93  E-value=0.23  Score=34.74  Aligned_cols=85  Identities=11%  Similarity=-0.038  Sum_probs=51.8

Q ss_pred             cCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHH---HHHHHHHHHhCCCCC--CHHHHHHHHHHHHhCCCHH
Q 012804          300 EGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKG---ARLHLEYMNKIGFDS--NLEAYNCIVDRLGKDGKID  374 (456)
Q Consensus       300 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~  374 (456)
                      ......+.+-+......|. ++..+-..+..++.+..+...   ++.+++.+.+.+ .|  .......|.-++.+.|+++
T Consensus        14 ~~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~   91 (126)
T 1nzn_A           14 VEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYE   91 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHH
Confidence            3344455555555544443 566666667777777666554   677777766653 22  3344555666777777777


Q ss_pred             HHHHHHHHhccC
Q 012804          375 HAINVFESMEVK  386 (456)
Q Consensus       375 ~a~~~~~~~~~~  386 (456)
                      +|.+.++.+.+.
T Consensus        92 ~A~~~~~~lL~~  103 (126)
T 1nzn_A           92 KALKYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            777777766655

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=95.83  E-value=9.5e-06  Score=70.31  Aligned_cols=261  Identities=13%  Similarity=0.131  Sum_probs=157.1

Q ss_pred             CHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHH
Q 012804          111 DVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIK  190 (456)
Q Consensus       111 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  190 (456)
                      .+.+|..|..+....+.+.+|++.|-+      ..|+..|..++....+.|.+++-+.++....+..-  ++..=+.|+.
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIk------A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~  124 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIF  124 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCC------CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHh------CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHH
Confidence            344566777777777777777655422      23455677777777788888888777776665532  3333356777


Q ss_pred             HHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHH
Q 012804          191 GLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKE  270 (456)
Q Consensus       191 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  270 (456)
                      +|++.++..+..+++       ..|+..-...+.+-|...|.++.|.-+|..+..         |..+..++.+.|++..
T Consensus       125 ayAk~~rL~elEefl-------~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN---------~akLAstLV~L~~yq~  188 (624)
T 3lvg_A          125 ALAKTNRLAELEEFI-------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQA  188 (624)
T ss_dssp             HHHTSCSSSTTTSTT-------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCC---------CTTTSSSSSSCSGGGS
T ss_pred             HHHhhCcHHHHHHHH-------cCCCcccHHHHHHHHHHccCHHHHHHHHHhCcc---------HHHHHHHHHHHHHHHH
Confidence            777777765543332       135555566667777777777777665554332         2233334455566555


Q ss_pred             HHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 012804          271 ATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNK  350 (456)
Q Consensus       271 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  350 (456)
                      |.+.-++      ..++.+|..+..+|...+++.-|...--.++-     .......++..|...|.+++.+.+++....
T Consensus       189 AVdaArK------Ans~ktWKeV~~ACvd~~EfrLAqicGLniIv-----hadeL~elv~~YE~~G~f~ELIsLlEaglg  257 (624)
T 3lvg_A          189 AVDGARK------ANSTRTWKEVCFACVDGKEFRLAQMCGLHIVV-----HADELEELINYYQDRGYFEELITMLEAALG  257 (624)
T ss_dssp             STTTTTT------CCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHC-----CSSCCSGGGSSSSTTCCCTTSTTTHHHHTT
T ss_pred             HHHHHHh------cCChhHHHHHHHHHhCchHHHHHHHhcchhcc-----cHHHHHHHHHHHHhCCCHHHHHHHHHHHhC
Confidence            5443222      23566777777788877777766544434332     112234455566777777777777777664


Q ss_pred             CCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC-----------ChhhHHHHHHHHHccCChhHHH
Q 012804          351 IGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK-----------DSFTYSSMVHNLCKAKRLPSAS  408 (456)
Q Consensus       351 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~A~  408 (456)
                      .. .....+|+.|.-.|++- ++++..+.++..-..           ....|..++-.|.+-.+++.|.
T Consensus       258 lE-rAHmGmFTELaILYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          258 LE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             ST-TCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             CC-chhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            42 45667777777777664 344444444432221           4566777777777777777665

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=95.39  E-value=2.2  Score=41.59  Aligned_cols=150  Identities=13%  Similarity=0.033  Sum_probs=72.3

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHH--HHHhcCCHHHHHHHHHHHHhCCCCCCHHHH--HHHHHHHHhCCC
Q 012804          297 YCKEGKLEAAYLLLDEMEKQGFECDKYTHTILID--GLCKAGNIKGARLHLEYMNKIGFDSNLEAY--NCIVDRLGKDGK  372 (456)
Q Consensus       297 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~g~  372 (456)
                      +.-.|+.+....++..+.+..   +..+...++.  ++...|+.+.+..+.+.+.... .|....-  ..+..+|+..|+
T Consensus       500 ~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn  575 (963)
T 4ady_A          500 MLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGRQELADDLITKMLASD-ESLLRYGGAFTIALAYAGTGN  575 (963)
T ss_dssp             HTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCC
T ss_pred             hcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCC
Confidence            445566666666666655431   2233333333  3345677777777777766531 2222211  233445666777


Q ss_pred             HHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCCh-HHHHHHHHH
Q 012804          373 IDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCR-REAKKIQSK  448 (456)
Q Consensus       373 ~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~  448 (456)
                      .....+++..+...   +......+.-++...|+.+.+.++++.+.+.+ .|....-..+.-+....|+. .+|...+.+
T Consensus       576 ~~aIq~LL~~~~~d~~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~  654 (963)
T 4ady_A          576 NSAVKRLLHVAVSDSNDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDP  654 (963)
T ss_dssp             HHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCcHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHH
Confidence            76666677766544   22222222333344566665666665444332 22222222222233333332 556666666


Q ss_pred             HHh
Q 012804          449 IRM  451 (456)
Q Consensus       449 ~~~  451 (456)
                      +..
T Consensus       655 L~~  657 (963)
T 4ady_A          655 LTK  657 (963)
T ss_dssp             HHT
T ss_pred             Hcc
Confidence            643

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.34  E-value=0.46  Score=33.49  Aligned_cols=63  Identities=16%  Similarity=0.161  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 012804          255 YCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGF  318 (456)
Q Consensus       255 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  318 (456)
                      +...+..+...|.-++-.+++..+... .+|++.....+..+|.+.|+..+|.+++.+.-+.|+
T Consensus        94 vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           94 VNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            334444555555555555555554332 344555555555566666666666666655555554

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=95.19  E-value=2  Score=39.98  Aligned_cols=113  Identities=9%  Similarity=-0.047  Sum_probs=73.6

Q ss_pred             CCHHHHHHHHHHHHHcCCCcCHHhHHH----HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHH
Q 012804          301 GKLEAAYLLLDEMEKQGFECDKYTHTI----LIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHA  376 (456)
Q Consensus       301 ~~~~~a~~~~~~~~~~~~~~~~~~~~~----l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  376 (456)
                      .+.+.|...+....+.. ..+......    ++......+...++...+......  ..+.....-.+....+.|+++.|
T Consensus       228 ~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~e~~~r~Alr~~d~~~a  304 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR--SQSTSLIERRVRMALGTGDRRGL  304 (618)
T ss_dssp             HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT--CCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc--CCChHHHHHHHHHHHHCCCHHHH
Confidence            47899999998886543 223333222    222233344345666666665543  34444444555555678999999


Q ss_pred             HHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHH
Q 012804          377 INVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLK  416 (456)
Q Consensus       377 ~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  416 (456)
                      .+.|..+...   ......-+.+++...|+.++|..+|+++..
T Consensus       305 ~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          305 NTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            9999988765   344455577788889999999999999863

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=95.05  E-value=0.41  Score=35.26  Aligned_cols=42  Identities=7%  Similarity=0.049  Sum_probs=25.2

Q ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHhccC--ChhhHHHHHHH
Q 012804          356 NLEAYNCIVDRLGKDGKIDHAINVFESMEVK--DSFTYSSMVHN  397 (456)
Q Consensus       356 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~l~~~  397 (456)
                      +.+.-..+..+|.+.|++++|+.+++.+..+  ++.+-..|++.
T Consensus       121 e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~Rt~kvnm~LakL  164 (167)
T 3ffl_A          121 EIEVKYKLAECYTVLKQDKDAIAILDGIPSRQRTPKINMLLANL  164 (167)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGGCCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHCCHHHHHHHHhcCCchhcCHHHHHHHHHH
Confidence            3344455666777777777777777776544  55544444443

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=94.80  E-value=0.27  Score=35.05  Aligned_cols=65  Identities=6%  Similarity=0.027  Sum_probs=47.9

Q ss_pred             CCCHHHHHHHHHHHHhCCCHH---HHHHHHHHhccC----ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          354 DSNLEAYNCIVDRLGKDGKID---HAINVFESMEVK----DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       354 ~~~~~~~~~l~~~~~~~g~~~---~a~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      .|+..+--.+..++.+..+.+   +++.+++.....    .......+.-++.+.|++++|.+..+.+++..
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~e  107 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  107 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            567777777778888877644   567777766544    33456667788889999999999998888764

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.62  E-value=0.37  Score=45.74  Aligned_cols=49  Identities=6%  Similarity=-0.143  Sum_probs=32.8

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC
Q 012804          321 DKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDG  371 (456)
Q Consensus       321 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  371 (456)
                      +..-|..|.....+.+.+++|.+.|+..+..  .-+...+..|+..|.+.+
T Consensus       612 s~lEWEiLGlla~RL~h~~EA~~a~~~~l~~--RFs~ka~~kLLeiY~~~~  660 (754)
T 4gns_B          612 SGLEWELLGLIMLRTWHWEDAVACLRTSIVA--RFDPVSCQQLLKIYLQPP  660 (754)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHSS--SCCHHHHHHHHHHHHSCC
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--ccCHHHHHHHHHHHHhcC
Confidence            4445666666667777777777777776654  456667777777776655

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.53  E-value=2.4  Score=37.73  Aligned_cols=190  Identities=16%  Similarity=0.051  Sum_probs=117.6

Q ss_pred             cCCHHHHHHHHHHHhh-----CCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHH----HHc
Q 012804          195 AGRLRTARWILKELGD-----SGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAF----VKI  265 (456)
Q Consensus       195 ~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~  265 (456)
                      .|+++.|.+.+..+.+     .+..........++..|...++++...+.+..+.+.... .......+++.+    ...
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~q-lk~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQ-LKLSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTT-SHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhh-hHHHHHHHHHHHHHHHhcC
Confidence            3678888887766553     233445677788899999999999988887776654312 222333333322    223


Q ss_pred             CChHHHHH--HHHHHHH---CCCcc---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCcC---HHhHHHHHHHH
Q 012804          266 GRLKEATD--YMEQMVT---DGVQL---DIVSYNTLINLYCKEGKLEAAYLLLDEMEKQ--GFECD---KYTHTILIDGL  332 (456)
Q Consensus       266 ~~~~~a~~--~~~~~~~---~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~  332 (456)
                      ...+....  +.+.+..   ..+..   .......|...|...|++.+|..++..+...  +....   ...+...++.|
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            33332111  1111111   01112   1233456788889999999999999998642  22211   24566677889


Q ss_pred             HhcCCHHHHHHHHHHHHhC----CCCCC--HHHHHHHHHHHHhCCCHHHHHHHHHHhcc
Q 012804          333 CKAGNIKGARLHLEYMNKI----GFDSN--LEAYNCIVDRLGKDGKIDHAINVFESMEV  385 (456)
Q Consensus       333 ~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  385 (456)
                      ...+++..|..++.++...    ..+|+  ...+...+..+...+++.+|.+.|.++..
T Consensus       188 l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            9999999999999887432    11222  23456667777888999998888876654

>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=94.48  E-value=0.21  Score=35.12  Aligned_cols=65  Identities=6%  Similarity=0.014  Sum_probs=47.6

Q ss_pred             CCCHHHHHHHHHHHHhCCCH---HHHHHHHHHhccC----ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          354 DSNLEAYNCIVDRLGKDGKI---DHAINVFESMEVK----DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       354 ~~~~~~~~~l~~~~~~~g~~---~~a~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      .|+..+--.+..++.+..+.   .+++.+++.....    ....+..+.-++.+.|++++|.+..+.+++..
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~e  108 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  108 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhC
Confidence            56777777777788877764   3567777766544    34556677888889999999999998888663

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=94.18  E-value=0.58  Score=40.85  Aligned_cols=114  Identities=15%  Similarity=0.080  Sum_probs=70.9

Q ss_pred             cCHHhHHHHHHHH---HhcCCHHHHHHHHHHHHhC--CC-CCCH------------------HHHHHHHHHHHhCCCHHH
Q 012804          320 CDKYTHTILIDGL---CKAGNIKGARLHLEYMNKI--GF-DSNL------------------EAYNCIVDRLGKDGKIDH  375 (456)
Q Consensus       320 ~~~~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~--~~-~~~~------------------~~~~~l~~~~~~~g~~~~  375 (456)
                      .|...|..++...   ...|+.+.+...++.+...  |- -++.                  .....++..+...|++++
T Consensus       110 ~D~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~~~~w~~~~r~~l~~~~~~a~~~~~~~~l~~g~~~~  189 (388)
T 2ff4_A          110 CDLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASA  189 (388)
T ss_dssp             BHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             chHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHH
Confidence            3555666666543   3458899999999998764  21 1110                  012233445566777777


Q ss_pred             HHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHH-----cCCCCCHHhHHHHHHHH
Q 012804          376 AINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLK-----SGVRILKSAQKAVVDGL  433 (456)
Q Consensus       376 a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~~~~~l~~~~  433 (456)
                      |...+..+...   +...|..++.++.+.|+..+|++.|+++.+     .|+.|.+.+-...-..+
T Consensus       190 a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~~~il  255 (388)
T 2ff4_A          190 VIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALNERIL  255 (388)
T ss_dssp             HHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            77777666544   556777777777777777777777777643     37777776665444333

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=94.12  E-value=0.95  Score=39.49  Aligned_cols=68  Identities=15%  Similarity=0.015  Sum_probs=35.2

Q ss_pred             HHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHH-----CCCCCCHHh
Q 012804           46 NMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLE-----MGIPPDVWS  114 (456)
Q Consensus        46 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  114 (456)
                      ..++..+...|+++++...+..+.... +-+...|..+|.++.+.|+..+|++.|+.+.+     .|+.|...+
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            344455555555555555555554432 33445555555555555555555555555433     255555544

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=94.01  E-value=0.57  Score=34.52  Aligned_cols=115  Identities=12%  Similarity=0.057  Sum_probs=61.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCC-------HHHHHHHHHHHHhCCCHHHHHHHHHHhccC------Chh
Q 012804          324 THTILIDGLCKAGNIKGARLHLEYMNKIG-FDSN-------LEAYNCIVDRLGKDGKIDHAINVFESMEVK------DSF  389 (456)
Q Consensus       324 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~-------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------~~~  389 (456)
                      ++..-++.+...|.++.|+-+...+.... ..|+       ..++..+.+++...|++..|...|+++...      +..
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            44455666777788888877777754331 1222       235566677777778888887777765432      111


Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHh
Q 012804          390 TYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRM  451 (456)
Q Consensus       390 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  451 (456)
                      ....+.    -......         .....++...-..+..+|.+.|++++|+..++.+..
T Consensus       102 ~~~~~~----~~ss~p~---------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~  150 (167)
T 3ffl_A          102 VRPSTG----NSASTPQ---------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPS  150 (167)
T ss_dssp             ----------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCG
T ss_pred             cccccc----ccCCCcc---------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCc
Confidence            100000    0000000         001122333444577788888888888888777643

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=93.81  E-value=0.81  Score=43.49  Aligned_cols=53  Identities=15%  Similarity=0.081  Sum_probs=38.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhc
Q 012804          331 GLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESME  384 (456)
Q Consensus       331 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  384 (456)
                      -|...|+++-|+.+-++..... |.+..+|..|..+|...|+++.|+-.++.+.
T Consensus       346 FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          346 FLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            3556777777777777777652 5557777777778888888887777777664

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=93.23  E-value=5  Score=40.88  Aligned_cols=186  Identities=13%  Similarity=0.118  Sum_probs=92.0

Q ss_pred             HHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHC----C----------------
Q 012804          223 IMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTD----G----------------  282 (456)
Q Consensus       223 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~----------------  282 (456)
                      ++..+...+..+.+.++....     +.++...-.+..++...|++++|...|++....    .                
T Consensus       818 l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~  892 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKY  892 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTT
T ss_pred             HHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccccc
Confidence            444455555555554433221     222333334455566666666666666543210    0                


Q ss_pred             --CccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcC----HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 012804          283 --VQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECD----KYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSN  356 (456)
Q Consensus       283 --~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  356 (456)
                        ...-..-|..++..+.+.+.++.+.++-....+....-+    ...|..+...+...|++++|...+-.+.....  -
T Consensus       893 ~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r  970 (1139)
T 4fhn_B          893 HHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--K  970 (1139)
T ss_dssp             TSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--C
T ss_pred             cccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--H
Confidence              000123355666677777777777766665554321111    12456666777777777777777766655432  2


Q ss_pred             HHHHHHHHHHHHhCCC------------HHHHHHHHHHhcc-C----ChhhHHHHHHHH-HccCChhHHHH-HHHHHH
Q 012804          357 LEAYNCIVDRLGKDGK------------IDHAINVFESMEV-K----DSFTYSSMVHNL-CKAKRLPSASK-LLLSCL  415 (456)
Q Consensus       357 ~~~~~~l~~~~~~~g~------------~~~a~~~~~~~~~-~----~~~~~~~l~~~~-~~~~~~~~A~~-~~~~~~  415 (456)
                      ...+..|+..++..|.            .++..+++..-.. .    +...|..++.++ ...|++.+|.. +|+++.
T Consensus       971 ~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~~ 1048 (1139)
T 4fhn_B          971 KSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKLS 1048 (1139)
T ss_dssp             HHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHHH
Confidence            3445555555544443            3344444432111 1    222344444444 56677776554 455544

