Citrus Sinensis ID: 048394

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-----
Protein Sequence
MMIRNQSRLISTGSYLVRQLCSTPTETVSQRIAAPTPFPTGNEDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMRQ
Secondary Structure (PSIPRED)
ccccccccccccHHHHHHHccccccHHHHHHHHcccccccccHHHHHHHHHHcccccccHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHccHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHccccccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHccccccHHcHHHHHHHHHHcccHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccHHHcc
Secondary Structure Prediction (SSPRO)
cccccccccEHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEEEHHHHHHHHHHcccHHHHHHHHHHHHHHHHcccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHcc
Coil and Loop (DISEMBL)
mmirnqsrlistGSYLVRQLcstptetvsqriaaptpfptgnedKLYKRLSAlgatggsvTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMEsrkmhfsytDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYlrlgqpekvrPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECedkcrwttysNLASIYVKAELFEKAELALKKLEemkprdrkAYHFLISLYCNTSNLDAVNRVWGIlkstfpptntSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKqfhwrpmqvTVDTFFRFfeeekdvdgAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMRQ
Flexible Loop (DISEMBL)
mmirnqsrlistgsyLVRQLCStptetvsqriaaptpfptgneDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEakqfhwrpmQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMRQ
Low Complexity Region (SEG)
MMIRNQSRLISTGSYLVRQLCSTPTETVSQRIAAPTPFPTGNEDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVkaelfekaelalkkleeMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIfnnakkranasarffkSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMRQ
Disordered region (IsUnstruct)
***********TGSYLVRQLCST*********************KLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGK*******
Disordered Region (DISOPRED)
************GSYLVRQLCSTPTETVS**********TGNEDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLA*DMR*
Disordered Region (DISEMBL)
MMIRNQSRLISTGSYLVRQLCSTPTETVSQRIAAPTPFPTGNEDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMRQ
Disordered Region (DISPRO)
****NQSRLISTGSYLVRQLCSTPTETVSQRIAAPTPFPTGNEDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLA***R*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MMIRNQSRLISTGSYLVRQLCSTPTETVSQRIAAPTPFPTGNEDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMRQ
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	485	2.2.26 [Sep-21-2011]
Q9FZ24	537	Pentatricopeptide repeat-	yes	no	0.964	0.871	0.492	1e-125
Q93WC5	502	Pentatricopeptide repeat-	no	no	0.973	0.940	0.459	1e-114
O22714	491	Pentatricopeptide repeat-	no	no	0.901	0.890	0.411	1e-83
Q8LPS6	524	Pentatricopeptide repeat-	no	no	0.886	0.820	0.325	9e-60
Q9SY07	532	Pentatricopeptide repeat-	no	no	0.894	0.815	0.328	6e-59
Q9SKU6	490	Pentatricopeptide repeat-	no	no	0.894	0.885	0.297	1e-55
Q84JR3	492	Pentatricopeptide repeat-	no	no	0.886	0.873	0.316	4e-55
Q3E911	491	Pentatricopeptide repeat-	no	no	0.872	0.861	0.305	1e-51
Q94B59	409	Pentatricopeptide repeat-	no	no	0.657	0.779	0.310	4e-37
Q9C7F1	566	Putative pentatricopeptid	no	no	0.661	0.567	0.276	2e-27

>sp|Q9FZ24|PPR4_ARATH Pentatricopeptide repeat-containing protein At1g02370, mitochondrial OS=Arabidopsis thaliana GN=At1g02370 PE=2 SV=1

 Score =  449 bits (1154), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 234/475 (49%), Positives = 309/475 (65%), Gaps = 7/475 (1%)

Query: 16  LVRQLCSTPTETVSQRIAAPTPFPTGNEDKLYKRLSALGATGGSVTGALNAYIMEGKTVR 75
           +V    S+P      R +   P     + +LYK+LS L  TGG+V   LN +IMEG TVR
Sbjct: 43  VVEASVSSPAAENGVRTSVAAPTVASRQRELYKKLSMLSVTGGTVAETLNQFIMEGITVR 102

Query: 76  KDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFN 135
           KD L  C ++LRKF R +HA E+ +WME RKM FS +D A+ LDL  KT G+ AAE YFN
Sbjct: 103 KDDLFRCAKTLRKFRRPQHAFEIFDWMEKRKMTFSVSDHAICLDLIGKTKGLEAAENYFN 162

Query: 136 GLSEYAKN-RYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQ 194
            L   AKN + TYGAL+NCYC EL  E+A A FE MDEL F+ N++ FNN+ +MY+RL Q
Sbjct: 163 NLDPSAKNHQSTYGALMNCYCVELEEEKAKAHFEIMDELNFVNNSLPFNNMMSMYMRLSQ 222

Query: 195 PEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYS 254
           PEKV  LV+ MKQR IS   +TY +WMQS   LND+DG+E++  EM  + E K  W T+S
Sbjct: 223 PEKVPVLVDAMKQRGISPCGVTYSIWMQSCGSLNDLDGLEKIIDEMGKDSEAKTTWNTFS 282

Query: 255 NLASIYVKAELFEKAELALKKLEE-MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKST 313
           NLA+IY KA L+EKA+ ALK +EE M P +R ++HFL+SLY   S    V RVW  LK  
Sbjct: 283 NLAAIYTKAGLYEKADSALKSMEEKMNPNNRDSHHFLMSLYAGISKGPEVYRVWESLKKA 342

Query: 314 FPPTNT-SYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEA 372
            P  N  SYLV+LQA++KL  +D +K+ F EWES+C +YDMRLA++ I  YL+ +MYEEA
Sbjct: 343 RPEVNNLSYLVMLQAMSKLGDLDGIKKIFTEWESKCWAYDMRLANIAINTYLKGNMYEEA 402

Query: 373 ALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQF--HWRPMQV 430
             I + A K++     F K+R+  MI+ L + + DLA+  +EAA+S++ +    W     
Sbjct: 403 EKILDGAMKKSKGP--FSKARQLLMIHLLENDKADLAMKHLEAAVSDSAENKDEWGWSSE 460