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=93.12  E-value=2.9  Score=42.54  Aligned_cols=132  Identities=15%  Similarity=0.115  Sum_probs=76.6

Q ss_pred             HHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC----hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHH
Q 012804          112 VWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPC----TATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNI  187 (456)
Q Consensus       112 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  187 (456)
                      ..-|..++..+.+.+.++.+.+.-...++...+.+    ...|..+.+.+...|++++|...+-.+.....  -......
T Consensus       899 ~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r~~cLr~  976 (1139)
T 4fhn_B          899 SCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--KKSCLLD  976 (1139)
T ss_dssp             HHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--CHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--HHHHHHH
Confidence            34567777888888888888877776655321111    12567778888888888888888877776533  3455666


Q ss_pred             HHHHHHHcCCH------------HHHHHHHHHH-hhC-CCCCCHHHHHHHHHHHHhcCchhHHHH-HHHHHHH
Q 012804          188 LIKGLCKAGRL------------RTARWILKEL-GDS-GHAPNAITYTTIMKCCFRNRKYKLGLE-ILSAMKR  245 (456)
Q Consensus       188 l~~~~~~~~~~------------~~a~~~~~~~-~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~-~~~~~~~  245 (456)
                      ++...+..|..            ++..+++... .+. .+...+.-|..|=.-+..+|++..|-. +|+.+.+
T Consensus       977 LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~~R 1049 (1139)
T 4fhn_B          977 FVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKLSR 1049 (1139)
T ss_dssp             HHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHHHH
Confidence            66666655543            4444444332 111 111122334444444456677765544 4555544

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=93.01  E-value=0.95  Score=29.91  Aligned_cols=60  Identities=12%  Similarity=0.073  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHH
Q 012804          269 KEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILI  329 (456)
Q Consensus       269 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  329 (456)
                      -+..+-++.+...+..|++.+..+.+++|.+.+++..|.++++.++.+- .+...+|..++
T Consensus        27 ~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~l   86 (109)
T 1v54_E           27 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI   86 (109)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHH
Confidence            3455555555555566666666666666666666666666666655431 22233454444

>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=92.73  E-value=0.76  Score=30.35  Aligned_cols=62  Identities=8%  Similarity=0.026  Sum_probs=40.3

Q ss_pred             HHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 012804          303 LEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVD  365 (456)
Q Consensus       303 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  365 (456)
                      .=+..+-++.+....+.|++......+++|.+.+++..|.++++-++.+- .+...+|..++.
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lq   87 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   87 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHH
Confidence            44566666666666677777777777777777777777777777776542 233344555443

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.71  E-value=6.9  Score=34.84  Aligned_cols=254  Identities=12%  Similarity=0.080  Sum_probs=145.9

Q ss_pred             cCChHHHHHHHHHHHhC-----CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHH----hc
Q 012804          160 NRYTDNALRMFRGLQKH-----GFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCF----RN  230 (456)
Q Consensus       160 ~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~  230 (456)
                      .|+++.|++.+-.+.+.     ...........++..+...++++...+.+..+...... .......++..+.    ..
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~q-lk~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQ-LKLSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTT-SHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhh-hHHHHHHHHHHHHHHHhcC
Confidence            36788888877666542     23445777888999999999999998888776653322 2333334443332    22


Q ss_pred             CchhHH--HHHHHHHHHc--C-CCc---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHC--CCccC---HHHHHHHHHHH
Q 012804          231 RKYKLG--LEILSAMKRK--G-YTF---DGFGYCTVIAAFVKIGRLKEATDYMEQMVTD--GVQLD---IVSYNTLINLY  297 (456)
Q Consensus       231 ~~~~~a--~~~~~~~~~~--~-~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~  297 (456)
                      ...+..  ..+.+.+...  | +-.   .......+...+...|++.+|.+++..+...  +....   ...+...++.|
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            322221  1111111111  1 111   1123356788899999999999999998753  22211   34667778899


Q ss_pred             HhcCCHHHHHHHHHHHHH----cCCCcC--HHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHH----HHHHH
Q 012804          298 CKEGKLEAAYLLLDEMEK----QGFECD--KYTHTILIDGLCKAGNIKGARLHLEYMNKI-GFDSNLEAYN----CIVDR  366 (456)
Q Consensus       298 ~~~~~~~~a~~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~----~l~~~  366 (456)
                      ...+++.+|..++..+..    ....|+  ...+...+..+...+++.+|-+.|.++... ....+...+.    .++.+
T Consensus       188 l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~  267 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYF  267 (445)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHH
Confidence            999999999999998742    222222  234566777788899999998888887543 1111222222    22222


Q ss_pred             HHhCCCHHHHHHHHHHhcc----CChhhHHHHHHHHHcc--CChhHHHHHHHHH
Q 012804          367 LGKDGKIDHAINVFESMEV----KDSFTYSSMVHNLCKA--KRLPSASKLLLSC  414 (456)
Q Consensus       367 ~~~~g~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~--~~~~~A~~~~~~~  414 (456)
                      ..-.+....-..+......    .+...+..++.+|...  .+++.+.+.|...
T Consensus       268 ~iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L~k~f~~~~L~~~~~~~~~~~~~  321 (445)
T 4b4t_P          268 LVLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKLFTTNELMRWPIVQKTYEPV  321 (445)
T ss_dssp             HHHSSCSSTTHHHHHSHHHHSSCHHHHHHHHHHHHHHHCCSSSHHHHHHHTCSS
T ss_pred             HHhCCCCchHHHHHHHHhhcccccccHHHHHHHHHHHhchHhhhHHHHHHHHHH
Confidence            2222222222222222211    1556777788777653  4555555555443

>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=90.99  E-value=7.3  Score=33.81  Aligned_cols=167  Identities=10%  Similarity=-0.028  Sum_probs=98.0

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhC-CCCC---CHHHHHHHHHHHHhcC-chhHHHHHHHHHHHcCCCcChhhH-
Q 012804          182 LVTYNILIKGLCKAGRLRTARWILKELGDS-GHAP---NAITYTTIMKCCFRNR-KYKLGLEILSAMKRKGYTFDGFGY-  255 (456)
Q Consensus       182 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~-  255 (456)
                      ......|...|.+.|+.++..+++.....- +..+   .......++..+.... ..+.-.++..+..+.. .....+| 
T Consensus        19 e~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a-~~~~r~fl   97 (394)
T 3txn_A           19 EQGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWA-KQEKRTFL   97 (394)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHH-HHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHH-HHHHHHHH
Confidence            456677889999999999999998876531 1111   2334556677665543 2333333333333211 0111222 


Q ss_pred             -----HHHHHHHHHcCChHHHHHHHHHHHHC--CCc---cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCcCHH
Q 012804          256 -----CTVIAAFVKIGRLKEATDYMEQMVTD--GVQ---LDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQ--GFECDKY  323 (456)
Q Consensus       256 -----~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~  323 (456)
                           ..++..|...|++.+|.+++..+.+.  ...   .-..++..-++.|...+++.++...+......  .+.+++.
T Consensus        98 r~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~  177 (394)
T 3txn_A           98 RQSLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPK  177 (394)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHH
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHH
Confidence                 25677788888888888888877764  111   12334555567788888888888888777542  1223333


Q ss_pred             hHH----HHHHHHH-hcCCHHHHHHHHHHHH
Q 012804          324 THT----ILIDGLC-KAGNIKGARLHLEYMN  349 (456)
Q Consensus       324 ~~~----~l~~~~~-~~~~~~~a~~~~~~~~  349 (456)
                      ...    .-...+. ..+++..|...|-+..
T Consensus       178 i~a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf  208 (394)
T 3txn_A          178 VQGALDLQSGILHAADERDFKTAFSYFYEAF  208 (394)
T ss_dssp             HHHHHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHhccCHHHHHHHHHHHH
Confidence            222    1223345 6788888877777654

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=90.54  E-value=3.2  Score=29.16  Aligned_cols=61  Identities=11%  Similarity=0.062  Sum_probs=38.3

Q ss_pred             HHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHH
Q 012804          269 KEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILID  330 (456)
Q Consensus       269 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  330 (456)
                      -+..+-++.+...+..|++.+....+++|.+.+|+..|.++|+-++.+ ..+...+|..+++
T Consensus        70 wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lq  130 (152)
T 2y69_E           70 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHH
Confidence            345555666666666777777777777777777777777777766654 2233445555543

>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=90.51  E-value=3.4  Score=29.13  Aligned_cols=69  Identities=14%  Similarity=0.020  Sum_probs=36.3

Q ss_pred             CccCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 012804          283 VQLDIVSYNTLINLYCKEGKL---EAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKI  351 (456)
Q Consensus       283 ~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  351 (456)
                      ..|++.+--.+..++.+..+.   .+++.+++++.+.+..-....+-.+.-++.+.|+++.|.++.+.+++.
T Consensus        36 ~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           36 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             GGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            334555544555555555433   345555555555432112334445555666666666666666666654

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=88.49  E-value=5  Score=28.26  Aligned_cols=61  Identities=8%  Similarity=0.033  Sum_probs=41.0

Q ss_pred             HHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 012804          304 EAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVD  365 (456)
Q Consensus       304 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  365 (456)
                      =+..+-++.+....+.|++......+++|.+.+|+..|.++++-++.+- .+...+|..+++
T Consensus        70 wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~lq  130 (152)
T 2y69_E           70 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHHH
Confidence            3455666666666777788888888888888888888888887776552 333445555543

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=88.15  E-value=1.9  Score=34.72  Aligned_cols=114  Identities=11%  Similarity=0.094  Sum_probs=71.0

Q ss_pred             HHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCC----HhHHHHHHHHHHc
Q 012804           14 VCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPD----VVTYNSLIAGATR   89 (456)
Q Consensus        14 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~   89 (456)
                      +..+.+.|++++|++.....++..|. |...-..++..++-.|+++.|..-++...+..  |+    ...|..+|.+   
T Consensus         4 ~~~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            4 WKNALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKLF--PEYLPGASQLRHLVKA---   77 (273)
T ss_dssp             HHHHTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHH---
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--chhhHHHHHHHHHHHH---
Confidence            34567888999999999988888754 88888888888899999999988888777653  33    2344444443   


Q ss_pred             CCChhHHHHHHHHHHHCCCCC-----CHHhHHHHHHHH--HhcCChhHHHHHHHHHHh
Q 012804           90 NSLLSCSLDLLDEMLEMGIPP-----DVWSYNSLMHCL--FQLGKPDEANRVFQDMIC  140 (456)
Q Consensus        90 ~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~  140 (456)
                             +..=.+...-+-.|     ...-...++.+.  ...|+.++|.++-..+.+
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                   11111222221111     122233344443  345888888877777654

>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=88.01  E-value=17  Score=33.88  Aligned_cols=310  Identities=9%  Similarity=0.030  Sum_probs=161.3

Q ss_pred             HHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCH-hHHHHHHHHHHcCCChhH
Q 012804           17 FCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDV-VTYNSLIAGATRNSLLSC   95 (456)
Q Consensus        17 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~   95 (456)
                      ..+.|++..+..+...+.. ++-..-..|..+...+ .....++.   -..+.+..-.|-. ..-...+..+.+.+++..
T Consensus        16 a~~~~~~~~~~~l~~~l~~-~pL~~yl~y~~l~~~l-~~~~~~ev---~~Fl~~~~~~p~~~~Lr~~~l~~l~~~~~w~~   90 (618)
T 1qsa_A           16 AWDNRQMDVVEQMMPGLKD-YPLYPYLEYRQITDDL-MNQPAVTV---TNFVRANPTLPPARTLQSRFVNELARREDWRG   90 (618)
T ss_dssp             HHHTTCHHHHHHHSGGGTT-STTHHHHHHHHHHHTG-GGCCHHHH---HHHHHHCTTCHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHCCCHHHHHHHHHhhcC-CCcHHHHHHHHHHhCc-ccCCHHHH---HHHHHHCCCChhHHHHHHHHHHHHHhCCCHHH
Confidence            4556888877777665432 2211111333322222 11233433   3333333112222 223445566777888776


Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHH--HHHHHHHH
Q 012804           96 SLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDN--ALRMFRGL  173 (456)
Q Consensus        96 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~--a~~~~~~~  173 (456)
                      ....+..     .+.+...-.....+....|+..+|......+-..+ ...+.....++..+.+.|....  ...-++.+
T Consensus        91 ~l~~~~~-----~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~-~~~p~~c~~l~~~~~~~g~lt~~~~~~R~~~a  164 (618)
T 1qsa_A           91 LLAFSPE-----KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG-KSQPNACDKLFSVWRASGKQDPLAYLERIRLA  164 (618)
T ss_dssp             HHHHCCS-----CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS-SCCCTHHHHHHHHHHHTTCSCHHHHHHHHHHH
T ss_pred             HHHhccC-----CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCC-CCCcHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Confidence            6664432     23455555567777888899888888777776665 4455666777777776665433  33333333


Q ss_pred             HhCCC-----------CCcHH-HHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHH---HHHHHHhcCchhHHHH
Q 012804          174 QKHGF-----------VPELV-TYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTT---IMKCCFRNRKYKLGLE  238 (456)
Q Consensus       174 ~~~~~-----------~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---l~~~~~~~~~~~~a~~  238 (456)
                      ...|-           +++.. ....++..+.+...   +.....   .  ..++...-..   .+.-. ...+.+.|..
T Consensus       165 l~~~~~~~a~~l~~~l~~~~~~~a~~~~al~~~p~~---~~~~~~---~--~~~~~~~~~~~~~~~~rl-ar~d~~~A~~  235 (618)
T 1qsa_A          165 MKAGNTGLVTVLAGQMPADYQTIASAIISLANNPNT---VLTFAR---T--TGATDFTRQMAAVAFASV-ARQDAENARL  235 (618)
T ss_dssp             HHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCGGG---HHHHHH---H--SCCCHHHHHHHHHHHHHH-HHHCHHHHHH
T ss_pred             HHCCCHHHHHHHHHhCCHHHHHHHHHHHHHHhChHh---HHHHHh---c--cCCChhhHHHHHHHHHHH-HhcCHHHHHH
Confidence            33321           11111 11111111111111   111111   1  1222222111   12222 2347788999


Q ss_pred             HHHHHHHcCCCcChhhHHHHHHH----HHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012804          239 ILSAMKRKGYTFDGFGYCTVIAA----FVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEME  314 (456)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~~l~~~----~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  314 (456)
                      .+....+.. ..+......+-..    ....+...++...+.......  .+.....-.+....+.|+++.|...|..|.
T Consensus       236 ~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~~~r~Alr~~d~~~a~~~~~~l~  312 (618)
T 1qsa_A          236 MIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGLNTWLARLP  312 (618)
T ss_dssp             HHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHSC
T ss_pred             HHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccccC--CChHHHHHHHHHHHHCCCHHHHHHHHHHcc
Confidence            888887553 3333333222222    223343556666776655542  333334444555567799999999998886


Q ss_pred             HcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 012804          315 KQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNK  350 (456)
Q Consensus       315 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  350 (456)
                      ... .......-.+.+++...|+.++|..+|+.+..
T Consensus       313 ~~~-~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          313 MEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             TTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             ccc-cccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            532 12344556677788889999999999999875

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=86.34  E-value=13  Score=30.92  Aligned_cols=112  Identities=15%  Similarity=0.125  Sum_probs=56.5

Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHH----HHHHHHCCCCCCHHhHHHHH
Q 012804           44 TYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDL----LDEMLEMGIPPDVWSYNSLM  119 (456)
Q Consensus        44 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~----~~~~~~~~~~~~~~~~~~l~  119 (456)
                      .|.++..-|.+.+++++|++++..-.               ..+.+.|+...|.++    ++-+.+.+.+++......++
T Consensus        35 ~~Rtl~~Ry~~~~~~~eAidlL~~ga---------------~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~   99 (312)
T 2wpv_A           35 TLRTIANRYVRSKSYEHAIELISQGA---------------LSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLV   99 (312)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHH---------------HHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            44455556666677777766654432               123445555554443    34444556666766666666


Q ss_pred             HHHHhcCChh-HHHHHHHHHHh----CC--CCCChhHHHHHHHHHHhcCChHHHHHHH
Q 012804          120 HCLFQLGKPD-EANRVFQDMIC----GD--LTPCTATFNIMLNGLCKNRYTDNALRMF  170 (456)
Q Consensus       120 ~~~~~~~~~~-~a~~~~~~~~~----~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~  170 (456)
                      ..+.....-+ .-.+++++++.    .|  ...++..+..+...|.+.+++.+|...|
T Consensus       100 ~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~  157 (312)
T 2wpv_A          100 RLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYF  157 (312)
T ss_dssp             HHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHH
Confidence            6555533211 11222232221    11  1234455556666666666666665554

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=85.71  E-value=5.9  Score=35.09  Aligned_cols=98  Identities=11%  Similarity=-0.033  Sum_probs=67.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC--CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHH--H
Q 012804          288 VSYNTLINLYCKEGKLEAAYLLLDEMEKQGF--ECDKYTHTILIDGLCKAGNIKGARLHLEYMNKI---GFDSNLEA--Y  360 (456)
Q Consensus       288 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~--~  360 (456)
                      .+...+...|.+.|+++.|.+.+.++.....  .--...+...++.+...+++..+...+.++...   +-.|+...  .
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk  211 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYK  211 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHH
Confidence            3567788999999999999999999986422  223456778888899999999999999887543   22222211  1


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHhcc
Q 012804          361 NCIVDRLGKDGKIDHAINVFESMEV  385 (456)
Q Consensus       361 ~~l~~~~~~~g~~~~a~~~~~~~~~  385 (456)
                      ..-+..+...+++..|.+.|-++..
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHhc
Confidence            1112234567788888877766543

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=85.63  E-value=15  Score=30.70  Aligned_cols=45  Identities=13%  Similarity=0.037  Sum_probs=26.8

Q ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHhccCChhhHHHHHHHHHc
Q 012804          356 NLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSMVHNLCK  400 (456)
Q Consensus       356 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~  400 (456)
                      ++.....+...|.+.|++.+|...|-.....++..+..++.-+..
T Consensus       133 dp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~  177 (312)
T 2wpv_A          133 DPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLC  177 (312)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHH
Confidence            566677777777777888777777653322244444444443333

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=85.05  E-value=4.2  Score=32.83  Aligned_cols=52  Identities=15%  Similarity=0.183  Sum_probs=26.7

Q ss_pred             HhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Q 012804          228 FRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVT  280 (456)
Q Consensus       228 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  280 (456)
                      .+.|+++.++.....-++.. |.|...-..+++.+|-.|++++|.+-++...+
T Consensus         8 l~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~   59 (273)
T 1zbp_A            8 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIK   59 (273)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            34455555555555444443 44444455555555555555555555555444

>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=84.98  E-value=19  Score=31.33  Aligned_cols=294  Identities=9%  Similarity=0.007  Sum_probs=164.9

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCC---cHHHHHHHHHHHHHc-CCHHHHHHHHHHHhhCCCCCCHHH--
Q 012804          147 TATFNIMLNGLCKNRYTDNALRMFRGLQKH-GFVP---ELVTYNILIKGLCKA-GRLRTARWILKELGDSGHAPNAIT--  219 (456)
Q Consensus       147 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~--  219 (456)
                      ......+...|.+.|+.++..+++...... +..|   .......++..+... +..+.-.++.....+.... ...+  
T Consensus        19 e~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~-~~r~fl   97 (394)
T 3txn_A           19 EQGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQ-EKRTFL   97 (394)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHH-TTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHH-HHHHHH
Confidence            456677889999999999999999876542 1112   233456677777664 3344444444443321110 1122  


Q ss_pred             ----HHHHHHHHHhcCchhHHHHHHHHHHHcCCCcC-----hhhHHHHHHHHHHcCChHHHHHHHHHHHHC--CCccCHH
Q 012804          220 ----YTTIMKCCFRNRKYKLGLEILSAMKRKGYTFD-----GFGYCTVIAAFVKIGRLKEATDYMEQMVTD--GVQLDIV  288 (456)
Q Consensus       220 ----~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~  288 (456)
                          -..++..|...|++.+|.+++..+.+.-...|     ...+..-++.|...+++.++...+......  .+.+++.
T Consensus        98 r~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~  177 (394)
T 3txn_A           98 RQSLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPK  177 (394)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHH
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHH
Confidence                23678899999999999999998886521222     233555677788999999999999887653  2223443


Q ss_pred             HHHHH----HHHHH-hcCCHHHHHHHHHHHHHcCCCcCH----HhHHHHHHHHHhcCCHHHHHHHHH-HH-HhCCCCCCH
Q 012804          289 SYNTL----INLYC-KEGKLEAAYLLLDEMEKQGFECDK----YTHTILIDGLCKAGNIKGARLHLE-YM-NKIGFDSNL  357 (456)
Q Consensus       289 ~~~~l----~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~-~~-~~~~~~~~~  357 (456)
                      ....+    ...+. ..+++..|...|-+..+.--....    .....++-+..-.++..+...++. .. ... ..|..
T Consensus       178 i~a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf~~f~~~~~~~~~~~lkYlvL~aLl~~~r~el~~~l~~~~~~~~-~~pei  256 (394)
T 3txn_A          178 VQGALDLQSGILHAADERDFKTAFSYFYEAFEGFDSVDSVKALTSLKYMLLCKIMLGQSDDVNQLVSGKLAITY-SGRDI  256 (394)
T ss_dssp             HHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHSHHHHTT-CSHHH
T ss_pred             HHHHHHHHhhHHHHHhccCHHHHHHHHHHHHhcccccccHHHHHHHHHHHHHHHHcCCHHHHHHHhcccccccc-CCccH
Confidence            33222    33456 789999999888776431001111    111112222223344444433332 21 222 24555


Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHH
Q 012804          358 EAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLR  434 (456)
Q Consensus       358 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  434 (456)
                      ..+..++.++ ..+++.+..++++.....   |+.....+-..+.+     --...+.+..   .+-...++..+...+.
T Consensus       257 ~~l~~L~~a~-~~~dl~~f~~iL~~~~~~l~~D~~l~~h~~~L~~~-----Ir~~~L~~i~---~pYsrIsl~~iA~~l~  327 (394)
T 3txn_A          257 DAMKSVAEAS-HKRSLADFQAALKEYKKELAEDVIVQAHLGTLYDT-----MLEQNLCRII---EPYSRVQVAHVAESIQ  327 (394)
T ss_dssp             HHHHHHHHHH-HTTCHHHHHHHHHHSTTTTTTSHHHHHHHHHHHHH-----HHHHHHHHHH---TTCSEEEHHHHHHHHT
T ss_pred             HHHHHHHHHH-HhCCHHHHHHHHHHHHHHHhcChHHHHHHHHHHHH-----HHHHHHHHHh---HhhceeeHHHHHHHHC
Confidence            5566666654 667887777777765433   44322111111100     0011122222   1225567777776664


Q ss_pred             ccCChHHHHHHHHHHHhcc
Q 012804          435 HSGCRREAKKIQSKIRMAK  453 (456)
Q Consensus       435 ~~g~~~~A~~~~~~~~~~~  453 (456)
                      -  ..+++...+.+|...+
T Consensus       328 l--s~~evE~~L~~lI~dg  344 (394)
T 3txn_A          328 L--PMPQVEKKLSQMILDK  344 (394)
T ss_dssp             C--CHHHHHHHHHHHHHTT
T ss_pred             c--CHHHHHHHHHHHHHCC
Confidence            3  6788999888887665

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=83.86  E-value=16  Score=32.37  Aligned_cols=61  Identities=11%  Similarity=0.070  Sum_probs=31.2

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHC--CCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012804          254 GYCTVIAAFVKIGRLKEATDYMEQMVTD--GVQLDIVSYNTLINLYCKEGKLEAAYLLLDEME  314 (456)
Q Consensus       254 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  314 (456)
                      +...+...|.+.|+++.|.+.+.++...  +...-...+..+++.+...+++..+...+.++.
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~  195 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVN  195 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            3344555555555555555555555442  112223444555555555666666655555543

>4b4t_S RPN3, 26S proteasome regulatory subunit RPN3; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=83.17  E-value=26  Score=31.60  Aligned_cols=65  Identities=12%  Similarity=-0.007  Sum_probs=39.8

Q ss_pred             HhHHHHHHHHHHcCCChhHHHHHHHHHHHCCC-CCCH--HhH-HHHHHHHHhcCChhHHHHHHHHHHhC
Q 012804           77 VVTYNSLIAGATRNSLLSCSLDLLDEMLEMGI-PPDV--WSY-NSLMHCLFQLGKPDEANRVFQDMICG  141 (456)
Q Consensus        77 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~--~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~  141 (456)
                      ...+|.+++.|...+.++.|..+..+..--.. .++.  ..| -.+...+.-.+++.+|.+.+......
T Consensus       231 a~l~nllLRnYL~~~~y~qA~~lvsk~~fP~~~~sn~q~~rY~YY~GRI~a~q~~Y~eA~~~L~~A~rk  299 (523)
T 4b4t_S          231 AMLINLILRDFLNNGEVDSASDFISKLEYPHTDVSSSLEARYFFYLSKINAIQLDYSTANEYIIAAIRK  299 (523)
T ss_dssp             HHHHHHHHHHHHHSSCSTTHHHHHHHHCSCTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTSS
T ss_pred             HHHHHHHHHHHHccCcHHHHHHHHhcCcCCcccCCHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            44577777888888888888888777642100 0111  112 23455666777888888777776654

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=81.81  E-value=22  Score=29.90  Aligned_cols=46  Identities=24%  Similarity=0.094  Sum_probs=26.2

Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHh
Q 012804          285 LDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCK  334 (456)
Q Consensus       285 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  334 (456)
                      -++.....+...|.+.+++.+|...|-    .|-.++...+..++.-+..
T Consensus       134 Gdp~LH~~ig~~~~~e~~~~~Ae~H~i----lg~~~s~~~~a~mL~ew~~  179 (336)
T 3lpz_A          134 GDPELHHVVGTLYVEEGEFEAAEKHLV----LGTKESPEVLARMEYEWYK  179 (336)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHT----TSCTTHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHH----hcCCchHHHHHHHHHHHHH
Confidence            456666677777777777777766652    1223333555444444433

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=80.58  E-value=13  Score=26.54  Aligned_cols=67  Identities=15%  Similarity=0.029  Sum_probs=32.9

Q ss_pred             cCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 012804          285 LDIVSYNTLINLYCKEGKL---EAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKI  351 (456)
Q Consensus       285 ~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  351 (456)
                      |+..+--.+..++.+..+.   .+++.+++.+...+..-.....-.+.-++.+.|+++.|.++.+.+++.
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~  106 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  106 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            4444444445555554433   344555555554322212333444445556666666666666666554

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	456
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	7e-06
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	2e-05

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.4 bits (106), Expect = 7e-06
 Identities = 43/364 (11%), Positives = 99/364 (27%), Gaps = 12/364 (3%)

Query: 19  KANRLEKAEAIIIDGIRLGVLPD-VVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDV 77
           +A   E AE   +   R    PD      +L   + Q    D          +   +P +
Sbjct: 11  QAGDFEAAERHCMQLWRQE--PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIK--QNPLL 66

Query: 78  VTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQD 137
               S +    +                   P  +  Y +L   L   G  + A + +  
Sbjct: 67  AEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVS 126

Query: 138 MICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGR 197
            +  +        ++        R  +      + ++          ++ L       G 
Sbjct: 127 ALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAV--AWSNLGCVFNAQGE 184

Query: 198 LRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCT 257
           +  A    ++            Y  +       R +   +                 +  
Sbjct: 185 IWLAIHHFEKAVTL-DPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVV-HGN 242

Query: 258 VIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQG 317
           +   + + G +  A D   + +         +Y  L N   ++G +  A         + 
Sbjct: 243 LACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEA-EDCYNTALRL 300

Query: 318 FECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAI 377
                 +   L +   + GNI+ A        ++ F     A++ +   L + GK+  A+
Sbjct: 301 CPTHADSLNNLANIKREQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKLQEAL 359

Query: 378 NVFE 381
             ++
Sbjct: 360 MHYK 363

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.3 bits (103), Expect = 2e-05
 Identities = 37/325 (11%), Positives = 81/325 (24%), Gaps = 13/325 (4%)

Query: 96  SLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNI-ML 154
           +     ++     P +      L    FQ  + D +       I  +     A  N+  +
Sbjct: 18  AERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNV 76

Query: 155 NGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHA 214
                               K  F+   +     +           A     +     + 
Sbjct: 77  YKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYC 136

Query: 215 PNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDY 274
             +     +             L+ +         +   G       F   G +  A  +
Sbjct: 137 VRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCV-----FNAQGEIWLAIHH 191

Query: 275 MEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCK 334
            E+ VT      + +Y  L N+  +    + A                  H  L     +
Sbjct: 192 FEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNLACVYYE 249

Query: 335 AGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDSFTYSSM 394
            G I  A        ++      +AY  + + L + G +  A + + +          S+
Sbjct: 250 QGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSL 308

Query: 395 VHN---LCKAKRLPSASKLLLSCLK 416
            +      +   +  A +L    L+
Sbjct: 309 NNLANIKREQGNIEEAVRLYRKALE 333

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	456
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.97
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.96
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.73
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.73
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.48
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.45
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.45
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.44
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.4
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.37
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.32
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.31
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.31
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.31
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.0
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.96
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.92
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.89
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.87
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.86
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.82
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.8
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.79
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.77
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.76
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.75
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.71
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.67
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.65
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.62
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.55
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.52
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.47
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.42
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.41
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.39
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.35
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.34
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.33
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.31
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.3
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.3
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.22
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.2
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.1
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.09
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.06
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.99
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.98
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.92
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.83
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.7
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.68
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.63
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.27
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.27
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.43
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.99
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.96
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.82
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	92.96
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	92.77
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	92.73
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	92.03

>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=99.97  E-value=3.2e-25  Score=195.81  Aligned_cols=381  Identities=11%  Similarity=0.021  Sum_probs=231.9

Q ss_pred             HHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCC
Q 012804           13 CVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSL   92 (456)
Q Consensus        13 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   92 (456)
                      +...+.+.|++++|++.++++++..+. ++.++..+..++.+.|++++|+..|+++.+.. +.+..++..+..++...|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEPD-NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcc
Confidence            345566777777777777777766533 56666667777777777777777777766553 2245566666666666666


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHH
Q 012804           93 LSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRG  172 (456)
Q Consensus        93 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  172 (456)
                      +++|.+.+......... +..............+....+........... .................+....+...+..
T Consensus        83 ~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPD-FIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             ccccccccccccccccc-cccccccccccccccccccccccccccccccc-cccccccccccccccccchhhhhHHHHHH
Confidence            66666666666654322 33333333334444444444444443333322 22223333333344444444444444444


Q ss_pred             HHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcCh
Q 012804          173 LQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDG  252 (456)
Q Consensus       173 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  252 (456)
                      ..... +.                                   +...+..+...+...++++.|...++...+.. +.+.
T Consensus       161 ~~~~~-~~-----------------------------------~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~  203 (388)
T d1w3ba_         161 AIETQ-PN-----------------------------------FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFL  203 (388)
T ss_dssp             HHHHC-TT-----------------------------------CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             hhccC-cc-----------------------------------hhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccH
Confidence            33321 11                                   33344444455555555555555555555443 3344


Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHH
Q 012804          253 FGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGL  332 (456)
Q Consensus       253 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  332 (456)
                      ..+..+...+...|++++|...++.....+. .+...+..+...+.+.|++++|...+++..+... -+..++..+...+
T Consensus       204 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~  281 (388)
T d1w3ba_         204 DAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANAL  281 (388)
T ss_dssp             HHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHH
T ss_pred             HHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHH
Confidence            4555556666666666666666666665432 2455566666677777777777777777666532 2456677777777


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHH
Q 012804          333 CKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASK  409 (456)
Q Consensus       333 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~  409 (456)
                      ...|++++|...++...... +.+...+..+...+...|++++|++.|+++.+.   ++.++..++.+|.+.|++++|++
T Consensus       282 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~  360 (388)
T d1w3ba_         282 KEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALM  360 (388)
T ss_dssp             HHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHH
T ss_pred             HHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            77777777777777776653 566677777777777888888888888777654   56677788888888888888888


Q ss_pred             HHHHHHHcCCCCCHHhHHHHHHHHHccCC
Q 012804          410 LLLSCLKSGVRILKSAQKAVVDGLRHSGC  438 (456)
Q Consensus       410 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  438 (456)
                      .|+++++..+. ++.++..++.+|.+.||
T Consensus       361 ~~~~al~l~P~-~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         361 HYKEAIRISPT-FADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHTTCTT-CHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHcCC
Confidence            88888866433 67788888888877775

>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=99.96  E-value=7.4e-25  Score=193.47  Aligned_cols=360  Identities=15%  Similarity=0.086  Sum_probs=273.0

Q ss_pred             CCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHH
Q 012804            3 GKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNS   82 (456)
Q Consensus         3 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   82 (456)
                      .|-++.++..+...+.+.|++++|+..|+++++..+. +..++..+..++.+.|++++|++.+....+.. +.+......
T Consensus        29 ~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~  106 (388)
T d1w3ba_          29 EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL-LAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYIN  106 (388)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHhhhhccccccccccccccccc-ccccccccc
Confidence            4667889999999999999999999999999998754 77899999999999999999999999998874 334555555


Q ss_pred             HHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCC
Q 012804           83 LIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRY  162 (456)
Q Consensus        83 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  162 (456)
                      ........+....+............. ...............+....+...+....... +.+...+..+...+...|+
T Consensus       107 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~  184 (388)
T d1w3ba_         107 LAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGE  184 (388)
T ss_dssp             HHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTC
T ss_pred             ccccccccccccccccccccccccccc-cccccccccccccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCc
Confidence            556666666666776666666554433 44555566777788888999999888887665 5567788888899999999


Q ss_pred             hHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHH
Q 012804          163 TDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSA  242 (456)
Q Consensus       163 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  242 (456)
                      +++|...+++..+.. +.+...+..+...+...|++++|...+......+. .+...+..+...+...|++++|...+++
T Consensus       185 ~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~  262 (388)
T d1w3ba_         185 IWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNLACVYYEQGLIDLAIDTYRR  262 (388)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999999999887753 33567788888888888888888888888776543 3566667777778888888888888888


Q ss_pred             HHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCH
Q 012804          243 MKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDK  322 (456)
Q Consensus       243 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  322 (456)
                      +.+.. +.+..++..+..++...|++++|...++...... +.+...+..+...+...|++++|...+++..+... -+.
T Consensus       263 al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~  339 (388)
T d1w3ba_         263 AIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFP-EFA  339 (388)
T ss_dssp             HHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCT-TCH
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCH
Confidence            77765 5556677777777778888888888887777653 34666777777777777888888888777766432 245


Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC
Q 012804          323 YTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGK  372 (456)
Q Consensus       323 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  372 (456)
                      .++..+...+...|++++|...|+++++.. |.+...+..++.+|.+.||
T Consensus       340 ~~~~~la~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         340 AAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHHTTTCCHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            667777777777777777777777777653 4456677777777766664