Query: 431 TVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMRQ 485
            V  FF  FE+ KDVDGAE+FCK+L +   LD    + LIKTY AA K + DMR+
Sbjct: 461 LVSLFFLHFEKAKDVDGAEDFCKILSNWKPLDSETMTFLIKTYAAAEKTSPDMRE 515

Arabidopsis thaliana (taxid: 3702)

>sp|Q93WC5|PP300_ARATH Pentatricopeptide repeat-containing protein At4g01990, mitochondrial OS=Arabidopsis thaliana GN=At4g01990 PE=2 SV=1

 Score =  411 bits (1056), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 223/485 (45%), Positives = 313/485 (64%), Gaps = 13/485 (2%)

Query: 9   LISTGSYLVRQLCST---PTETVSQRIAAPTPFPTGNEDKLYKRLSALGATGGS-VTGAL 64
           ++ + S L R+ C+T    T  +S   AA  P        +YK+LS+LG  GG  +   L
Sbjct: 1   MMHSVSRLARRFCATLATATAEISGEAAASVPTKAKKHRSIYKKLSSLGTRGGGKMEETL 60

Query: 65  NAYIMEGKTVRK-DMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAK 123
           N ++MEG  V+K D++ Y  + LRKF + + ALE+ EWME +++ F+ +D A+ L+L AK
Sbjct: 61  NQFVMEGVPVKKHDLIRY-AKDLRKFRQPQRALEIFEWMERKEIAFTGSDHAIRLNLIAK 119

Query: 124 TNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFN 183
           + G+ AAE YFN L +  KN+ TYG+LLNCYC E    +A A FE M +L  + N++ FN
Sbjct: 120 SKGLEAAETYFNSLDDSIKNQSTYGSLLNCYCVEKEEVKAKAHFENMVDLNHVSNSLPFN 179

Query: 184 NLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNE 243
           NL  MY+ LGQPEKV  LV  MK+++I+  ++TY +W+QS   L D+DGVE+V  EM  E
Sbjct: 180 NLMAMYMGLGQPEKVPALVVAMKEKSITPCDITYSMWIQSCGSLKDLDGVEKVLDEMKAE 239

Query: 244 CEDKCRWTTYSNLASIYVKAELFEKAELALKKLE-EMKPRDRKAYHFLISLYCNTSNLDA 302
            E    W T++NLA+IY+K  L+ KAE ALK LE  M P  R  YHFLI+LY   +N   
Sbjct: 240 GEGIFSWNTFANLAAIYIKVGLYGKAEEALKSLENNMNPDVRDCYHFLINLYTGIANASE 299

Query: 303 VNRVWGILKSTFPPT-NTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIR 361
           V RVW +LK  +P   N+SYL +L+AL+KL+ ID +K+ F EWES C +YDMR+A+V I 
Sbjct: 300 VYRVWDLLKKRYPNVNNSSYLTMLRALSKLDDIDGVKKVFAEWESTCWTYDMRMANVAIS 359

Query: 362 AYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAA-LSEA 420
           +YL+++MYEEA  +FN A K+     +F K+R+  M++ L++ Q DLAL   EAA L + 
Sbjct: 360 SYLKQNMYEEAEAVFNGAMKKCK--GQFSKARQLLMMHLLKNDQADLALKHFEAAVLDQD 417

Query: 421 KQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLA 480
           K + W    ++  +FF  FEE KDVDGAEEFCK L   + L    Y+LL+KTY+AAGK  
Sbjct: 418 KNWTWSSELIS--SFFLHFEEAKDVDGAEEFCKTLTKWSPLSSETYTLLMKTYLAAGKAC 475

Query: 481 SDMRQ 485
            DM++
Sbjct: 476 PDMKK 480

Arabidopsis thaliana (taxid: 3702)

>sp|O22714|PPR86_ARATH Pentatricopeptide repeat-containing protein At1g60770 OS=Arabidopsis thaliana GN=At1g60770 PE=2 SV=1

 Score =  310 bits (794), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 186/452 (41%), Positives = 265/452 (58%), Gaps = 15/452 (3%)

Query: 43  EDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWM 102
           E+ LY RL   G T   V   LN ++   K V K  +   ++ LR  G Y  AL++ E M
Sbjct: 22  EEPLYNRLFKDGGTEVKVRQQLNQFLKGTKHVFKWEVGDTIKKLRNRGLYYPALKLSEVM 81

Query: 103 ESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTER 162
           E R M+ + +D A++LDL AK   I A E YF  L E +K   TYG+LLNCYCKEL+TE+
Sbjct: 82  EERGMNKTVSDQAIHLDLVAKAREITAGENYFVDLPETSKTELTYGSLLNCYCKELLTEK 141

Query: 163 ALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQ 222
           A  L  KM EL    +++++N+L T+Y + G+ EKV  ++ ++K  N+  D+ TY VWM+
Sbjct: 142 AEGLLNKMKELNITPSSMSYNSLMTLYTKTGETEKVPAMIQELKAENVMPDSYTYNVWMR 201

Query: 223 SYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMK-- 280
           + +  NDI GVERV  EM  +      WTTYSN+ASIYV A L +KAE AL++L EMK  
Sbjct: 202 ALAATNDISGVERVIEEMNRDGRVAPDWTTYSNMASIYVDAGLSQKAEKALQEL-EMKNT 260

Query: 281 PRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPT-NTSYLVLLQALAKLNAIDILKQ 339
            RD  AY FLI+LY     L  V R+W  L+   P T N +YL ++Q L KLN +   + 
Sbjct: 261 QRDFTAYQFLITLYGRLGKLTEVYRIWRSLRLAIPKTSNVAYLNMIQVLVKLNDLPGAET 320

Query: 340 CFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRA---NASARFFKSRESF 396
            F+EW++ CS+YD+R+ +V+I AY Q+ + ++A  +   A +R    NA     K+ E F
Sbjct: 321 LFKEWQANCSTYDIRIVNVLIGAYAQEGLIQKANELKEKAPRRGGKLNA-----KTWEIF 375