>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=99.73  E-value=9.7e-16  Score=130.78  Aligned_cols=228  Identities=8%  Similarity=-0.013  Sum_probs=161.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcC
Q 012804          187 ILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIG  266 (456)
Q Consensus       187 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  266 (456)
                      .....+.+.|++++|...|+.+.+..+. +..+|..+..++...|+++.|...+.++.+.. |-+...+..+..++...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            4556678888888888888888876443 67778888888888888888888888888775 556677777888888888


Q ss_pred             ChHHHHHHHHHHHHCCCcc--------------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CcCHHhHHHHHHH
Q 012804          267 RLKEATDYMEQMVTDGVQL--------------DIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGF-ECDKYTHTILIDG  331 (456)
Q Consensus       267 ~~~~a~~~~~~~~~~~~~~--------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~  331 (456)
                      ++++|.+.++.........              +.......+..+...+.+.+|...+.+...... .++..++..+...
T Consensus       102 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~  181 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVL  181 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHH
T ss_pred             cccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHH
Confidence            8888888888887652210              000111122233445566777777777665422 2345566777777


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHH
Q 012804          332 LCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSAS  408 (456)
Q Consensus       332 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~  408 (456)
                      +...|++++|...++.+.... +.+...+..++.++...|++++|.+.|+++.+.   ++.+|..++.+|.+.|++++|+
T Consensus       182 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~  260 (323)
T d1fcha_         182 FNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAV  260 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHHHHHHHHCCCHHHHH
Confidence            777888888888888877653 455677777777888888888888888776653   5667777788888888888888


Q ss_pred             HHHHHHHHc
Q 012804          409 KLLLSCLKS  417 (456)
Q Consensus       409 ~~~~~~~~~  417 (456)
                      +.|+++++.
T Consensus       261 ~~~~~al~l  269 (323)
T d1fcha_         261 EHFLEALNM  269 (323)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            888887765

>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=99.73  E-value=4.1e-15  Score=126.83  Aligned_cols=232  Identities=11%  Similarity=-0.045  Sum_probs=189.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHh
Q 012804          150 FNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFR  229 (456)
Q Consensus       150 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  229 (456)
                      .-.....+.+.|++++|+..|+++.+.. |-+..+|..+..++...|++++|...+.+..+..+. +...+..+..++..
T Consensus        22 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~   99 (323)
T d1fcha_          22 PFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTN   99 (323)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-cccccccccccccc
Confidence            3456778889999999999999999873 446889999999999999999999999998875443 67888889999999


Q ss_pred             cCchhHHHHHHHHHHHcCCCcChhh---------------HHHHHHHHHHcCChHHHHHHHHHHHHCCC-ccCHHHHHHH
Q 012804          230 NRKYKLGLEILSAMKRKGYTFDGFG---------------YCTVIAAFVKIGRLKEATDYMEQMVTDGV-QLDIVSYNTL  293 (456)
Q Consensus       230 ~~~~~~a~~~~~~~~~~~~~~~~~~---------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l  293 (456)
                      .|++++|.+.++.+...... ....               ....+..+...+.+.++...+.+.....+ .++...+..+
T Consensus       100 ~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l  178 (323)
T d1fcha_         100 ESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGL  178 (323)
T ss_dssp             TTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHH
T ss_pred             cccccccccchhhHHHhccc-hHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhh
Confidence            99999999999999876311 1110               11122334455678888888888876532 3467788889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCH
Q 012804          294 INLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKI  373 (456)
Q Consensus       294 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  373 (456)
                      ...+...|++++|...++....... -+..++..+...+...|++++|...++++++.. +.+..++..++.+|.+.|++
T Consensus       179 ~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~  256 (323)
T d1fcha_         179 GVLFNLSGEYDKAVDCFTAALSVRP-NDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAH  256 (323)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHhhhhccccccccccc-ccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCH
Confidence            9999999999999999999987643 367788999999999999999999999998864 55688899999999999999


Q ss_pred             HHHHHHHHHhccC
Q 012804          374 DHAINVFESMEVK  386 (456)
Q Consensus       374 ~~a~~~~~~~~~~  386 (456)
                      ++|++.|+++.+.
T Consensus       257 ~~A~~~~~~al~l  269 (323)
T d1fcha_         257 REAVEHFLEALNM  269 (323)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988764

>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=99.48  E-value=1.2e-10  Score=100.16  Aligned_cols=294  Identities=17%  Similarity=0.092  Sum_probs=132.9

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCC-----hhHHHHHHHHHHhcCChHHHHHHHHHHHhCC----CC-CcHHHHHH
Q 012804          118 LMHCLFQLGKPDEANRVFQDMICGDLTPC-----TATFNIMLNGLCKNRYTDNALRMFRGLQKHG----FV-PELVTYNI  187 (456)
Q Consensus       118 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~-~~~~~~~~  187 (456)
                      ....+...|++++|++++++..... +.+     ...+..+..++...|++++|+..+++..+..    .. .....+..
T Consensus        18 rA~~~~~~g~~~~A~~~~~~aL~~~-~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   96 (366)
T d1hz4a_          18 RAQVAINDGNPDEAERLAKLALEEL-PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQ   96 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTC-CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhC-cCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHH
Confidence            3444556666666666666665542 111     1234445556666666666666666554320    00 01122333


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhh----CCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHH
Q 012804          188 LIKGLCKAGRLRTARWILKELGD----SGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFV  263 (456)
Q Consensus       188 l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  263 (456)
                      +...+...|++..+...+.....    .+......                                ....+..+...+.
T Consensus        97 ~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~--------------------------------~~~~~~~la~~~~  144 (366)
T d1hz4a_          97 QSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPM--------------------------------HEFLVRIRAQLLW  144 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTH--------------------------------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhH--------------------------------HHHHHHHHHHHHH
Confidence            44445555555555555544322    10000000                                0112223334444


Q ss_pred             HcCChHHHHHHHHHHHHC----CCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCc--CHHhHHHHHHHHH
Q 012804          264 KIGRLKEATDYMEQMVTD----GVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQ----GFEC--DKYTHTILIDGLC  333 (456)
Q Consensus       264 ~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~  333 (456)
                      ..|+++.+...+......    +.......+......+...++...+...+......    +..+  ....+..+...+.
T Consensus       145 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  224 (366)
T d1hz4a_         145 AWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQ  224 (366)
T ss_dssp             HTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHH
T ss_pred             HhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHH
Confidence            455555555554444432    11122233334444445555555555554443321    0000  1112333444455


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---------ChhhHHHHHHHHHcc
Q 012804          334 KAGNIKGARLHLEYMNKIGFDS---NLEAYNCIVDRLGKDGKIDHAINVFESMEVK---------DSFTYSSMVHNLCKA  401 (456)
Q Consensus       334 ~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---------~~~~~~~l~~~~~~~  401 (456)
                      ..|+++.|...++.........   ....+..+..++...|++++|...++++...         ...++..+..+|...
T Consensus       225 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~  304 (366)
T d1hz4a_         225 MTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQA  304 (366)
T ss_dssp             HTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             hcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHC
Confidence            5555666655555544331111   1223344455555666666666665554321         233455566666666


Q ss_pred             CChhHHHHHHHHHHHc----CCC----CCHHhHHHHHHHHHccCChHHHHH
Q 012804          402 KRLPSASKLLLSCLKS----GVR----ILKSAQKAVVDGLRHSGCRREAKK  444 (456)
Q Consensus       402 ~~~~~A~~~~~~~~~~----~~~----~~~~~~~~l~~~~~~~g~~~~A~~  444 (456)
                      |++++|.+.++++++.    |..    .....+..++..+...|..+++.+
T Consensus       305 g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~e~e~  355 (366)
T d1hz4a_         305 GRKSDAQRVLLDALKLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPELEQ  355 (366)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCSCHHHH
T ss_pred             CCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCChHHHH
Confidence            6666666666665443    111    012234445555666666666544

>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=99.45  E-value=2.9e-10  Score=97.69  Aligned_cols=270  Identities=12%  Similarity=0.018  Sum_probs=152.1

Q ss_pred             HHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCC----HHhHHHHHHHHHhcCChhHHHHHHHHHHhCC----C-CCChhH
Q 012804           79 TYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPD----VWSYNSLMHCLFQLGKPDEANRVFQDMICGD----L-TPCTAT  149 (456)
Q Consensus        79 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~-~~~~~~  149 (456)
                      ........+...|++++|++++++..+.....+    ...+..+..++...|++++|...|++.....    . ......
T Consensus        14 ~~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   93 (366)
T d1hz4a_          14 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   93 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHH
Confidence            344456677899999999999999988643322    2456778889999999999999999886531    1 112345


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhC----CCC--C-cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCC----CCCHH
Q 012804          150 FNIMLNGLCKNRYTDNALRMFRGLQKH----GFV--P-ELVTYNILIKGLCKAGRLRTARWILKELGDSGH----APNAI  218 (456)
Q Consensus       150 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~  218 (456)
                      +..+...+...|++..+...+......    +..  + ....+..+...+...|+++.+...+........    .....
T Consensus        94 ~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  173 (366)
T d1hz4a_          94 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  173 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHH
Confidence            566778888999999999999876542    111  1 123455666778888888888888877654221    12233


Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHHcC--CCc----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCC---ccCHHH
Q 012804          219 TYTTIMKCCFRNRKYKLGLEILSAMKRKG--YTF----DGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGV---QLDIVS  289 (456)
Q Consensus       219 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~  289 (456)
                      .+......+...++...+...+.......  ...    ....+......+...|+++.|...++.......   ......
T Consensus       174 ~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  253 (366)
T d1hz4a_         174 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  253 (366)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHH
Confidence            34444555566666666666655544321  000    011223333344445555555555544433211   111223


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH----cCCCcC-HHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 012804          290 YNTLINLYCKEGKLEAAYLLLDEMEK----QGFECD-KYTHTILIDGLCKAGNIKGARLHLEYM  348 (456)
Q Consensus       290 ~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~  348 (456)
                      +..+..++...|++++|...++....    .+..|+ ..++..+...+...|++++|...+++.
T Consensus       254 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~A  317 (366)
T d1hz4a_         254 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDA  317 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            33344445555555555555544432    111111 223334444444444444444444443

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=6.1e-11  Score=99.44  Aligned_cols=216  Identities=10%  Similarity=0.062  Sum_probs=156.7

Q ss_pred             chHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccC-ChhHHHHHHHHHHhCCCCCCHhHHHHHH
Q 012804            6 STRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFV-SFDAGYTILNRMREAGISPDVVTYNSLI   84 (456)
Q Consensus         6 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~   84 (456)
                      ...+++.+...+.+.+.+++|+++++.+++.+|. +..+|+....++...| ++++|+..++...+.. +-+..+|..+.
T Consensus        42 ~~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~  119 (315)
T d2h6fa1          42 FRDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRR  119 (315)
T ss_dssp             HHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHh
Confidence            3567777777888888999999999999988754 7778888888887766 4889999998887764 34677888888


Q ss_pred             HHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCC--
Q 012804           85 AGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRY--  162 (456)
Q Consensus        85 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--  162 (456)
                      ..+.+.|++++|++.++++.+..+. +...|..+..++...|++++|++.++.+++.+ +.+...|+.+...+.+.+.  
T Consensus       120 ~~~~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~  197 (315)
T d2h6fa1         120 VLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYN  197 (315)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccc
Confidence            8888889999999999988886544 78888888888889999999999999888876 5667778777766666554  


Q ss_pred             ----hHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCC-CCHHHHHHHHHHH
Q 012804          163 ----TDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHA-PNAITYTTIMKCC  227 (456)
Q Consensus       163 ----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~  227 (456)
                          +++|+..+.+..+.. +.+...|..+...+.. ...+++...+......... .+...+..++..|
T Consensus       198 ~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y  265 (315)
T d2h6fa1         198 DRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIY  265 (315)
T ss_dssp             SHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             hhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHH
Confidence                467777777777652 3366666666555443 3345666666655443222 2344444444444

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.44  E-value=4.8e-11  Score=100.07  Aligned_cols=195  Identities=8%  Similarity=0.030  Sum_probs=108.1

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHHHcCCCcChhhHHHHHHH
Q 012804          183 VTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNR-KYKLGLEILSAMKRKGYTFDGFGYCTVIAA  261 (456)
Q Consensus       183 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  261 (456)
                      ..++.+...+.+.+.+++|+..++.+...++. +...|+....++...+ ++++|+..++.+.+.. +-+..+|......
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~  121 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHH
Confidence            34445555556666666666666666654332 4445555555555544 3566666666666554 4455566666666


Q ss_pred             HHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCC----
Q 012804          262 FVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGN----  337 (456)
Q Consensus       262 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----  337 (456)
                      +...|++++|...++++++..+. +...|..+...+...|++++|+..++.+.+.++. +...|..+...+.+.+.    
T Consensus       122 ~~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccchh
Confidence            66666666666666666665333 5566666666666666666666666666654322 44455555544444443    


Q ss_pred             --HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHh
Q 012804          338 --IKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESM  383 (456)
Q Consensus       338 --~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  383 (456)
                        +++|...+..+++.. |.+...|..+...+... ..+++.+.++..
T Consensus       200 ~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~~-~~~~~~~~~~~~  245 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDR-GLSKYPNLLNQL  245 (315)
T ss_dssp             HHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTT-CGGGCHHHHHHH
T ss_pred             hhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHhc-ChHHHHHHHHHH
Confidence              345555555555543 44455555554443332 234455544444

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.40  E-value=1.6e-10  Score=96.81  Aligned_cols=216  Identities=7%  Similarity=-0.046  Sum_probs=98.0

Q ss_pred             HHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCc--------------hhHHHHHHHHHHHcCCCcChhhHHHHHHHHH
Q 012804          198 LRTARWILKELGDSGHAPNAITYTTIMKCCFRNRK--------------YKLGLEILSAMKRKGYTFDGFGYCTVIAAFV  263 (456)
Q Consensus       198 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--------------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  263 (456)
                      .+.+..+|+++.... +.++..|...+..+...++              .+++..++++..+...+.+...+...+....
T Consensus        32 ~~Rv~~vyerAl~~~-~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~  110 (308)
T d2onda1          32 TKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            344555666655432 2244445444443332221              2444455555544332333344444444455


Q ss_pred             HcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHH-HHhcCCHHHHH
Q 012804          264 KIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDG-LCKAGNIKGAR  342 (456)
Q Consensus       264 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~  342 (456)
                      ..|+++.|..+++.++.........+|...+....+.|+.+.|.++|+.+.+.+.. +...|...+.. +...|+.+.|.
T Consensus       111 ~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~  189 (308)
T d2onda1         111 SRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             hcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHH
Confidence            55555555555555554322222334455555555555555555555555443211 22223222221 22234555555


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---C----hhhHHHHHHHHHccCChhHHHHHHHHHH
Q 012804          343 LHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---D----SFTYSSMVHNLCKAKRLPSASKLLLSCL  415 (456)
Q Consensus       343 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~  415 (456)
                      .+|+.+.+. .+.+...|..++..+.+.|+++.|+.+|+++...   +    ...|...+..-...|+.+.+.++++++.
T Consensus       190 ~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~  268 (308)
T d2onda1         190 KIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            555555443 2334455555555555555555555555554332   1    1234444444444555555555555544


Q ss_pred             H
Q 012804          416 K  416 (456)
Q Consensus       416 ~  416 (456)
                      +
T Consensus       269 ~  269 (308)
T d2onda1         269 T  269 (308)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.37  E-value=3e-10  Score=95.14  Aligned_cols=185  Identities=13%  Similarity=0.022  Sum_probs=98.2

Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHH
Q 012804          199 RTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQM  278 (456)
Q Consensus       199 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  278 (456)
                      ++|..+|++..+...+.+...+...+......|+++.|..+++.+.+.........+...+....+.|+.+.|+.+|+.+
T Consensus        81 ~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~a  160 (308)
T d2onda1          81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKA  160 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            45555666655443333444555555555666666666666666655432222334555555666666666666666666


Q ss_pred             HHCCCccCHHHHHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCC
Q 012804          279 VTDGVQLDIVSYNTLINL-YCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIG-FDSN  356 (456)
Q Consensus       279 ~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~  356 (456)
                      +...+. +...|...+.. +...|+.+.|..+|+.+.... +.+...+...+..+...|+++.|..+|++..+.. ..|+
T Consensus       161 l~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~  238 (308)
T d2onda1         161 REDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE  238 (308)
T ss_dssp             HTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGG
T ss_pred             HHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChH
Confidence            554322 33333333322 223456666666666665542 2245556666666666666666666666655542 1221


Q ss_pred             --HHHHHHHHHHHHhCCCHHHHHHHHHHhcc
Q 012804          357 --LEAYNCIVDRLGKDGKIDHAINVFESMEV  385 (456)
Q Consensus       357 --~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  385 (456)
                        ...|...+..-...|+.+.+.++++++.+
T Consensus       239 ~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         239 KSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             GCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence              23455555555555666666666655544

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.32  E-value=2.4e-11  Score=103.43  Aligned_cols=229  Identities=6%  Similarity=-0.067  Sum_probs=112.2

Q ss_pred             hhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcC--ChhHHHHHHHHHHhCCCCCChhHHHH-HHHHHHhcCChHHHHHH
Q 012804           93 LSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLG--KPDEANRVFQDMICGDLTPCTATFNI-MLNGLCKNRYTDNALRM  169 (456)
Q Consensus        93 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~~~  169 (456)
                      +++|+.+++...+..+. +...|..+..++...+  ++++|...++++.... +++...+.. ....+...+.+++|+..
T Consensus        89 ~~~al~~~~~~l~~~pk-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~  166 (334)
T d1dcea1          89 VKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAF  166 (334)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-cHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHH
Confidence            44455555555443322 3344444444443333  2445555555554443 233333322 22344444555555555


Q ss_pred             HHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCC
Q 012804          170 FRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYT  249 (456)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  249 (456)
                      ++.+.+.. +-+...|+.+..++.+.|++++|...+......    .+. .......+...+..+.+...+....... +
T Consensus       167 ~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~-~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~  239 (334)
T d1dcea1         167 TDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV----LLK-ELELVQNAFFTDPNDQSAWFYHRWLLGR-A  239 (334)
T ss_dssp             HHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH----HHH-HHHHHHHHHHHCSSCSHHHHHHHHHHSC-C
T ss_pred             HHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh----HHH-HHHHHHHHHHhcchhHHHHHHHHHHHhC-c
Confidence            55554442 224445555555555555554443333222110    000 0112222334455555666666655554 4


Q ss_pred             cChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcC-HHhHHHH
Q 012804          250 FDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECD-KYTHTIL  328 (456)
Q Consensus       250 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l  328 (456)
                      ++...+..+...+...++.++|...+.+....++. +...+..+..++...|++++|.+.++.+.+.  .|+ ...|..+
T Consensus       240 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~~L  316 (334)
T d1dcea1         240 EPLFRCELSVEKSTVLQSELESCKELQELEPENKW-CLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDL  316 (334)
T ss_dssp             CCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHHHH
T ss_pred             chhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCch-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHHHH
Confidence            44444555555666667777777777776665322 4556666777777777777777777777664  343 3344444


Q ss_pred             HHHHH
Q 012804          329 IDGLC  333 (456)
Q Consensus       329 ~~~~~  333 (456)
                      ...+.
T Consensus       317 ~~~~~  321 (334)
T d1dcea1         317 RSKFL  321 (334)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            44443

>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=99.31  E-value=7.3e-10  Score=90.36  Aligned_cols=194  Identities=10%  Similarity=-0.111  Sum_probs=110.0

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHH
Q 012804          219 TYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYC  298 (456)
Q Consensus       219 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  298 (456)
                      ++..+..+|.+.|++++|...|++.++.. |.+..++..+..++...|++++|...|+++++.++. +..++..+..+|.
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~  116 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhh-hhhhHHHHHHHHH
Confidence            44455566666777777777777766664 555666666777777777777777777777765433 4556666677777


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC----HH
Q 012804          299 KEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGK----ID  374 (456)
Q Consensus       299 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----~~  374 (456)
                      ..|++++|...++...+... .+......+...+.+.+..+.+..+........  ++...+. ++..+.....    .+
T Consensus       117 ~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~-~~~~~~~~~~~~~~~~  192 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD--KEQWGWN-IVEFYLGNISEQTLME  192 (259)
T ss_dssp             HTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC--CCSTHHH-HHHHHTTSSCHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc--hhhhhhh-HHHHHHHHHHHHHHHH
Confidence            77777777777777766532 233333333344444454444444444444432  1111111 1222222111    12


Q ss_pred             HHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          375 HAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       375 ~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      .+...+......   ...+|..++..+...|++++|.+.|++++...
T Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         193 RLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             HHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            222221111111   34567778888899999999999999988664

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.31  E-value=2.5e-11  Score=103.31  Aligned_cols=231  Identities=8%  Similarity=-0.094  Sum_probs=155.7

Q ss_pred             HcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcC--chhHHHHHHHHHHHcCCCcChhhHH-HHHHHHHHcCChHH
Q 012804          194 KAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFRNR--KYKLGLEILSAMKRKGYTFDGFGYC-TVIAAFVKIGRLKE  270 (456)
Q Consensus       194 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~  270 (456)
                      ..|++++|+..++......+. +...+..+..++...+  +++++...+..+.+.. +.+...+. .....+...+..+.
T Consensus        85 ~~~~~~~al~~~~~~l~~~pk-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~  162 (334)
T d1dcea1          85 SAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAE  162 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCCC-cHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHH
Confidence            444567777777777664332 5556666655555544  4677888888887765 44444443 34456666788888


Q ss_pred             HHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 012804          271 ATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNK  350 (456)
Q Consensus       271 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  350 (456)
                      |...++.++..++. +...|..+..++...|++++|...+....+.  .|+   .......+...+..+++...+.....
T Consensus       163 Al~~~~~~i~~~p~-~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~  236 (334)
T d1dcea1         163 ELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLL  236 (334)
T ss_dssp             HHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            88888888877544 6777888888888888887776555443332  111   11223334556667777777777776


Q ss_pred             CCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHH
Q 012804          351 IGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQK  427 (456)
Q Consensus       351 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  427 (456)
                      .. +++...+..++..+...|+..+|...+.+....   +..+|..++.++...|++++|++.++++++.++. +...|.
T Consensus       237 ~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~-~~~y~~  314 (334)
T d1dcea1         237 GR-AEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPM-RAAYLD  314 (334)
T ss_dssp             SC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGG-GHHHHH
T ss_pred             hC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcc-cHHHHH
Confidence            53 455556666777778888999999999888877   4466777888899999999999999999877432 455666


Q ss_pred             HHHHHHH
Q 012804          428 AVVDGLR  434 (456)
Q Consensus       428 ~l~~~~~  434 (456)
                      .+...+.
T Consensus       315 ~L~~~~~  321 (334)
T d1dcea1         315 DLRSKFL  321 (334)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            6655544

>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=99.31  E-value=1.4e-10  Score=94.64  Aligned_cols=219  Identities=11%  Similarity=-0.061  Sum_probs=151.2

Q ss_pred             chhHHHHHHHHHHHcCCCc---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHH
Q 012804          232 KYKLGLEILSAMKRKGYTF---DGFGYCTVIAAFVKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYL  308 (456)
Q Consensus       232 ~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  308 (456)
                      +.+.++..++++.......   ...++..+..+|.+.|++++|...|++.+...+. ++.+|..+..+|...|++++|+.
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~   92 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYE   92 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhh
Confidence            3455666666666542111   2345667788999999999999999999987544 78899999999999999999999


Q ss_pred             HHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccCCh
Q 012804          309 LLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVKDS  388 (456)
Q Consensus       309 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  388 (456)
                      .|+++.+.... +..++..+...+...|++++|...++...+.. +.+......+...+.+.+..+.+..+.......+.
T Consensus        93 ~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (259)
T d1xnfa_          93 AFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDK  170 (259)
T ss_dssp             HHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCC
T ss_pred             hhhHHHHHHhh-hhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccch
Confidence            99999986433 56788899999999999999999999998874 45555555555566666666655555554444422


Q ss_pred             hhH-HHHHHHHHccCCh----hHHHHHHHHHHHcCCCC-CHHhHHHHHHHHHccCChHHHHHHHHHHHhcccC
Q 012804          389 FTY-SSMVHNLCKAKRL----PSASKLLLSCLKSGVRI-LKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKIS  455 (456)
Q Consensus       389 ~~~-~~l~~~~~~~~~~----~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  455 (456)
                      ..+ ..++..+......    +.+...+......  .| ...++..++..+...|++++|.+.|++....++.
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~  241 (259)
T d1xnfa_         171 EQWGWNIVEFYLGNISEQTLMERLKADATDNTSL--AEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVH  241 (259)
T ss_dssp             CSTHHHHHHHHTTSSCHHHHHHHHHHHCCSHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCT
T ss_pred             hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhc--CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC
Confidence            222 1222333222222    2222222222111  12 2346677899999999999999999999887764

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.00  E-value=3.4e-08  Score=81.53  Aligned_cols=124  Identities=10%  Similarity=0.008  Sum_probs=58.3

Q ss_pred             cCChHHHHHHHHHHHHC----CCcc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCH------HhHHHHHHHHH
Q 012804          265 IGRLKEATDYMEQMVTD----GVQL-DIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDK------YTHTILIDGLC  333 (456)
Q Consensus       265 ~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~  333 (456)
                      .|++++|...+++..+.    +.++ ...++..+...+...|++++|...++++.........      ..+...+..+.
T Consensus       131 ~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  210 (290)
T d1qqea_         131 LHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQL  210 (290)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHH
Confidence            46666666666555431    1111 1234555666666666777776666666543211110      11233333445


Q ss_pred             hcCCHHHHHHHHHHHHhCCCC-C---CHHHHHHHHHHHHh--CCCHHHHHHHHHHhccCCh
Q 012804          334 KAGNIKGARLHLEYMNKIGFD-S---NLEAYNCIVDRLGK--DGKIDHAINVFESMEVKDS  388 (456)
Q Consensus       334 ~~~~~~~a~~~~~~~~~~~~~-~---~~~~~~~l~~~~~~--~g~~~~a~~~~~~~~~~~~  388 (456)
                      ..|+++.|...+++..+.... +   .......++.++..  .+.+++|+..|+++.+.|+
T Consensus       211 ~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~lD~  271 (290)
T d1qqea_         211 AATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDK  271 (290)
T ss_dssp             HTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCH
T ss_pred             HhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCH
Confidence            566666666666665543210 0   11233344444433  2335555555555544443

>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=98.96  E-value=3.8e-08  Score=75.31  Aligned_cols=121  Identities=11%  Similarity=-0.065  Sum_probs=63.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHH
Q 012804          296 LYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDH  375 (456)
Q Consensus       296 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  375 (456)
                      .+...|+++.|++.|.++    .+|+..++..+..++...|++++|+..|++.++.. +.+...|..+..++.+.|++++
T Consensus        14 ~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHH
Confidence            334455555555554432    12344444455555555555555555555555443 3344455555555555555555


Q ss_pred             HHHHHHHhccC-------------------ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCC
Q 012804          376 AINVFESMEVK-------------------DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRI  421 (456)
Q Consensus       376 a~~~~~~~~~~-------------------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  421 (456)
                      |.+.|+++...                   ...++..+..++.+.|++++|.+.++++++..+.+
T Consensus        89 A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~  153 (192)
T d1hh8a_          89 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  153 (192)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            55555544321                   12345566667777777777777777776554443

>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=98.92  E-value=2.1e-08  Score=82.75  Aligned_cols=168  Identities=10%  Similarity=-0.074  Sum_probs=84.2

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHHc----CC-CcChhhHHHHHHHHHHcCChHHHHHHHHHHHHC-----CCccCHH
Q 012804          219 TYTTIMKCCFRNRKYKLGLEILSAMKRK----GY-TFDGFGYCTVIAAFVKIGRLKEATDYMEQMVTD-----GVQLDIV  288 (456)
Q Consensus       219 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~  288 (456)
                      .|......|...+++++|.+.|.++.+.    +. +....+|..+..+|.+.|++++|...++.....     .......
T Consensus        39 ~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  118 (290)
T d1qqea_          39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (290)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHH
Confidence            3555556666666666666666665542    10 111234555566666666666666666655442     1111123


Q ss_pred             HHHHHHHHHHh-cCCHHHHHHHHHHHHHc----CCCc-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC------
Q 012804          289 SYNTLINLYCK-EGKLEAAYLLLDEMEKQ----GFEC-DKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSN------  356 (456)
Q Consensus       289 ~~~~l~~~~~~-~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------  356 (456)
                      ++..+...|.. .|++++|...+++..+.    +..+ ...++..+...+...|++++|...++++........      
T Consensus       119 ~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~  198 (290)
T d1qqea_         119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSL  198 (290)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGH
T ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhH
Confidence            34444444433 46666666666655321    1111 123455556666666666666666666554321110      


Q ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHhccC
Q 012804          357 LEAYNCIVDRLGKDGKIDHAINVFESMEVK  386 (456)
Q Consensus       357 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  386 (456)
                      ...+...+.++...|+++.|.+.+++..+.
T Consensus       199 ~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~  228 (290)
T d1qqea_         199 KDYFLKKGLCQLAATDAVAAARTLQEGQSE  228 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGCC
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            112233334455566666666666665544

>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=98.89  E-value=3.9e-08  Score=68.32  Aligned_cols=101  Identities=17%  Similarity=0.028  Sum_probs=64.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCCh
Q 012804          328 LIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRL  404 (456)
Q Consensus       328 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~  404 (456)
                      -...+...|++++|+..|+++++.. |.+...|..+..++...|++++|+..+.++...   ++..|..++.++...|++
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCH
Confidence            3445566677777777777766653 555666666677777777777777777766554   566667777777777777


Q ss_pred             hHHHHHHHHHHHcCCCCCHHhHHHHH
Q 012804          405 PSASKLLLSCLKSGVRILKSAQKAVV  430 (456)
Q Consensus       405 ~~A~~~~~~~~~~~~~~~~~~~~~l~  430 (456)
                      ++|+..|+++++..+. ++..+..+.
T Consensus        88 ~~A~~~~~~a~~~~p~-~~~~~~~l~  112 (117)
T d1elwa_          88 EEAKRTYEEGLKHEAN-NPQLKEGLQ  112 (117)
T ss_dssp             HHHHHHHHHHHTTCTT-CHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHH
Confidence            7777777777755332 444444443

>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=98.87  E-value=2.3e-08  Score=69.51  Aligned_cols=95  Identities=13%  Similarity=0.020  Sum_probs=85.6

Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccC
Q 012804          361 NCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSG  437 (456)
Q Consensus       361 ~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  437 (456)
                      ..-+..+.+.|++++|+..|+++...   ++..|..++.++...|++++|+..++++++.++. ++..|..++.++...|
T Consensus         7 ~~~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~g~~~~~~~   85 (117)
T d1elwa_           7 KEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAALEFLN   85 (117)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccc-hhhHHHHHHHHHHHcc
Confidence            34567889999999999999998766   7788999999999999999999999999988654 8899999999999999


Q ss_pred             ChHHHHHHHHHHHhcccCC
Q 012804          438 CRREAKKIQSKIRMAKISH  456 (456)
Q Consensus       438 ~~~~A~~~~~~~~~~~~~~  456 (456)
                      ++++|...+++..+..+.+
T Consensus        86 ~~~~A~~~~~~a~~~~p~~  104 (117)
T d1elwa_          86 RFEEAKRTYEEGLKHEANN  104 (117)
T ss_dssp             CHHHHHHHHHHHHTTCTTC
T ss_pred             CHHHHHHHHHHHHHhCCCC
Confidence            9999999999999887654

>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=98.86  E-value=1.9e-07  Score=71.34  Aligned_cols=129  Identities=9%  Similarity=-0.105  Sum_probs=94.2

Q ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHH
Q 012804            8 RLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGA   87 (456)
Q Consensus         8 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   87 (456)
                      ..|+. ...+...|+++.|++.|+.+    .+|++.+|..+..++...|++++|++.|++..+.+ +.+...|..+..++
T Consensus         7 ~l~~~-g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~   80 (192)
T d1hh8a_           7 SLWNE-GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLY   80 (192)
T ss_dssp             HHHHH-HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHH-HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHH
Confidence            34554 55678888999998888764    24577788888888888999999999998888875 34677888888888


Q ss_pred             HcCCChhHHHHHHHHHHHCCCC--------------C-CHHhHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 012804           88 TRNSLLSCSLDLLDEMLEMGIP--------------P-DVWSYNSLMHCLFQLGKPDEANRVFQDMICGD  142 (456)
Q Consensus        88 ~~~~~~~~a~~~~~~~~~~~~~--------------~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  142 (456)
                      .+.|++++|++.|++.......              + ...++..+..++.+.|++++|.+.+.......
T Consensus        81 ~~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          81 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HhhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            8899999998888887653111              0 02344556667777777777777777776554

>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=98.82  E-value=2e-08  Score=77.98  Aligned_cols=97  Identities=7%  Similarity=-0.204  Sum_probs=88.1

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHH
Q 012804          320 CDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVH  396 (456)
Q Consensus       320 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~  396 (456)
                      |+...+......+.+.|++++|+..|++++... |.+...|..++.+|.+.|++++|+..|+++...   ++.+|..++.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~   80 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   80 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHH
Confidence            677888888999999999999999999998875 678899999999999999999999999999876   6678999999


Q ss_pred             HHHccCChhHHHHHHHHHHHc
Q 012804          397 NLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       397 ~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      +|...|++++|+..|+++++.
T Consensus        81 ~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          81 CQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHh
Confidence            999999999999999999865

>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=98.80  E-value=1e-07  Score=70.57  Aligned_cols=101  Identities=12%  Similarity=-0.069  Sum_probs=62.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCCh
Q 012804          328 LIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRL  404 (456)
Q Consensus       328 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~  404 (456)
                      ....|.+.|++++|...|+++++.. +.+...|..+..+|...|++++|.+.|+++.+.   +..+|..++.++...|++
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCH
Confidence            3445566666666666666666653 455666666666666667777776666666544   455666666667777777


Q ss_pred             hHHHHHHHHHHHcCCCCCHHhHHHHH
Q 012804          405 PSASKLLLSCLKSGVRILKSAQKAVV  430 (456)
Q Consensus       405 ~~A~~~~~~~~~~~~~~~~~~~~~l~  430 (456)
                      ++|.+.+++++...+. +...+..+.
T Consensus        95 ~eA~~~~~~a~~~~p~-~~~~~~~l~  119 (159)
T d1a17a_          95 RAALRDYETVVKVKPH-DKDAKMKYQ  119 (159)
T ss_dssp             HHHHHHHHHHHHHSTT-CHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCC-CHHHHHHHH
Confidence            7777777777665422 444444443

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.79  E-value=2e-05  Score=63.54  Aligned_cols=113  Identities=10%  Similarity=-0.031  Sum_probs=69.4

Q ss_pred             CHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----CCCH
Q 012804          302 KLEAAYLLLDEMEKQGFECDKYTHTILIDGLCK----AGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGK----DGKI  373 (456)
Q Consensus       302 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~  373 (456)
                      ....+...+......   .+...+..+...+..    ..+...+..+++...+.|   +......+...|..    ..+.
T Consensus       125 ~~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~  198 (265)
T d1ouva_         125 DFKKAVEYFTKACDL---NDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNF  198 (265)
T ss_dssp             CHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCH
T ss_pred             hhHHHHHHhhhhhcc---cccchhhhhhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccch
Confidence            445555555554443   244445555555543    344556666666666544   45555556555554    4567