Query: 397 MIYYLRSRQLDLALNEMEAALSEAK--QFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKV 454
           M YY++S  +  AL  M  A+S  K     W P   TV     +FE++KDV+GAE   ++
Sbjct: 376 MDYYVKSGDMARALECMSKAVSIGKGDGGKWLPSPETVRALMSYFEQKKDVNGAENLLEI 435

Query: 455 LKS-LNCLDFSAYSLLIKTYIAAGKLASDMRQ 485
           LK+  + +    +  LI+TY AAGK    MR+
Sbjct: 436 LKNGTDNIGAEIFEPLIRTYAAAGKSHPAMRR 467

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LPS6|PPR3_ARATH Pentatricopeptide repeat-containing protein At1g02150 OS=Arabidopsis thaliana GN=At1g02150 PE=2 SV=2

 Score =  231 bits (589), Expect = 9e-60,   Method: Compositional matrix adjust.
 Identities = 142/436 (32%), Positives = 233/436 (53%), Gaps = 6/436 (1%)

Query: 39  PTGNEDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEV 98
           P    + +YK++S +          LN +   G+ + K  L   V+ LRK+ R   ALEV
Sbjct: 62  PIVQWNAIYKKISLMEKPELGAASVLNQWEKAGRKLTKWELCRVVKELRKYKRANQALEV 121

Query: 99  IEWMESRKMHF--SYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCK 156
            +WM +R   F  S +D A+ LDL  K  GI  AE++F  L E  K+R  YG+LLN Y +
Sbjct: 122 YDWMNNRGERFRLSASDAAIQLDLIGKVRGIPDAEEFFLQLPENFKDRRVYGSLLNAYVR 181

Query: 157 ELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLT 216
               E+A AL   M +  +  + + FN + T+Y+ L + +KV  +V +MKQ++I LD  +
Sbjct: 182 AKSREKAEALLNTMRDKGYALHPLPFNVMMTLYMNLREYDKVDAMVFEMKQKDIRLDIYS 241

Query: 217 YIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKL 276
           Y +W+ S   L  ++ +E V+ +M ++      WTT+S +A++Y+K    EKAE AL+K+
Sbjct: 242 YNIWLSSCGSLGSVEKMELVYQQMKSDVSIYPNWTTFSTMATMYIKMGETEKAEDALRKV 301

Query: 277 E-EMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-TNTSYLVLLQALAKLNAI 334
           E  +  R+R  YH+L+SLY +  N   + RVW + KS  P   N  Y  L+ +L ++  I
Sbjct: 302 EARITGRNRIPYHYLLSLYGSLGNKKELYRVWHVYKSVVPSIPNLGYHALVSSLVRMGDI 361

Query: 335 DILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRE 394
           +  ++ +EEW    SSYD R+ ++++ AY++ D  E A  +F++  +     +    + E
Sbjct: 362 EGAEKVYEEWLPVKSSYDPRIPNLLMNAYVKNDQLETAEGLFDHMVEMGGKPSS--STWE 419

Query: 395 SFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKV 454
              + + R R +  AL  +  A S     +WRP  + +  FF+  EEE DV   E   ++
Sbjct: 420 ILAVGHTRKRCISEALTCLRNAFSAEGSSNWRPKVLMLSGFFKLCEEESDVTSKEAVLEL 479

Query: 455 LKSLNCLDFSAYSLLI 470
           L+    L+  +Y  LI
Sbjct: 480 LRQSGDLEDKSYLALI 495

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SY07|PP302_ARATH Pentatricopeptide repeat-containing protein At4g02820, mitochondrial OS=Arabidopsis thaliana GN=At4g02820 PE=2 SV=1

 Score =  228 bits (582), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 146/445 (32%), Positives = 244/445 (54%), Gaps = 11/445 (2%)

Query: 40  TGNEDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVI 99
            G  D L  RL +L  T  S    +  +  EG +VRK  L   VR LRK  RY+HALE+ 
Sbjct: 57  VGGRDTLGGRLLSLVYTKRSAVVTIRKWKEEGHSVRKYELNRIVRELRKIKRYKHALEIC 116

Query: 100 EWMESRK-MHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKEL 158
           EWM  ++ +     D+AV+LDL +K  G+ +AEK+F  + +  +      +LL+ Y +  
Sbjct: 117 EWMVVQEDIKLQAGDYAVHLDLISKIRGLNSAEKFFEDMPDQMRGHAACTSLLHSYVQNK 176

Query: 159 MTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYI 218
           ++++A ALFEKM E  FL + + +N++ +MY+  GQ EKV  L+ ++K R  S D +TY 
Sbjct: 177 LSDKAEALFEKMGECGFLKSCLPYNHMLSMYISRGQFEKVPVLIKELKIRT-SPDIVTYN 235

Query: 219 VWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEE 278
           +W+ +++  ND++G E+V+ +   E +    W TYS L ++Y K +  EKA LALK++E+
Sbjct: 236 LWLTAFASGNDVEGAEKVYLK-AKEEKLNPDWVTYSVLTNLYAKTDNVEKARLALKEMEK 294

Query: 279 M-KPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTS-YLVLLQALAKLNAIDI 336
           +   ++R AY  LISL+ N  + D VN  W  +KS+F   N + YL ++ A+ KL   + 
Sbjct: 295 LVSKKNRVAYASLISLHANLGDKDGVNLTWKKVKSSFKKMNDAEYLSMISAVVKLGEFEQ 354

Query: 337 LKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNN-AKKRANASARFFKSRES 395
            K  ++EWES   + D R+ ++I+  Y+ +D        +    +K  N S   + + E 
Sbjct: 355 AKGLYDEWESVSGTGDARIPNLILAEYMNRDEVLLGEKFYERIVEKGINPS---YSTWEI 411

Query: 396 FMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVL 455
               YL+ + ++  L+    A+   K+  W      V    +  EE+ +V GAE+   +L
Sbjct: 412 LTWAYLKRKDMEKVLDCFGKAIDSVKK--WTVNVRLVKGACKELEEQGNVKGAEKLMTLL 469