Q ss_pred             HHHHHHHHHhccC-ChhhHHHHHHHHHc----cCChhHHHHHHHHHHHcCCC
Q 012804          374 DHAINVFESMEVK-DSFTYSSMVHNLCK----AKRLPSASKLLLSCLKSGVR  420 (456)
Q Consensus       374 ~~a~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~  420 (456)
                      ++|...|.+..+. ++..+..|+..|.+    ..+.++|.+.|+++.+.|..
T Consensus       199 ~~A~~~~~~aa~~g~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         199 KEALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             hhhhhhHhhhhcccCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCH
Confidence            7788888777665 67777777777765    34777888888888777644

>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=98.77  E-value=2.1e-07  Score=68.78  Aligned_cols=96  Identities=16%  Similarity=0.128  Sum_probs=72.5

Q ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHc
Q 012804           10 LNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATR   89 (456)
Q Consensus        10 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   89 (456)
                      +....+.|.+.|++++|+..|+++++.++. +...|..+..++...|++++|++.|+.+.+.. +.+..+|..+..++..
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~   90 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMA   90 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHH
Confidence            444556777888888888888888877653 77777888888888888888888888887764 3356677777888888


Q ss_pred             CCChhHHHHHHHHHHHCC
Q 012804           90 NSLLSCSLDLLDEMLEMG  107 (456)
Q Consensus        90 ~~~~~~a~~~~~~~~~~~  107 (456)
                      .|++++|.+.+++.....
T Consensus        91 ~g~~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          91 LGKFRAALRDYETVVKVK  108 (159)
T ss_dssp             TTCHHHHHHHHHHHHHHS
T ss_pred             cCCHHHHHHHHHHHHHcC
Confidence            888888888888877754

>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=98.76  E-value=1.9e-08  Score=78.13  Aligned_cols=100  Identities=10%  Similarity=-0.147  Sum_probs=89.7

Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 012804          285 LDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIV  364 (456)
Q Consensus       285 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  364 (456)
                      |+...+......|.+.|++++|+..|.+.....+ .+...|..+..+|.+.|++++|+..++.+++.. +.+...|..++
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p-~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            6777888889999999999999999999988753 478889999999999999999999999999864 55688999999


Q ss_pred             HHHHhCCCHHHHHHHHHHhccC
Q 012804          365 DRLGKDGKIDHAINVFESMEVK  386 (456)
Q Consensus       365 ~~~~~~g~~~~a~~~~~~~~~~  386 (456)
                      .+|...|++++|...|+++...
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh
Confidence            9999999999999999988764

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.75  E-value=2.6e-05  Score=62.82  Aligned_cols=222  Identities=9%  Similarity=-0.015  Sum_probs=146.0

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHH----cCChHHHHHHHHHHHHCCCccCHHHHHH
Q 012804          217 AITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVK----IGRLKEATDYMEQMVTDGVQLDIVSYNT  292 (456)
Q Consensus       217 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~  292 (456)
                      +..+..|...+...+++++|.++|++..+.|   +...+..+...|..    ..+...+...+......+   ++.....
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~   75 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHL   75 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhc
Confidence            3444555555666667777777777666654   33344445555544    446677777777766654   2333334


Q ss_pred             HHHHHHh----cCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHH----hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 012804          293 LINLYCK----EGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLC----KAGNIKGARLHLEYMNKIGFDSNLEAYNCIV  364 (456)
Q Consensus       293 l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  364 (456)
                      +...+..    .++.+.|...++...+.|..   .....+...+.    .......+...+......   .+...+..+.
T Consensus        76 l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~  149 (265)
T d1ouva_          76 LGNLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILG  149 (265)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHH
T ss_pred             cccccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhh
Confidence            4444332    45677888888887776532   22333333333    234556777777776664   3567777787


Q ss_pred             HHHHh----CCCHHHHHHHHHHhccC-ChhhHHHHHHHHHc----cCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHc
Q 012804          365 DRLGK----DGKIDHAINVFESMEVK-DSFTYSSMVHNLCK----AKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRH  435 (456)
Q Consensus       365 ~~~~~----~g~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  435 (456)
                      ..+..    ..+...+...++...+. ++.+...+...|..    ..++++|+..|++..+.|   ++..+..|+..|..
T Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~  226 (265)
T d1ouva_         150 SLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYN  226 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHT
T ss_pred             hhhccCCCcccccccchhhhhccccccccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHc
Confidence            77775    45677888888887766 78888888877775    678999999999998886   56677778888875


Q ss_pred             ----cCChHHHHHHHHHHHhcc
Q 012804          436 ----SGCRREAKKIQSKIRMAK  453 (456)
Q Consensus       436 ----~g~~~~A~~~~~~~~~~~  453 (456)
                          ..+.++|.++|++.-..+
T Consensus       227 G~g~~~n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         227 GEGVTRNEKQAIENFKKGCKLG  248 (265)
T ss_dssp             TSSSSCCSTTHHHHHHHHHHHT
T ss_pred             CCCCccCHHHHHHHHHHHHHCc
Confidence                448999999999886654

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.71  E-value=4.3e-05  Score=62.81  Aligned_cols=148  Identities=7%  Similarity=0.052  Sum_probs=86.7

Q ss_pred             CCCCCchHHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHH
Q 012804            1 MFGKLSTRLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTY   80 (456)
Q Consensus         1 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   80 (456)
                      ++..||..--..+.+.|.+.|.++.|..+|..+         .-|..++..+.+.++++.|.+++.+.      -+..+|
T Consensus         8 fl~~~n~~d~~~i~~~c~~~~lye~A~~lY~~~---------~d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~   72 (336)
T d1b89a_           8 FINGPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTW   72 (336)
T ss_dssp             TTTCC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHH
T ss_pred             HHcCCCcCCHHHHHHHHHHCCCHHHHHHHHHhC---------CCHHHHHHHHHhhccHHHHHHHHHHc------CCHHHH
Confidence            456677777777778888888888888888743         23566777788888888887776543      256677


Q ss_pred             HHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhc
Q 012804           81 NSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKN  160 (456)
Q Consensus        81 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  160 (456)
                      ..+...+.+......+     .+.......++.....++..|-..|.+++...+++...... ..+...++.++..|++.
T Consensus        73 k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_          73 KEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF  146 (336)
T ss_dssp             HHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHh
Confidence            7777777776655432     22223333455556678888888888888888888776443 55666777888877775


Q ss_pred             CChHHHHHHH
Q 012804          161 RYTDNALRMF  170 (456)
Q Consensus       161 ~~~~~a~~~~  170 (456)
                      + .++..+.+
T Consensus       147 ~-~~kl~e~l  155 (336)
T d1b89a_         147 K-PQKMREHL  155 (336)
T ss_dssp             C-HHHHHHHH
T ss_pred             C-hHHHHHHH
Confidence            4 33333333

>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=98.67  E-value=4.4e-08  Score=68.24  Aligned_cols=93  Identities=11%  Similarity=0.009  Sum_probs=77.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCH---HHHHHHHHHhccCC-----hhhHHHHHHH
Q 012804          326 TILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKI---DHAINVFESMEVKD-----SFTYSSMVHN  397 (456)
Q Consensus       326 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~---~~a~~~~~~~~~~~-----~~~~~~l~~~  397 (456)
                      ..++..+...+++++|++.|+..+..+ +.+..++..++.++.+.++.   ++|+++++++...+     ..+|..++.+
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            467778888999999999999999875 77888888999998876654   46999999987652     3467889999


Q ss_pred             HHccCChhHHHHHHHHHHHcCC
Q 012804          398 LCKAKRLPSASKLLLSCLKSGV  419 (456)
Q Consensus       398 ~~~~~~~~~A~~~~~~~~~~~~  419 (456)
                      |.+.|++++|++.|+++++..+
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~P  103 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTEP  103 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHhhhHHHHHHHHHHHHhCc
Confidence            9999999999999999998753

>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=98.65  E-value=1.1e-07  Score=65.26  Aligned_cols=86  Identities=12%  Similarity=-0.072  Sum_probs=53.8

Q ss_pred             HHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCCh
Q 012804          363 IVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCR  439 (456)
Q Consensus       363 l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  439 (456)
                      .+..+.+.|++++|+..|+++...   ++.+|..++.++.+.|++++|+..++++++..+. +...+..++.+|...|++
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccc-cccchHHHHHHHHHCCCH
Confidence            344555666666666666665544   4556666666666666666666666666665433 566666666666667777


Q ss_pred             HHHHHHHHHH
Q 012804          440 REAKKIQSKI  449 (456)
Q Consensus       440 ~~A~~~~~~~  449 (456)
                      ++|.+.+++.
T Consensus       101 ~~A~~~l~~~  110 (112)
T d1hxia_         101 NAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7776666654

>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=98.62  E-value=2.4e-07  Score=63.56  Aligned_cols=89  Identities=13%  Similarity=-0.006  Sum_probs=51.7

Q ss_pred             HHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCC
Q 012804           13 CVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSL   92 (456)
Q Consensus        13 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   92 (456)
                      +...+.+.|++++|+..|+++++..+. ++.+|..+..++.+.|++++|+..|++..+.. +.+...+..+..+|...|+
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCC
Confidence            344555666666666666666665533 55566666666666666666666666655543 2245555556666666666


Q ss_pred             hhHHHHHHHHH
Q 012804           93 LSCSLDLLDEM  103 (456)
Q Consensus        93 ~~~a~~~~~~~  103 (456)
                      +++|.+.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66666655543

>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=98.55  E-value=6.3e-07  Score=62.18  Aligned_cols=96  Identities=14%  Similarity=0.059  Sum_probs=74.6

Q ss_pred             HHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccC---ChhHHHHHHHHHHhCCCCCC-HhHHHHHHHH
Q 012804           11 NICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFV---SFDAGYTILNRMREAGISPD-VVTYNSLIAG   86 (456)
Q Consensus        11 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~   86 (456)
                      ..+++.+...+++++|.+.|+.++..++ .++.++..+..++.+.+   ++++|+++|+++.+.+..|+ ..++..+..+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p-~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            4577888889999999999999998875 47788888888887654   44568888888877643333 2367778888


Q ss_pred             HHcCCChhHHHHHHHHHHHCC
Q 012804           87 ATRNSLLSCSLDLLDEMLEMG  107 (456)
Q Consensus        87 ~~~~~~~~~a~~~~~~~~~~~  107 (456)
                      |.+.|++++|++.|+++++..
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhhHHHHHHHHHHHHhC
Confidence            889999999999999888854

>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=98.52  E-value=6.3e-07  Score=66.82  Aligned_cols=118  Identities=13%  Similarity=-0.094  Sum_probs=91.9

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CC-------------CHHHHHHHHHHHHhCCCHHHHHHHHHHhccC--
Q 012804          323 YTHTILIDGLCKAGNIKGARLHLEYMNKIGF-DS-------------NLEAYNCIVDRLGKDGKIDHAINVFESMEVK--  386 (456)
Q Consensus       323 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~-------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--  386 (456)
                      ..+......+.+.|++++|+..|+++++.-. .+             ...++..+..+|.+.|++++|+..++.+...  
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~p   93 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDS   93 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhccc
Confidence            3455667788999999999999999876411 11             1244566788899999999999999988765  


Q ss_pred             -ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHH
Q 012804          387 -DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRRE  441 (456)
Q Consensus       387 -~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  441 (456)
                       ++.+|..++.+|...|++++|+..|+++++..+. ++.....+..+..+.+...+
T Consensus        94 ~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~~~~~~~~~  148 (170)
T d1p5qa1          94 NNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQRIRRQLA  148 (170)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHH
Confidence             7788999999999999999999999999988644 77777777666655554443

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.47  E-value=1.3e-06  Score=63.65  Aligned_cols=96  Identities=9%  Similarity=-0.049  Sum_probs=58.6

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC----CCC-----------HHHHHHHHHHHHhCCCHHHHHHHHHHhccC-
Q 012804          323 YTHTILIDGLCKAGNIKGARLHLEYMNKIGF----DSN-----------LEAYNCIVDRLGKDGKIDHAINVFESMEVK-  386 (456)
Q Consensus       323 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~-----------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-  386 (456)
                      ..+..-+..+.+.|++.+|...|+.++..-.    .++           ..++..+..+|.+.|++++|++.++++... 
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~   97 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID   97 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc
Confidence            3455566778889999999999998875410    111           123344555566666666666666655444 


Q ss_pred             --ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          387 --DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       387 --~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                        +..+|..++.++...|++++|+..|+++++..
T Consensus        98 p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          98 KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence              44556666666666666666666666666553

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.42  E-value=1.5e-07  Score=83.89  Aligned_cols=223  Identities=6%  Similarity=-0.102  Sum_probs=107.8

Q ss_pred             HHHHHHHHHhhCCCCCC-HHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcCh-hhHHHHHHHHHHcCChHHHHHHHHH
Q 012804          200 TARWILKELGDSGHAPN-AITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDG-FGYCTVIAAFVKIGRLKEATDYMEQ  277 (456)
Q Consensus       200 ~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~  277 (456)
                      +|.+.|++....  .|+ ...+..+..++...+++++|   +++++..+  |+. ...+.  ....-...+..+.+.++.
T Consensus         4 eA~q~~~qA~~l--~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~d--p~~a~~~~~--e~~Lw~~~y~~~ie~~r~   74 (497)
T d1ya0a1           4 QSAQYLRQAEVL--KADMTDSKLGPAEVWTSRQALQDL---YQKMLVTD--LEYALDKKV--EQDLWNHAFKNQITTLQG   74 (497)
T ss_dssp             HHHHHHHHHHHH--HGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHC--HHHHHHHTH--HHHHHHHHTHHHHHHHHH
T ss_pred             HHHHHHHHHHHc--CCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcC--hhhHHHHhH--HHHHHHHHHHHHHHHHHH
Confidence            566777766552  222 33444455666666666654   55555442  111 11111  111111123445556665


Q ss_pred             HHHCCCccCHHHHHHHH--HHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 012804          278 MVTDGVQLDIVSYNTLI--NLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDS  355 (456)
Q Consensus       278 ~~~~~~~~~~~~~~~l~--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  355 (456)
                      ..+....++..-.....  ..+...+.++.++..+....+.. .++...+..+...+.+.|+.+.|...++......   
T Consensus        75 ~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---  150 (497)
T d1ya0a1          75 QAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---  150 (497)
T ss_dssp             HHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHHH---
T ss_pred             hcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---
Confidence            55443223322221111  11223344555554444443321 2245566667777777788888877777665431   


Q ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 012804          356 NLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDG  432 (456)
Q Consensus       356 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  432 (456)
                      ....+..++..+...|++++|...|+++...   +...|+.++..+...|+..+|+..|.+++... +|-+.++..+...
T Consensus       151 ~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~  229 (497)
T d1ya0a1         151 CQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKA  229 (497)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHH
Confidence            2356677778888888888888888877665   56778888888888888888888888887664 4567777777766


Q ss_pred             HHcc
Q 012804          433 LRHS  436 (456)
Q Consensus       433 ~~~~  436 (456)
                      +.+.
T Consensus       230 ~~~~  233 (497)
T d1ya0a1         230 LSKA  233 (497)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            6543

>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=98.41  E-value=8.1e-06  Score=60.59  Aligned_cols=127  Identities=8%  Similarity=-0.018  Sum_probs=77.5

Q ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHH
Q 012804            8 RLLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGA   87 (456)
Q Consensus         8 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   87 (456)
                      ..+......+.+.|++++|+..|+++++..+.....              .+.-......+       ...+|+.+..+|
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~--------------~~~~~~~~~~~-------~~~~~~nla~~y   72 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSF--------------SNEEAQKAQAL-------RLASHLNLAMCH   72 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCC--------------CSHHHHHHHHH-------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhcccc--------------chHHHhhhchh-------HHHHHHHHHHHH
Confidence            344555677888899999999998887653221110              00000111111       123456667777


Q ss_pred             HcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHH
Q 012804           88 TRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGL  157 (456)
Q Consensus        88 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  157 (456)
                      .+.|++++|+..++..+..++. ++.++..+..+|...|++++|...|+...+.+ |.+..+...+..+.
T Consensus        73 ~k~~~~~~A~~~~~~al~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~  140 (170)
T d1p5qa1          73 LKLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQ  140 (170)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHH
T ss_pred             Hhhhhcccccchhhhhhhcccc-chhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            7777777777777777776433 66777777777777788888887777777654 33444444444443

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.39  E-value=4.4e-06  Score=58.69  Aligned_cols=91  Identities=12%  Similarity=0.119  Sum_probs=56.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---Ch-------hhHHHHH
Q 012804          326 TILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DS-------FTYSSMV  395 (456)
Q Consensus       326 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~-------~~~~~l~  395 (456)
                      ..+...+...|++++|+..|+++++.+ +.+...+..+..+|.+.|++++|++.++++...   +.       .+|..++
T Consensus         8 k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           8 KELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            344555566666666666666666553 445566666666666666666666666665543   11       2455566


Q ss_pred             HHHHccCChhHHHHHHHHHHHc
Q 012804          396 HNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       396 ~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      ..+...+++++|++.|++.+..
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHhc
Confidence            6667777888888888877654

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.35  E-value=0.00044  Score=56.68  Aligned_cols=145  Identities=11%  Similarity=0.057  Sum_probs=85.8

Q ss_pred             CCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHH
Q 012804           39 LPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSL  118 (456)
Q Consensus        39 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  118 (456)
                      .||..-...++..|.+.|.++.|..+|..+..         |..++..+.+.++++.|.+++.+.      -+..+|..+
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~   75 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEV   75 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHH
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHH
Confidence            34555566777888888888888888876542         566777888888888888777643      256677778