Query: 456 KSLNCLDFSAYSLLIKTYIAAGKLA 480
           +    ++   Y+ L++TY  AG++A
Sbjct: 470 QKAGYVNTQLYNSLLRTYAKAGEMA 494

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SKU6|PP166_ARATH Pentatricopeptide repeat-containing protein At2g20710, mitochondrial OS=Arabidopsis thaliana GN=At2g20710 PE=2 SV=1

 Score =  218 bits (554), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 133/447 (29%), Positives = 236/447 (52%), Gaps = 13/447 (2%)

Query: 36  TPFPTGNEDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHA 95
           TP P    D L +R++  G    S+   L+ ++ +G  V+   L   ++ LRKF R+ HA
Sbjct: 30  TPSPLDPYDTLQRRVARSGDPSASIIKVLDGWLDQGNLVKTSELHSIIKMLRKFSRFSHA 89

Query: 96  LEVIEWMESRKMH-FSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCY 154
           L++ +WM   ++H  S  D A+ LDL AK  G+  AEK+F  +    +N + YGALLNCY
Sbjct: 90  LQISDWMSEHRVHEISEGDVAIRLDLIAKVGGLGEAEKFFETIPMERRNYHLYGALLNCY 149

Query: 155 CKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDN 214
             + +  +A  +F++M EL FL   + +N +  +Y+R G+   V  L+ +M+   +  D 
Sbjct: 150 ASKKVLHKAEQVFQEMKELGFLKGCLPYNVMLNLYVRTGKYTMVEKLLREMEDETVKPDI 209

Query: 215 LTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALK 274
            T    + +YS ++D++G+E+       +      W TY++ A+ Y+KA L EKA   L+
Sbjct: 210 FTVNTRLHAYSVVSDVEGMEKFLMRCEADQGLHLDWRTYADTANGYIKAGLTEKALEMLR 269

Query: 275 KLEEM--KPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLN 332
           K E+M    + + AY  L+S Y      + V R+W + K      NT Y+ ++ AL K++
Sbjct: 270 KSEQMVNAQKRKHAYEVLMSFYGAAGKKEEVYRLWSLYKELDGFYNTGYISVISALLKMD 329

Query: 333 AIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFN--NAKKRANASARFF 390
            I+ +++  EEWE+  S +D+R+  ++I  Y +K M E+A  + N    K R   ++ + 
Sbjct: 330 DIEEVEKIMEEWEAGHSLFDIRIPHLLITGYCKKGMMEKAEEVVNILVQKWRVEDTSTW- 388

Query: 391 KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEE 450
              E   + Y  + +++ A+ + + A+ E  +  WRP QV + +   + E ++D++G   
Sbjct: 389 ---ERLALGYKMAGKMEKAVEKWKRAI-EVSKPGWRPHQVVLMSCVDYLEGQRDMEG--- 441

Query: 451 FCKVLKSLNCLDFSAYSLLIKTYIAAG 477
             K+L+ L+     +Y  L+     AG
Sbjct: 442 LRKILRLLSERGHISYDQLLYDMNGAG 468

Arabidopsis thaliana (taxid: 3702)

>sp|Q84JR3|PP334_ARATH Pentatricopeptide repeat-containing protein At4g21705, mitochondrial OS=Arabidopsis thaliana GN=At4g21705 PE=2 SV=1

 Score =  216 bits (549), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 138/436 (31%), Positives = 222/436 (50%), Gaps = 6/436 (1%)

Query: 46  LYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWM-ES 104
           LY ++S LG    SV   L  ++  GK V    L   V  LR+  R+ HALEV +WM E+
Sbjct: 27  LYSKISPLGDPKSSVYPELQNWVQCGKKVSVAELIRIVHDLRRRKRFLHALEVSKWMNET 86

Query: 105 RKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERAL 164
               FS T+ AV+LDL  +  G   AE+YF  L E  KN  TYGALLNCY ++   E++L
Sbjct: 87  GVCVFSPTEHAVHLDLIGRVYGFVTAEEYFENLKEQYKNDKTYGALLNCYVRQQNVEKSL 146

Query: 165 ALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSY 224
             FEKM E+ F+ +++ +NN+  +Y  +GQ EKV  ++ +MK+ N++ DN +Y + + ++
Sbjct: 147 LHFEKMKEMGFVTSSLTYNNIMCLYTNIGQHEKVPKVLEEMKEENVAPDNYSYRICINAF 206

Query: 225 SHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLE-EMKPRD 283
             + D++ +     +M    +    W TY+  A  Y+     ++A   LK  E  ++ +D
Sbjct: 207 GAMYDLERIGGTLRDMERRQDITMDWNTYAVAAKFYIDGGDCDRAVELLKMSENRLEKKD 266

Query: 284 RKAYHFLISLYCNTSNLDAVNRVWGILKSTFP-PTNTSYLVLLQALAKLNAIDILKQCFE 342
            + Y+ LI+LY        V R+W + K       N  YL +LQ+L K++A+   ++   
Sbjct: 267 GEGYNHLITLYARLGKKIEVLRLWDLEKDVCKRRINQDYLTVLQSLVKIDALVEAEEVLT 326

Query: 343 EWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLR 402
           EW+S  + YD R+ + +IR Y+ K M E+A  +  +  +R  A+    +S E     Y  
Sbjct: 327 EWKSSGNCYDFRVPNTVIRGYIGKSMEEKAEAMLEDLARRGKATTP--ESWELVATAYAE 384

Query: 403 SRQLDLALNEMEAALS-EAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL 461
              L+ A   M+ AL  E     WRP    V +   +  +E  +   E F   L++   +
Sbjct: 385 KGTLENAFKCMKTALGVEVGSRKWRPGLTLVTSVLSWVGDEGSLKEVESFVASLRNCIGV 444

Query: 462 DFSAYSLLIKTYIAAG 477
           +   Y  L+K  I  G
Sbjct: 445 NKQMYHALVKADIREG 460

Arabidopsis thaliana (taxid: 3702)

>sp|Q3E911|PP400_ARATH Pentatricopeptide repeat-containing protein At5g27460 OS=Arabidopsis thaliana GN=At5g27460 PE=2 SV=1

 Score =  204 bits (519), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 132/432 (30%), Positives = 224/432 (51%), Gaps = 9/432 (2%)

Query: 59  SVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRK-MHFSYTDFAVY 117
           SVT  L   I  G  V    L    + L +  RY  AL+++EWME++K + FS  D A+ 
Sbjct: 53  SVTSLLQERIDSGHAVSLSELRLISKRLIRSNRYDLALQMMEWMENQKDIEFSVYDIALR 112

Query: 118 LDLTAKTNGIAAAEKYFNGLSEYAKN----RYTYGALLNCYCKELMTERALALFEKMDEL 173
           LDL  KT+G+   E+YF  L   + +    +  Y  LL  Y K  M + A AL EK++ L
Sbjct: 113 LDLIIKTHGLKQGEEYFEKLLHSSVSMRVAKSAYLPLLRAYVKNKMVKEAEALMEKLNGL 172

Query: 174 KFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGV 233
            FL     FN +  +Y   GQ EKV  +V+ MK   I  + L+Y +WM +   ++ +  V
Sbjct: 173 GFLVTPHPFNEMMKLYEASGQYEKVVMVVSMMKGNKIPRNVLSYNLWMNACCEVSGVAAV 232

Query: 234 ERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPR-DRKAYHFLIS 292
           E V+ EM  +   +  W++   LA++Y+K+   EKA L L+  E+M  R +R  Y FLI+
Sbjct: 233 ETVYKEMVGDKSVEVGWSSLCTLANVYIKSGFDEKARLVLEDAEKMLNRSNRLGYFFLIT 292

Query: 293 LYCNTSNLDAVNRVWGILKSTFPPTN-TSYLVLLQALAKLNAIDILKQCFEEWESRCSSY 351
           LY +  N + V R+W + KS     +  +Y+ +L +L K   ++  ++ F EWE++C +Y
Sbjct: 293 LYASLGNKEGVVRLWEVSKSVCGRISCVNYICVLSSLVKTGDLEEAERVFSEWEAQCFNY 352

Query: 352 DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALN 411
           D+R+++V++ AY++     +A  +     +R       +K+ E  M  +++   ++ A++
Sbjct: 353 DVRVSNVLLGAYVRNGEIRKAESLHGCVLERGGTPN--YKTWEILMEGWVKCENMEKAID 410

Query: 412 EMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIK 471
            M       ++ HWRP    V     +FE+E+ ++ A  + + L  L       Y LL++
Sbjct: 411 AMHQVFVLMRRCHWRPSHNIVMAIAEYFEKEEKIEEATAYVRDLHRLGLASLPLYRLLLR 470

Query: 472 TYIAAGKLASDM 483
            +  A + A D+
Sbjct: 471 MHEHAKRPAYDI 482

Arabidopsis thaliana (taxid: 3702)

>sp|Q94B59|PP372_ARATH Pentatricopeptide repeat-containing protein At5g09450, mitochondrial OS=Arabidopsis thaliana GN=At5g09450 PE=2 SV=1

 Score =  156 bits (394), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 102/329 (31%), Positives = 172/329 (52%), Gaps = 10/329 (3%)

Query: 43  EDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWM 102
           +D L  R+  L     S T  L  +I EG  +  + L    + LR+  RY+HALEV EWM
Sbjct: 54  KDDLKSRIFRLRLPKRSATTVLEKWIGEGNQMTINELREISKELRRTRRYKHALEVTEWM 113

Query: 103 -ESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTE 161
            +  +   S  D+A  +DL +K  GI AAE+YF GL   +K   TY +LL+ Y     TE
Sbjct: 114 VQHEESKISDADYASRIDLISKVFGIDAAERYFEGLDIDSKTAETYTSLLHAYAASKQTE 173

Query: 162 RALALFEKM---DELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYI 218
           RA ALF+++   D L F    + +N + T+Y+ +GQ EKV  ++  +KQ+ +S D  TY 
Sbjct: 174 RAEALFKRIIESDSLTF--GAITYNEMMTLYMSVGQVEKVPEVIEVLKQKKVSPDIFTYN 231

Query: 219 VWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAE--LALKKL 276
           +W+ S +   +ID + ++  EM ++      W  Y +L SIY+ +     AE  L ++  
Sbjct: 232 LWLSSCAATFNIDELRKILEEMRHDASSNEGWVRYIDLTSIYINSSRVTNAESTLPVEAE 291

Query: 277 EEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-TNTSYLVLLQALAKLNAID 335
           + +  R+   Y FL+ L+    N   ++++W  L++T    ++ SY+ +L +   L  + 
Sbjct: 292 KSISQREWITYDFLMILHTGLGNKVMIDQIWKSLRNTNQILSSRSYICVLSSYLMLGHLR 351

Query: 336 ILKQCFEEW-ESRCSSYDMRLADVIIRAY 363
             ++   +W ES+ + +D      I+ A+
Sbjct: 352 EAEEIIHQWKESKTTEFDASACLRILNAF 380

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C7F1|PPR61_ARATH Putative pentatricopeptide repeat-containing protein At1g28020 OS=Arabidopsis thaliana GN=At1g28020 PE=3 SV=2

 Score =  124 bits (311), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 90/326 (27%), Positives = 156/326 (47%), Gaps = 5/326 (1%)

Query: 58  GSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKM-HFSYTDFAV 116
             +   L  +  +G  V    +   ++ LR   +   AL+V EWM   K+ +    DFA 
Sbjct: 50  AQIIPVLEQWRQQGNQVNPSHVRVIIKKLRDSDQSLQALQVSEWMSKEKICNLIPEDFAA 109

Query: 117 YLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTE-RALALFEKMDELKF 175
            L L     G+  AEK+F  + + A+    Y +LLN Y +   T  +A A F+KM +L  
Sbjct: 110 RLHLIENVVGLEEAEKFFESIPKNARGDSVYTSLLNSYARSDKTLCKAEATFQKMRDLGL 169