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCH
Q 012804          119 MHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRL  198 (456)
Q Consensus       119 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  198 (456)
                      ...+.+.....-+     .+.......++.....++..|-..|.++....+++..... -.++...++.++..|++.+ .
T Consensus        76 ~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~-~  148 (336)
T d1b89a_          76 CFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK-P  148 (336)
T ss_dssp             HHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC-H
T ss_pred             HHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC-h
Confidence            8888777655443     2222233445555667788888888888888888877543 2456667777888777754 3


Q ss_pred             HHHHHHH
Q 012804          199 RTARWIL  205 (456)
Q Consensus       199 ~~a~~~~  205 (456)
                      ++..+.+
T Consensus       149 ~kl~e~l  155 (336)
T d1b89a_         149 QKMREHL  155 (336)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            3333333

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.34  E-value=4.2e-06  Score=62.12  Aligned_cols=129  Identities=9%  Similarity=-0.034  Sum_probs=98.1

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCC-----------HHHHHHHHHHHHhCCCHHHHHHHHHHhccC-
Q 012804          322 KYTHTILIDGLCKAGNIKGARLHLEYMNKI---GFDSN-----------LEAYNCIVDRLGKDGKIDHAINVFESMEVK-  386 (456)
Q Consensus       322 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~-----------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-  386 (456)
                      ...+...+..+.+.|++.+|...|+.++..   ....+           ..++..+..+|.+.|++++|+..++.+... 
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~   94 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD   94 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc
Confidence            456777788899999999999999997643   11111           233555777899999999999999988765 


Q ss_pred             --ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChH-HHHHHHHHHHh
Q 012804          387 --DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRR-EAKKIQSKIRM  451 (456)
Q Consensus       387 --~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~-~A~~~~~~~~~  451 (456)
                        +..+|..++.++...|++++|+..|+++++..+. +..+...+..+....+... ...+.+.+|.+
T Consensus        95 p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~~~~~~~~e~~kk~~~~~f~  161 (168)
T d1kt1a1          95 SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQIFMCQKKAKEHNERDRRTYANMFK  161 (168)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Confidence              7788999999999999999999999999987643 7777777777666655443 34555555543

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.33  E-value=2.4e-06  Score=60.08  Aligned_cols=94  Identities=9%  Similarity=0.014  Sum_probs=78.8

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCC-C-----HHhHHHH
Q 012804          359 AYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRI-L-----KSAQKAV  429 (456)
Q Consensus       359 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-~-----~~~~~~l  429 (456)
                      .+..++..+.+.|++++|++.|+++...   ++.++..++.+|.+.|++++|++.++++++..+.. .     ..++..+
T Consensus         6 ~~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           6 KEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            4556788999999999999999998776   77889999999999999999999999998763221 1     2467778


Q ss_pred             HHHHHccCChHHHHHHHHHHHhc
Q 012804          430 VDGLRHSGCRREAKKIQSKIRMA  452 (456)
Q Consensus       430 ~~~~~~~g~~~~A~~~~~~~~~~  452 (456)
                      +.++...|++++|...|++....
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc
Confidence            88999999999999999887644

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.31  E-value=3.7e-07  Score=81.28  Aligned_cols=134  Identities=9%  Similarity=-0.126  Sum_probs=62.1

Q ss_pred             CChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHH
Q 012804          126 GKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKGLCKAGRLRTARWIL  205 (456)
Q Consensus       126 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  205 (456)
                      +.++.++..+....+.. +++...+..+...+.+.|+.++|...+.......   ...++..+...+...|++++|...|
T Consensus       100 ~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y  175 (497)
T d1ya0a1         100 GFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYY  175 (497)
T ss_dssp             HHHHHHHHHHTC--------------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHH
Confidence            44444444444333322 3344555666666666677776666665544321   1234555666677777777777777


Q ss_pred             HHHhhCCCCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHc
Q 012804          206 KELGDSGHAPNAITYTTIMKCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKI  265 (456)
Q Consensus       206 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  265 (456)
                      .+.....+. +...|+.+...+...|+..+|...|.+..... +|.+.++..+...+.+.
T Consensus       176 ~~A~~l~P~-~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         176 RHAAQLVPS-NGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKA  233 (497)
T ss_dssp             HHHHHHCTT-BSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCC-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHh
Confidence            776664332 55667777777777777777777777777665 55566666666655543

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.30  E-value=5.8e-06  Score=61.45  Aligned_cols=126  Identities=12%  Similarity=-0.050  Sum_probs=83.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 012804          290 YNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGK  369 (456)
Q Consensus       290 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  369 (456)
                      +......+...|++++|+..+.++.+.  .+.          ..........       ... -+.....+..+..++.+
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~--~~~----------~~~~~~~~~~-------~~~-~~~~~~~~~nla~~~~~   89 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRY--VEG----------SRAAAEDADG-------AKL-QPVALSCVLNIGACKLK   89 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--HHH----------HHHHSCHHHH-------GGG-HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--hhh----------hhhhhhhHHH-------HHh-ChhhHHHHHHHHHHHHh
Confidence            445566677778888887777766532  000          0000000000       000 02234567777888999


Q ss_pred             CCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHcc
Q 012804          370 DGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHS  436 (456)
Q Consensus       370 ~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  436 (456)
                      .|++++|+..++++.+.   ++.+|..++.++...|++++|++.|+++++..+. +..+...+..+..+.
T Consensus        90 ~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~-n~~~~~~l~~~~~~l  158 (169)
T d1ihga1          90 MSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLKVKQKI  158 (169)
T ss_dssp             TTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHH
T ss_pred             hcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHH
Confidence            99999999999988776   6778899999999999999999999999987543 666666666555433

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.30  E-value=5.7e-06  Score=61.50  Aligned_cols=69  Identities=12%  Similarity=-0.102  Sum_probs=61.0

Q ss_pred             ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhcccCC
Q 012804          387 DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAKISH  456 (456)
Q Consensus       387 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  456 (456)
                      ....|..++.++.+.|++++|+..++++++..+. ++.+|..++.++...|++++|...|++..+..+.+
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~-~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n  144 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIAPED  144 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhh-hhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCC
Confidence            4557788899999999999999999999988644 88899999999999999999999999998876653

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.22  E-value=4.3e-05  Score=56.44  Aligned_cols=128  Identities=12%  Similarity=-0.011  Sum_probs=95.1

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCcCH-----------HhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 012804          287 IVSYNTLINLYCKEGKLEAAYLLLDEMEKQ---GFECDK-----------YTHTILIDGLCKAGNIKGARLHLEYMNKIG  352 (456)
Q Consensus       287 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~-----------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  352 (456)
                      ...+......+.+.|++.+|...|......   ...++.           .+|..+..+|.+.|++++|+..++.+++..
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~   94 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD   94 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc
Confidence            456777888999999999999999887642   112111           235567778899999999999999999875


Q ss_pred             CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---ChhhHHHHHHHHHccCChh-HHHHHHHHHH
Q 012804          353 FDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---DSFTYSSMVHNLCKAKRLP-SASKLLLSCL  415 (456)
Q Consensus       353 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~-~A~~~~~~~~  415 (456)
                       +.+...+..++.++...|++++|...|+++...   +..+...+.......+... ...+.+.+|.
T Consensus        95 -p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~e~~kk~~~~~f  160 (168)
T d1kt1a1          95 -SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKAKEHNERDRRTYANMF  160 (168)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence             778899999999999999999999999998876   5555555555444433332 3344444443

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.20  E-value=5.2e-05  Score=54.92  Aligned_cols=126  Identities=13%  Similarity=0.040  Sum_probs=80.6

Q ss_pred             HHHHHHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHH
Q 012804            9 LLNICVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGAT   88 (456)
Q Consensus         9 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   88 (456)
                      .+..-...+.+.|++++|+..|.++++.-......              .+...  ......    ....+|..+..+|.
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~--------------~~~~~--~~~~~~----~~~~~~~Nla~~~~   78 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEW--------------DDQIL--LDKKKN----IEISCNLNLATCYN   78 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTC--------------CCHHH--HHHHHH----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhh--------------hhHHH--HHhhhh----HHHHHHhhHHHHHH
Confidence            44556677888899999999988887642211100              00000  000000    12345667778888


Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHH
Q 012804           89 RNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNG  156 (456)
Q Consensus        89 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  156 (456)
                      +.|++++|++.++..++.++ .+..+|..+..++...|++++|...|+...+.+ |-+..+...+-.+
T Consensus        79 ~l~~~~~Al~~~~~al~~~p-~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~-P~n~~~~~~l~~~  144 (153)
T d2fbna1          79 KNKDYPKAIDHASKVLKIDK-NNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELC  144 (153)
T ss_dssp             HTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHH
T ss_pred             Hhcccchhhhhhhccccccc-hhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            88888888888888877653 367788888888888888888888888887765 3445555444333

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=98.10  E-value=2.5e-06  Score=68.16  Aligned_cols=53  Identities=30%  Similarity=0.303  Sum_probs=31.7

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 012804          298 CKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKI  351 (456)
Q Consensus       298 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  351 (456)
                      .+.|++++|+..+++..+..+ -+...+..++..++..|++++|...++...+.
T Consensus         7 L~~G~l~eAl~~l~~al~~~P-~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l   59 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKASP-KDASLRSSFIELLCIDGDFERADEQLMQSIKL   59 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            345666666666666665532 25556666666666666666666666666554

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.09  E-value=3.3e-05  Score=57.44  Aligned_cols=105  Identities=12%  Similarity=0.031  Sum_probs=72.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhC--CCC-----CC--------------HHHHHHHHHHHHhCCCHHHHHHHHHHhc
Q 012804          326 TILIDGLCKAGNIKGARLHLEYMNKI--GFD-----SN--------------LEAYNCIVDRLGKDGKIDHAINVFESME  384 (456)
Q Consensus       326 ~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~-----~~--------------~~~~~~l~~~~~~~g~~~~a~~~~~~~~  384 (456)
                      ..........|++++|...|...+..  |..     ..              ...+..++..+.+.|++++|+..++++.
T Consensus        15 ~~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al   94 (179)
T d2ff4a2          15 KTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALT   94 (179)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHH
Confidence            33445678899999999999999875  210     00              1234556667777777777777777776


Q ss_pred             cC---ChhhHHHHHHHHHccCChhHHHHHHHHHHH-----cCCCCCHHhHHHHH
Q 012804          385 VK---DSFTYSSMVHNLCKAKRLPSASKLLLSCLK-----SGVRILKSAQKAVV  430 (456)
Q Consensus       385 ~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~~~~~l~  430 (456)
                      ..   +...|..++.+|...|+..+|++.|+++.+     .|+.|.+.+-...-
T Consensus        95 ~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~~l~~  148 (179)
T d2ff4a2          95 FEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALNE  148 (179)
T ss_dssp             HHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHH
T ss_pred             HhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHHHHHH
Confidence            55   666777777777777777777777777633     47777766544333

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.06  E-value=0.0001  Score=54.78  Aligned_cols=93  Identities=14%  Similarity=0.102  Sum_probs=76.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHc--CCC-cCH------------------HhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 012804          292 TLINLYCKEGKLEAAYLLLDEMEKQ--GFE-CDK------------------YTHTILIDGLCKAGNIKGARLHLEYMNK  350 (456)
Q Consensus       292 ~l~~~~~~~~~~~~a~~~~~~~~~~--~~~-~~~------------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~  350 (456)
                      .........|++++|...|......  |.. ++.                  ..+..++..+...|++++|...++.++.
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~   95 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTF   95 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHH
Confidence            3445678899999999999999874  221 111                  3466778888999999999999999998


Q ss_pred             CCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhcc
Q 012804          351 IGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEV  385 (456)
Q Consensus       351 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  385 (456)
                      .. +.+...|..++.++.+.|+..+|++.|+++..
T Consensus        96 ~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~  129 (179)
T d2ff4a2          96 EH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKT  129 (179)
T ss_dssp             HS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             hC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            75 77899999999999999999999999998754

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.99  E-value=6.3e-06  Score=65.74  Aligned_cols=123  Identities=10%  Similarity=0.008  Sum_probs=78.1

Q ss_pred             HHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccCChhHHHHHHHHHHhCCCCCC-HhHHHHHHHHHHcCCChh
Q 012804           16 TFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFVSFDAGYTILNRMREAGISPD-VVTYNSLIAGATRNSLLS   94 (456)
Q Consensus        16 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~   94 (456)
                      ...+.|++++|+..+++.++..|. +...+..+...++..|++++|...|+...+..  |+ ...+..+...+...+..+
T Consensus         5 ~aL~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~--P~~~~~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           5 NALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKLF--PEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHhccccH
Confidence            456789999999999999988754 88889999999999999999999999988763  43 334444433333222222


Q ss_pred             HHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 012804           95 CSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICG  141 (456)
Q Consensus        95 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  141 (456)
                      ++..-.......+.+++...+......+...|+.++|.+.++++.+.
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            21111110000111222333444456677788888888888887654

>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=97.98  E-value=3.5e-05  Score=55.15  Aligned_cols=73  Identities=8%  Similarity=-0.059  Sum_probs=50.8

Q ss_pred             HHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHccC----------ChhHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 012804           17 FCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQFV----------SFDAGYTILNRMREAGISPDVVTYNSLIAG   86 (456)
Q Consensus        17 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   86 (456)
                      |-+.+.+++|+..|+.+++..|. ++.++..+..++...+          .+++|+..|++..+.+ +.+..+|..+..+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~P~-~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhCCc-chHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHH
Confidence            55678899999999999998854 7888888888876544          3456667777666653 2345566666666


Q ss_pred             HHcCC
Q 012804           87 ATRNS   91 (456)
Q Consensus        87 ~~~~~   91 (456)
                      |...|
T Consensus        85 y~~~g   89 (145)
T d1zu2a1          85 YTSFA   89 (145)
T ss_dssp             HHHHH
T ss_pred             HHHcc
Confidence            55443

>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=97.92  E-value=2.7e-05  Score=55.77  Aligned_cols=43  Identities=5%  Similarity=0.032  Sum_probs=25.5

Q ss_pred             ChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhcc
Q 012804          403 RLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAK  453 (456)
Q Consensus       403 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  453 (456)
                      .+++|.+.|+++++..  |+...+..-+..+      ..|.+++.++.+.+
T Consensus       101 ~~~~A~~~~~kal~l~--P~~~~~~~~L~~~------~ka~~~~~e~~k~~  143 (145)
T d1zu2a1         101 NFDLATQFFQQAVDEQ--PDNTHYLKSLEMT------AKAPQLHAEAYKQG  143 (145)
T ss_dssp             HHHHHHHHHHHHHHHC--TTCHHHHHHHHHH------HTHHHHHHHHHHSS
T ss_pred             hHHHhhhhhhcccccC--CCHHHHHHHHHHH------HHHHHHHHHHHHHh
Confidence            3678888999998764  4444433333222      45666666665544

>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=97.83  E-value=3.8e-05  Score=50.25  Aligned_cols=72  Identities=11%  Similarity=-0.052  Sum_probs=47.6

Q ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHhccC----------ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhH
Q 012804          357 LEAYNCIVDRLGKDGKIDHAINVFESMEVK----------DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQ  426 (456)
Q Consensus       357 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  426 (456)
                      ...+-.++..+.+.|++++|+..|+++...          ...++..++.++.+.|++++|++.++++++..+. ++.++
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~-~~~a~   83 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPE-HQRAN   83 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcC-CHHHH
Confidence            344456677777777877777777766543          1345677777777777777777777777766433 44554


Q ss_pred             HHH
Q 012804          427 KAV  429 (456)
Q Consensus       427 ~~l  429 (456)
                      ..+
T Consensus        84 ~Nl   86 (95)
T d1tjca_          84 GNL   86 (95)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=97.70  E-value=0.00013  Score=47.54  Aligned_cols=64  Identities=9%  Similarity=0.004  Sum_probs=34.7

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-----CCC-CHHHHHHHHHHHHhCCCHHHHHHHHHHhccC
Q 012804          323 YTHTILIDGLCKAGNIKGARLHLEYMNKIG-----FDS-NLEAYNCIVDRLGKDGKIDHAINVFESMEVK  386 (456)
Q Consensus       323 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  386 (456)
                      ..+..+...+.+.|++++|...|+++.+..     ..+ ...++..+..++.+.|++++|++.++++.+.
T Consensus         6 ddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           6 EDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            334455555666666666666666654320     011 1345555666666666666666666665554

>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=97.68  E-value=0.00027  Score=51.23  Aligned_cols=59  Identities=12%  Similarity=-0.068  Sum_probs=34.9

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHhccC--------------ChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 012804          359 AYNCIVDRLGKDGKIDHAINVFESMEVK--------------DSFTYSSMVHNLCKAKRLPSASKLLLSCLKS  417 (456)
Q Consensus       359 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~--------------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  417 (456)
                      .|+.+..+|...|++++|.+.+++....              ...++..++.+|...|++++|++.|+++++.
T Consensus        57 ~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          57 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3444555555555555555555544321              1124566777777778888888777777643

>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=97.63  E-value=0.00069  Score=48.93  Aligned_cols=62  Identities=15%  Similarity=0.079  Sum_probs=37.3

Q ss_pred             HHHHHH--HHHHHhhCcHHHHHHHHHHHHhcCCC-CC----------HHhHHHHHHHHHccCChhHHHHHHHHHH
Q 012804            8 RLLNIC--VCTFCKANRLEKAEAIIIDGIRLGVL-PD----------VVTYNMLIDAYCQFVSFDAGYTILNRMR   69 (456)
Q Consensus         8 ~~~~~l--~~~~~~~g~~~~A~~~~~~~~~~~~~-~~----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~   69 (456)
                      .+|..+  ...+.+.|++++|++.|+++++..+. |+          ...|+.+..+|...|++++|.+.+++..
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al   82 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKAL   82 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhh
Confidence            455555  45566778888888888887764322 11          2345556666666666666666555554