Query: 176 LGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVER 235
           L   V +N + ++Y  L   EKV  L+ +MK  ++  DN+T    ++ YS + D+  +E+
Sbjct: 170 LLRPVPYNAMMSLYSALKNREKVEELLLEMKDNDVEADNVTVNNVLKLYSAVCDVTEMEK 229

Query: 236 VFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRD--RKAYHFLISL 293
              +       K  W T  ++A  Y++A    KA   L+  E++  +   + AY  L+ L
Sbjct: 230 FLNKWEGIHGIKLEWHTTLDMAKAYLRARSSGKAMKMLRLTEQLVDQKSLKSAYDHLMKL 289

Query: 294 YCNTSNLDAVNRVWGILKSTFPP-TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYD 352
           Y    N + V RVW + KS      N  Y  ++++L K++ I   ++ ++ WES    +D
Sbjct: 290 YGEAGNREEVLRVWKLYKSKIGERDNNGYRTVIRSLLKVDDIVGAEEIYKVWESLPLEFD 349

Query: 353 MRLADVIIRAYLQKDMYEEAALIFNN 378
            R+  ++   Y  + M E+A  + N+
Sbjct: 350 HRIPTMLASGYRDRGMTEKAEKLMNS 375

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	485
255548417	504	pentatricopeptide repeat-containing prot	0.983	0.946	0.584	1e-158
359480173	506	PREDICTED: LOW QUALITY PROTEIN: pentatri	0.995	0.954	0.552	1e-150
224064562	476	predicted protein [Populus trichocarpa]	0.903	0.920	0.573	1e-144
224130976	473	predicted protein [Populus trichocarpa]	0.923	0.947	0.575	1e-144
449458295	474	PREDICTED: pentatricopeptide repeat-cont	0.915	0.936	0.574	1e-143
297743994	526	unnamed protein product [Vitis vinifera]	0.942	0.868	0.557	1e-142
395146485	516	pentatricopeptide repeat-containing prot	0.983	0.924	0.512	1e-134
255647669	484	unknown [Glycine max]	0.944	0.946	0.504	1e-129
356536682	593	PREDICTED: LOW QUALITY PROTEIN: pentatri	0.944	0.772	0.502	1e-128
357442213	539	Pentatricopeptide repeat-containing prot	0.911	0.820	0.506	1e-124

>gi|255548417|ref|XP_002515265.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223545745|gb|EEF47249.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  563 bits (1451), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 285/488 (58%), Positives = 362/488 (74%), Gaps = 11/488 (2%)

Query: 2   MIRNQSRLISTGSYLVRQLCSTPTETVSQRIAAPTPFPTGNEDKLYKRLSALGATGGSVT 61
           M +N  RLI T S   RQ  ST    V   + +P        +KLY +LSALGATGGSV+
Sbjct: 1   MKKNPCRLILTASCPSRQRFSTAEAAVPPAVVSPR-----QSEKLYHKLSALGATGGSVS 55

Query: 62  GALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLT 121
             LN +IMEGKT+ K  L  C+R LRK+ R+ HA E++EWME RKM+FSY D A+ LDL 
Sbjct: 56  RTLNEHIMEGKTITKIELSRCIRELRKYRRFDHAFEIMEWMEKRKMNFSYADRAIRLDLI 115

Query: 122 AKTNGIAAAEKYFNGLSEYAKNRYT-YGALLNCYCKELMTERALALFEKMDELKFLGNTV 180
            K  GIAAAE YFNGLS  AKN +T YGALLNCYCKELM+++ALALF++MDE KFL +++
Sbjct: 116 GKARGIAAAEDYFNGLSPSAKNHHTSYGALLNCYCKELMSDKALALFQEMDEKKFLYSSL 175

Query: 181 AFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEM 240
            FNNL +MY+RLGQPEKV PLV++MK+R +S  + TY +WMQSY  LND  GV+RV  E+
Sbjct: 176 PFNNLMSMYMRLGQPEKVPPLVDEMKKRKVSPCSFTYNIWMQSYGCLNDFQGVDRVLREI 235

Query: 241 CNE-CEDKCRWTTYSNLASIYVKAELFEKAELALKKLEE-MKPRDRKAYHFLISLYCNTS 298
            N+  +D  +WTTYSNLA+IY+KA +FEKAE ALKKLE  M  R+R+AYHFLIS+Y  T 
Sbjct: 236 VNDGGKDNLQWTTYSNLATIYLKAGIFEKAESALKKLEAIMGFRNREAYHFLISIYAGTG 295

Query: 299 NLDAVNRVWGILKSTFPPTNT-SYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLAD 357
           N + VNRVWG+LKS+F   N  SYLV+LQALAKL  ++ + +CF EWES C++YDMR+A+
Sbjct: 296 NSNEVNRVWGLLKSSFNMINNLSYLVMLQALAKLKDVEGVAKCFREWESGCTNYDMRIAN 355

Query: 358 VIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAAL 417
           V IR +LQ DMYEEA LIF++A KR      FFK+RE FM+++L+  QLDLAL  M AA 
Sbjct: 356 VAIRVFLQHDMYEEAELIFDDALKRTRGP--FFKARERFMLFFLKIHQLDLALKHMRAAF 413

Query: 418 SEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAG 477
           SE+++  W+P+Q TV+ +F +F  EKDVDGAE+  K+LK +NCL+ S YSLL+KTYIAAG
Sbjct: 414 SESEKHEWKPLQETVNAYFDYFRTEKDVDGAEKLSKILKHINCLNSSVYSLLLKTYIAAG 473

Query: 478 KLASDMRQ 485
           KLA +MRQ
Sbjct: 474 KLAPEMRQ 481

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359480173|ref|XP_003632411.1| PREDICTED: LOW QUALITY PROTEIN: pentatricopeptide repeat-containing protein At1g02370, mitochondrial-like [Vitis vinifera]

 Score =  538 bits (1386), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 269/487 (55%), Positives = 350/487 (71%), Gaps = 4/487 (0%)