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=97.27  E-value=0.0041  Score=43.18  Aligned_cols=109  Identities=11%  Similarity=-0.033  Sum_probs=57.5

Q ss_pred             CHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----CCCHHHHH
Q 012804          302 KLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGK----DGKIDHAI  377 (456)
Q Consensus       302 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~  377 (456)
                      |+++|...|++..+.|..   .....+.  .....+.++|..++++..+.|   +......|...|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            445555555555554321   1111221  122345566666666666554   33444445544443    34566666


Q ss_pred             HHHHHhccC-ChhhHHHHHHHHHc----cCChhHHHHHHHHHHHcC
Q 012804          378 NVFESMEVK-DSFTYSSMVHNLCK----AKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       378 ~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~  418 (456)
                      ++|++..+. ++.....|...|..    ..+.++|.++|+++.+.|
T Consensus        80 ~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          80 QYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            666666554 55555566555554    346666777777766665

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=97.27  E-value=0.0043  Score=43.08  Aligned_cols=110  Identities=8%  Similarity=-0.123  Sum_probs=83.5

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC-ChhhHHHHHHHHHc----cCChhHHHHH
Q 012804          336 GNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK-DSFTYSSMVHNLCK----AKRLPSASKL  410 (456)
Q Consensus       336 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~A~~~  410 (456)
                      .|+++|..+|++..+.|. +.  ....|.  .....+.++|.+.+++..+. ++.....|...|..    ..+.++|.++
T Consensus         7 kd~~~A~~~~~kaa~~g~-~~--a~~~l~--~~~~~~~~~a~~~~~~aa~~g~~~a~~~Lg~~y~~g~~~~~d~~~A~~~   81 (133)
T d1klxa_           7 KDLKKAIQYYVKACELNE-MF--GCLSLV--SNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQY   81 (133)
T ss_dssp             HHHHHHHHHHHHHHHTTC-TT--HHHHHH--TCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHCCC-hh--hhhhhc--cccccCHHHHHHHHhhhhcccchhhhhhHHHhhhhccccchhhHHHHHH
Confidence            467899999999988872 22  233332  34557889999999988776 88888888887765    5678999999


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHHc----cCChHHHHHHHHHHHhcc
Q 012804          411 LLSCLKSGVRILKSAQKAVVDGLRH----SGCRREAKKIQSKIRMAK  453 (456)
Q Consensus       411 ~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  453 (456)
                      |++..+.|   ++.....++..|..    ..+.++|.++|++.-+.+
T Consensus        82 ~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          82 YSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            99999876   45566667777765    568999999999987654

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.43  E-value=0.0074  Score=40.36  Aligned_cols=65  Identities=6%  Similarity=-0.016  Sum_probs=43.8

Q ss_pred             CCCHHHHHHHHHHHHhCCC---HHHHHHHHHHhccCC----hhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 012804          354 DSNLEAYNCIVDRLGKDGK---IDHAINVFESMEVKD----SFTYSSMVHNLCKAKRLPSASKLLLSCLKSG  418 (456)
Q Consensus       354 ~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  418 (456)
                      .++..+--.+..++.+...   .++++.+++++...+    ...+..++-+|.+.|++++|.+.++++++..
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ie  103 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  103 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccC
Confidence            3555555566666666544   457777777766542    2456677778888888888888888887664

>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=95.99  E-value=0.39  Score=40.94  Aligned_cols=401  Identities=9%  Similarity=-0.002  Sum_probs=208.6

Q ss_pred             HHHHHHhhCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHHc--cCChhHHHHHHHHHHhCCCCCCH-hHHHHHHHHHHc
Q 012804           13 CVCTFCKANRLEKAEAIIIDGIRLGVLPDVVTYNMLIDAYCQ--FVSFDAGYTILNRMREAGISPDV-VTYNSLIAGATR   89 (456)
Q Consensus        13 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~   89 (456)
                      .+....++|+...+.++...+..  . | ...|-..-..-..  .....+..   ..+.+..-.|-. ..-...+..+.+
T Consensus        12 ~a~~a~~~~~~~~~~~~~~~L~d--y-p-L~pYl~~~~l~~~~~~~~~~~i~---~Fl~~~p~~P~~~~lr~~~l~~L~~   84 (450)
T d1qsaa1          12 QIKQAWDNRQMDVVEQMMPGLKD--Y-P-LYPYLEYRQITDDLMNQPAVTVT---NFVRANPTLPPARTLQSRFVNELAR   84 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHSGGGTT--S-T-THHHHHHHHHHHTGGGCCHHHHH---HHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHhhhcC--C-C-CHHHHHHHHHHhccccCCHHHHH---HHHHHCCCChhHHHHHHHHHHHHHh
Confidence            34567788999988888777632  1 2 2223322222222  22333333   333333111211 222344566777


Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHH--HH
Q 012804           90 NSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDN--AL  167 (456)
Q Consensus        90 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~--a~  167 (456)
                      .+++....+.+.     ..+.+...-..+..+....|+.+.|...+..+-..| ...+.....+...+.+.|....  ..
T Consensus        85 ~~~w~~~~~~~~-----~~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~-~~~p~~c~~l~~~~~~~~~lt~~~~~  158 (450)
T d1qsaa1          85 REDWRGLLAFSP-----EKPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG-KSQPNACDKLFSVWRASGKQDPLAYL  158 (450)
T ss_dssp             TTCHHHHHHHCC-----SCCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS-SCCCTHHHHHHHHHHHTTCSCHHHHH
T ss_pred             ccCHHHHHHhcc-----CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CCCchHHHHHHHHHHhcCCCCHHHHH
Confidence            888766544331     233455555567778888899888888887776555 3333444445544444433321  11


Q ss_pred             HHHHHHHhCC-----------CCCc-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHh--cCch
Q 012804          168 RMFRGLQKHG-----------FVPE-LVTYNILIKGLCKAGRLRTARWILKELGDSGHAPNAITYTTIMKCCFR--NRKY  233 (456)
Q Consensus       168 ~~~~~~~~~~-----------~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~  233 (456)
                      .-+..+...|           ++++ .......+..........   ...   ...  ..+......+..++.+  ..+.
T Consensus       159 ~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~p~~~~---~~~---~~~--~~~~~~~~~~~~~l~rla~~d~  230 (450)
T d1qsaa1         159 ERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNPNTVL---TFA---RTT--GATDFTRQMAAVAFASVARQDA  230 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCGGGHH---HHH---HHS--CCCHHHHHHHHHHHHHHHHHCH
T ss_pred             HHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhChHhHH---HHH---hcC--CCChhhhHHHHHHHHHHhccCh
Confidence            2222222221           1111 112222222222111111   111   111  1233333333333322  3567


Q ss_pred             hHHHHHHHHHHHcCCCcChhhHHHHHHHH----HHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHH
Q 012804          234 KLGLEILSAMKRKGYTFDGFGYCTVIAAF----VKIGRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLL  309 (456)
Q Consensus       234 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  309 (456)
                      +.+...+....... ..+......+-...    ...+..+.+...+......+.  +.......+......+++..+...
T Consensus       231 ~~a~~~l~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~w~~~~al~~~~~~~~~~~  307 (450)
T d1qsaa1         231 ENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQ--STSLIERRVRMALGTGDRRGLNTW  307 (450)
T ss_dssp             HHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCC--CHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             hHHHHHHHhhhhcc-cccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhccccc--chHHHHHHHHHHHHcCChHHHHHH
Confidence            77888777776553 22332222222222    234566777777777666533  344444455556677888888888


Q ss_pred             HHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHhccC---
Q 012804          310 LDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHAINVFESMEVK---  386 (456)
Q Consensus       310 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---  386 (456)
                      +..|... ......-.-.+.+++...|+.+.|..+|..+...   ++  -|..|..  .+.|..-.. . .......   
T Consensus       308 ~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~~---~~--fYG~LAa--~~Lg~~~~~-~-~~~~~~~~~~  377 (450)
T d1qsaa1         308 LARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQQ---RG--FYPMVAA--QRIGEEYEL-K-IDKAPQNVDS  377 (450)
T ss_dssp             HHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS---CS--HHHHHHH--HHTTCCCCC-C-CCCCCSCCCC
T ss_pred             HHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhcC---CC--hHHHHHH--HHcCCCCCC-C-cCCCCccHHH
Confidence            8777543 2223445566778888899999999998887642   33  2322221  222221000 0 0000000   


Q ss_pred             --ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHH
Q 012804          387 --DSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIR  450 (456)
Q Consensus       387 --~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  450 (456)
                        ....-...+..+...|+...|...+..+...   .++.....++....+.|.++.|+....+..
T Consensus       378 ~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~---~~~~~~~~la~lA~~~g~~~~aI~a~~~~~  440 (450)
T d1qsaa1         378 ALTQGPEMARVRELMYWNLDNTARSEWANLVKS---KSKTEQAQLARYAFNNQWWDLSVQATIAGK  440 (450)
T ss_dssp             HHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTT---CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             hhhcChHHHHHHHHHHcCCchHHHHHHHHHHhC---CCHHHHHHHHHHHHHCCChhHHHHHHHHHH
Confidence              0011123466778899999999999888743   256677778888999999999998776653

>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=95.96  E-value=0.11  Score=34.32  Aligned_cols=63  Identities=16%  Similarity=0.192  Sum_probs=32.9

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 012804          115 YNSLMHCLFQLGKPDEANRVFQDMICGDLTPCTATFNIMLNGLCKNRYTDNALRMFRGLQKHGF  178 (456)
Q Consensus       115 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  178 (456)
                      +...++.+..+|+-++-.+++..+.+.+ ++++.....+..+|.+.|...++.+++.+..+.|+
T Consensus        89 vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          89 VNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            3344445555555555555555544433 45555555555555555555555555555555544

>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=95.82  E-value=0.13  Score=33.99  Aligned_cols=139  Identities=14%  Similarity=0.112  Sum_probs=84.7

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCHHHH
Q 012804          297 YCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHLEYMNKIGFDSNLEAYNCIVDRLGKDGKIDHA  376 (456)
Q Consensus       297 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  376 (456)
                      +.-.|..++..+++.+....   .+..-|+.++--....-+-+...+.++.+-+. +..            ..+++....
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~-FDl------------s~C~Nlk~v   75 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY-FDL------------DKCQNLKSV   75 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG-SCG------------GGCSCTHHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh-cCc------------hhhhcHHHH
Confidence            44567777777777777654   24556666665555555555555555554332 111            122333333


Q ss_pred             HHHHHHhccCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhcc
Q 012804          377 INVFESMEVKDSFTYSSMVHNLCKAKRLPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMAK  453 (456)
Q Consensus       377 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  453 (456)
                      ...+-.+.. +.......+..+..+|+-+.-.+++....+. -+|++..+..++.+|.+.|...++-.++.+.=+.+
T Consensus        76 v~C~~~~n~-~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          76 VECGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             HHHHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhcc-hHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence            222222211 3344455566777888888888888877664 46788888888888888888888888888765544

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.96  E-value=0.75  Score=30.40  Aligned_cols=65  Identities=15%  Similarity=0.024  Sum_probs=30.6

Q ss_pred             CHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHcCCCcC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 012804          286 DIVSYNTLINLYCKEG---KLEAAYLLLDEMEKQGFECD-KYTHTILIDGLCKAGNIKGARLHLEYMNKI  351 (456)
Q Consensus       286 ~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  351 (456)
                      +..+--....++.++.   +.++++.+++++.+.+. .+ ...+-.+..+|.+.|++++|...++.+++.
T Consensus        34 s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p-~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i  102 (124)
T d2pqrb1          34 TIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAE-SRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             CHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCG-GGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCc-hhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            3334333444444332   23455555555554321 12 234444555555566666666666655554

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=92.77  E-value=0.52  Score=29.30  Aligned_cols=46  Identities=11%  Similarity=0.110  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012804          270 EATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEK  315 (456)
Q Consensus       270 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  315 (456)
                      ++.+-++.+...+..|++.+..+.+++|.+.+++..|.++++..+.
T Consensus        24 e~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~   69 (105)
T d1v54e_          24 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   69 (105)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4444555555555556666666666666666666666666655554

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=92.73  E-value=0.5  Score=29.39  Aligned_cols=49  Identities=10%  Similarity=-0.077  Sum_probs=33.8

Q ss_pred             hhHHHHHHHHHHHcCCCCCHHhHHHHHHHHHccCChHHHHHHHHHHHhc
Q 012804          404 LPSASKLLLSCLKSGVRILKSAQKAVVDGLRHSGCRREAKKIQSKIRMA  452 (456)
Q Consensus       404 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  452 (456)
                      .=++.+-+..+...+.-|++.+..+.+.||++.+++.-|.++++-++..
T Consensus        22 ~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K   70 (105)
T d1v54e_          22 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   70 (105)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            3355566666666667777777777777777777777777777766543

>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=92.03  E-value=3  Score=35.13  Aligned_cols=337  Identities=7%  Similarity=-0.027  Sum_probs=184.2

Q ss_pred             HHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhc
Q 012804           46 NMLIDAYCQFVSFDAGYTILNRMREAGISPDVVTYNSLIAGATRNSLLSCSLDLLDEMLEMGIPPDVWSYNSLMHCLFQL  125 (456)
Q Consensus        46 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  125 (456)
                      ...+..+.+.++++..+..+.     ..+.+...-.....+....|+...|.+.+..+-..|.. .+.....+...+...
T Consensus        76 ~~~l~~L~~~~~w~~~~~~~~-----~~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~-~p~~c~~l~~~~~~~  149 (450)
T d1qsaa1          76 SRFVNELARREDWRGLLAFSP-----EKPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKS-QPNACDKLFSVWRAS  149 (450)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCC-----SCCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSC-CCTHHHHHHHHHHHT
T ss_pred             HHHHHHHHhccCHHHHHHhcc-----CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-CchHHHHHHHHHHhc
Confidence            344556677777766443331     12345555556777778888888888777766655422 222334444444444


Q ss_pred             CChhH--HHHHHHHHHhCC-----------CCCCh-hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCcHHHHHHHHHH
Q 012804          126 GKPDE--ANRVFQDMICGD-----------LTPCT-ATFNIMLNGLCKNRYTDNALRMFRGLQKHGFVPELVTYNILIKG  191 (456)
Q Consensus       126 ~~~~~--a~~~~~~~~~~~-----------~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  191 (456)
                      |.+..  ..+-+..+...+           ++++. ......+....   +...+....   ...  .++......+..+
T Consensus       150 ~~lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~---~p~~~~~~~---~~~--~~~~~~~~~~~~~  221 (450)
T d1qsaa1         150 GKQDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLAN---NPNTVLTFA---RTT--GATDFTRQMAAVA  221 (450)
T ss_dssp             TCSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHH---CGGGHHHHH---HHS--CCCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHh---ChHhHHHHH---hcC--CCChhhhHHHHHH
Confidence            43321  112222222221           12221 11222222221   122222221   111  2233332323333


Q ss_pred             HHH--cCCHHHHHHHHHHHhhCCCCCCHHHHHHHH----HHHHhcCchhHHHHHHHHHHHcCCCcChhhHHHHHHHHHHc
Q 012804          192 LCK--AGRLRTARWILKELGDSGHAPNAITYTTIM----KCCFRNRKYKLGLEILSAMKRKGYTFDGFGYCTVIAAFVKI  265 (456)
Q Consensus       192 ~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  265 (456)
                      +.+  ..+.+.+...+......... +......+-    ......+..+.+...+......+  .+.......+......
T Consensus       222 l~rla~~d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~  298 (450)
T d1qsaa1         222 FASVARQDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGT  298 (450)
T ss_dssp             HHHHHHHCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHH
T ss_pred             HHHHhccChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHc
Confidence            322  35788888888887654322 233232222    22234566777887777766553  3445555566667788


Q ss_pred             CChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcCHHhHHHHHHHHHhcCCHHHHHHHH
Q 012804          266 GRLKEATDYMEQMVTDGVQLDIVSYNTLINLYCKEGKLEAAYLLLDEMEKQGFECDKYTHTILIDGLCKAGNIKGARLHL  345 (456)
Q Consensus       266 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  345 (456)
                      +++..+...+..+... ......-.--+.+++...|+.+.|...|..+...   ++  -|..+..  .+.|..-.     
T Consensus       299 ~~~~~~~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~~---~~--fYG~LAa--~~Lg~~~~-----  365 (450)
T d1qsaa1         299 GDRRGLNTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQQ---RG--FYPMVAA--QRIGEEYE-----  365 (450)
T ss_dssp             TCHHHHHHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS---CS--HHHHHHH--HHTTCCCC-----
T ss_pred             CChHHHHHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhcC---CC--hHHHHHH--HHcCCCCC-----
Confidence            9999999999887654 2234444456788999999999999999998742   33  3333332  22332100     


Q ss_pred             HHHHhCCC--CCC-H---HHHHHHHHHHHhCCCHHHHHHHHHHhccC-ChhhHHHHHHHHHccCChhHHHHHHHHH
Q 012804          346 EYMNKIGF--DSN-L---EAYNCIVDRLGKDGKIDHAINVFESMEVK-DSFTYSSMVHNLCKAKRLPSASKLLLSC  414 (456)
Q Consensus       346 ~~~~~~~~--~~~-~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~  414 (456)
                        +.....  .+. .   ..-..-+..+...|....|...|..+... ++.....++....+.|.++.|+....+.
T Consensus       366 --~~~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~~~~~~~~la~lA~~~g~~~~aI~a~~~~  439 (450)
T d1qsaa1         366 --LKIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSKSKTEQAQLARYAFNNQWWDLSVQATIAG  439 (450)
T ss_dssp             --CCCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             --CCcCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCCCHHHHHHHHHHHHHCCChhHHHHHHHHH
Confidence              000000  000 0   00112345677899999999998877655 7777778888888999999999887766