Query: 1   MMIRNQSRLISTGSYLVRQLCSTPTETVSQRIAAPTPFPTGNEDKLYKRLSALGATGGSV 60
           MM RN +RLIS G+ L R+LC+    T  + +A      +  + +LY RLSALGATGGSV
Sbjct: 1   MMARNPNRLISAGAGLARRLCTAAAATEPEEVAVQAASRSVRQPRLYHRLSALGATGGSV 60

Query: 61  TGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDL 120
              LN +I EGK + K  L  C++ LRK+ +++HALE+++WME+RK+ FSY D+AV LDL
Sbjct: 61  ADTLNEHIKEGKLIAKHELSSCIKQLRKYRQFQHALEIMDWMENRKIFFSYADYAVRLDL 120

Query: 121 TAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTV 180
            +KT G+A AE+YFN LS  AKN  TYG LLNCYCKE M E+ALALFEKMDEL F   ++
Sbjct: 121 LSKTKGLATAEEYFNNLSPSAKNLLTYGTLLNCYCKEKMEEKALALFEKMDELNFASTSL 180

Query: 181 AFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEM 240
            FNNL ++++RLG+PE V PLV++MK+R+IS D  TY + MQSY+ LNDI+G ERV  E+
Sbjct: 181 TFNNLMSLHMRLGKPEMVPPLVDEMKKRSISPDTFTYNILMQSYARLNDIEGAERVLEEI 240

Query: 241 CNECEDKCRWTTYSNLASIYVKAELFEKAELALKKL-EEMKPRDRKAYHFLISLYCNTSN 299
             E EDK  WTTYSNLA++YV A LFEKAELALKKL EEM   DR AYHFLISLY   +N
Sbjct: 241 KRENEDKLSWTTYSNLAAVYVNARLFEKAELALKKLEEEMGFHDRLAYHFLISLYAGINN 300

Query: 300 LDAVNRVWGILKSTFPPTNT-SYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADV 358
           L  VNRVW  LKS FP TN  SY ++LQALA LN +D LK CFEEW+S C S+D+RLA+V
Sbjct: 301 LSEVNRVWNSLKSAFPKTNNMSYFIMLQALANLNDVDGLKICFEEWKSSCFSFDVRLANV 360

Query: 359 IIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALS 418
            +RA+L  DM ++A  I   A KR  +S  F+ + + FM ++L+ R++D AL  MEAA S
Sbjct: 361 AVRAFLGWDMIKDAESILYEAVKR--SSGPFYTALDMFMAHHLKVREIDTALKYMEAAAS 418

Query: 419 EAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGK 478
           E K   W+P    V  F ++FEEEKDV+GAE+FCK+LK+++ LD +AY LL++T +AAG+
Sbjct: 419 EVKNNEWQPAPERVLAFLKYFEEEKDVEGAEKFCKILKNISGLDSNAYQLLLQTXVAAGR 478

Query: 479 LASDMRQ 485
              +MR+
Sbjct: 479 TEPEMRK 485

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224064562|ref|XP_002301516.1| predicted protein [Populus trichocarpa] gi|222843242|gb|EEE80789.1| predicted protein [Populus trichocarpa]

 Score =  517 bits (1331), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 261/455 (57%), Positives = 328/455 (72%), Gaps = 17/455 (3%)

Query: 46  LYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESR 105
           +Y+RLS LGA+GGSV+  LN  I+EG    K  L  C++ LRK+GR+ HA+EV+EWM+ R
Sbjct: 1   MYRRLSELGASGGSVSKTLNELILEGGKTSKINLTTCIKKLRKYGRFDHAIEVMEWMQKR 60

Query: 106 KMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALA 165
           KM+FS+ D AVYLDLTAKT GIAAAE YF+ L    +N  TY  LLNCYCKELM+E+AL 
Sbjct: 61  KMNFSHVDHAVYLDLTAKTKGIAAAENYFDNLPPSVQNHVTYSTLLNCYCKELMSEKALT 120

Query: 166 LFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYS 225
           LFEKMD++K L  ++ FNNL T+++RLGQPEKV  +V +MKQR +S    TY +WMQSY 
Sbjct: 121 LFEKMDKMKLLSTSMPFNNLMTLHMRLGQPEKVLGIVQEMKQRGVSPGTFTYNIWMQSYG 180

Query: 226 HLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEE------- 278
            LND +GV+RV  EM  + ++   WTTYSNLA+IYVKA LF+KAE AL+KLEE       
Sbjct: 181 CLNDFEGVQRVLDEMKTDGKENFSWTTYSNLATIYVKAGLFDKAESALRKLEEQIECGRD 240

Query: 279 ---MKPR----DRKAYHFLISLYCNTSNLDAVNRVWGILKSTF-PPTNTSYLVLLQALAK 330
               K R    DR+AYHFLISLY  TSNL  V+RVW  LKS+F   TN SYL +LQALAK
Sbjct: 241 CDFQKKRRHDADREAYHFLISLYAGTSNLSEVHRVWNSLKSSFRTTTNISYLNVLQALAK 300

Query: 331 LNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFF 390
           L  ++ + +CF+EWES C SYDM LA+V IRA L+ DMYEEAA IF+ A KR      FF
Sbjct: 301 LKDVEGILKCFKEWESSCHSYDMGLANVAIRACLEHDMYEEAASIFDEALKR--TKGLFF 358

Query: 391 KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEE 450
           K+RE FM+++L++ Q DLAL  M+AA SEAK+  W+P Q TV  F  +FE+ KDVDGAE 
Sbjct: 359 KAREMFMVFFLKNHQPDLALKHMKAAFSEAKEIEWQPDQKTVSAFLNYFEDGKDVDGAER 418

Query: 451 FCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMRQ 485
            CK+ K +N L+ +AY LL+KTY AAG+LA +MRQ
Sbjct: 419 LCKIWKQINRLNSNAYILLLKTYTAAGRLAPEMRQ 453

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224130976|ref|XP_002320971.1| predicted protein [Populus trichocarpa] gi|222861744|gb|EEE99286.1| predicted protein [Populus trichocarpa]

 Score =  516 bits (1329), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 262/455 (57%), Positives = 331/455 (72%), Gaps = 7/455 (1%)

Query: 33  AAPTPFPTGNEDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRY 92
           A   P       +LYKRLS LGA+G SV+  LN +++EG    K  L  C+R LRK+GR+
Sbjct: 2   AEVVPVVLEKRKRLYKRLSELGASGESVSKTLNDFVLEGGKTNKVDLLACIRELRKYGRF 61

Query: 93  RHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLN 152
            +A+EV+EWM+ RKM+ S+   AVYLDL AK  GIAAAE YF+GLS   +N  T+GALL+
Sbjct: 62  DYAIEVMEWMQKRKMNVSH---AVYLDLIAKKEGIAAAENYFDGLSPSEQNHSTHGALLS 118

Query: 153 CYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISL 212
           CYC+ELM+E+AL LFEKMD++KFL  ++ FNNL +++LRL QPEKV P+V +MKQ+ +S 
Sbjct: 119 CYCRELMSEKALTLFEKMDKMKFLLTSLPFNNLISLHLRLDQPEKVLPIVQEMKQKGVSP 178

Query: 213 DNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELA 272
              TY +WMQSY  LND +GVERV  EM  + +    WTTY+NLA+IYVKA  F+KAE A
Sbjct: 179 CTFTYNMWMQSYGCLNDFEGVERVLDEMKMDGQKNFSWTTYTNLATIYVKAGHFDKAESA 238

Query: 273 LKKLEEMKPRD-RKAYHFLISLYCNTSNLDAVNRVWGILKSTF-PPTNTSYLVLLQALAK 330
           LKK+EE   RD R+AYHFLI+LY  TSNL  VNRVW  LKS F   TN SYL +L  LAK
Sbjct: 239 LKKVEEQIERDYREAYHFLITLYAGTSNLGEVNRVWNSLKSNFHTTTNVSYLTMLHTLAK 298

Query: 331 LNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFF 390
           L  ++ L +CF+EWES C SYDMRLA+V IRA L+ DMYEEAALIF++A KR      FF
Sbjct: 299 LKDVEGLLKCFKEWESSCHSYDMRLANVAIRACLEHDMYEEAALIFDDALKR--TEGLFF 356

Query: 391 KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEE 450
            +RE FM+++L++ QLDLAL  M+AA SE K+  W+P   TV  FF +FE+EKDV+GAE 
Sbjct: 357 NAREMFMVFFLKNHQLDLALKHMKAAFSEVKEIEWQPEPKTVSAFFAYFEDEKDVNGAER 416

Query: 451 FCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMRQ 485
            CK+LK +N LD +AY LL+KTYIAAGKLA +MRQ
Sbjct: 417 LCKILKHINRLDSNAYDLLLKTYIAAGKLAPEMRQ 451

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449458295|ref|XP_004146883.1| PREDICTED: pentatricopeptide repeat-containing protein At1g02370, mitochondrial-like [Cucumis sativus] gi|449518825|ref|XP_004166436.1| PREDICTED: pentatricopeptide repeat-containing protein At1g02370, mitochondrial-like [Cucumis sativus]

 Score =  516 bits (1328), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 259/451 (57%), Positives = 330/451 (73%), Gaps = 7/451 (1%)

Query: 39  PTGNEDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEV 98
           P  N+  LY RLSALGATGGSV   +N +IMEG  V+K  LE C++ LRK+ RY H L++
Sbjct: 4   PANNQRGLYPRLSALGATGGSVAKTINQFIMEGNIVKKYELEKCIKELRKYRRYHHCLQI 63

Query: 99  IEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKEL 158
           +EWME+RK+++S+TD+A+ LDL +K NG+ AAEKYF  L   AKNR TYGALLNCYCKE+
Sbjct: 64  MEWMETRKINYSFTDYALRLDLISKVNGVTAAEKYFYDLPPSAKNRCTYGALLNCYCKEM 123

Query: 159 MTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYI 218
           M E+AL LF+KMDELK +  +++FNNL TMY+R+  PEKV PL+ +MKQR   L   TY 
Sbjct: 124 MEEKALTLFKKMDELK-ISTSLSFNNLMTMYMRMDHPEKVPPLIGEMKQRGFYLTTFTYN 182

Query: 219 VWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKL-E 277
           VWM S + LNDI  VE +  EM  E  +K  WTTYSNLAS YVKA  FEKAELALKKL E
Sbjct: 183 VWMNSCASLNDIGKVEEILEEMKMEDRNKFDWTTYSNLASFYVKAGQFEKAELALKKLEE 242

Query: 278 EMKP--RDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-TNTSYLVLLQALAKLNAI 334
           EMK    DR  YH LISLY +TSNL  VNR+W  LKS +   TN SYLV+LQAL KL  I
Sbjct: 243 EMKSDKNDRLVYHCLISLYASTSNLSEVNRIWNALKSVYSTMTNISYLVMLQALRKLKDI 302

Query: 335 DILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRE 394
           + LK+ ++EWES C ++D+R+ + II AYLQ+DMYE+AA+IF +A KR+     F ++RE
Sbjct: 303 EGLKRTYKEWESNCRNFDLRIVNDIIGAYLQQDMYEDAAMIFEDATKRSKGP--FSRARE 360

Query: 395 SFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKV 454
            FM+Y+L+ +Q+D A + +E+ALSE+K+  W P   T   F  +FEEEKDV+GAE+F ++
Sbjct: 361 MFMVYFLKLKQVDSAFSHLESALSESKEKEWHPSLATTTAFLNYFEEEKDVEGAEDFARI 420

Query: 455 LKSLNCLDFSAYSLLIKTYIAAGKLASDMRQ 485
           LK L CLD S Y LL+KTY+AAGKLA DMR+
Sbjct: 421 LKRLKCLDASGYHLLLKTYVAAGKLAPDMRK 451

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297743994|emb|CBI36964.3| unnamed protein product [Vitis vinifera]

 Score =  512 bits (1319), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 257/461 (55%), Positives = 331/461 (71%), Gaps = 4/461 (0%)

Query: 1   MMIRNQSRLISTGSYLVRQLCSTPTETVSQRIAAPTPFPTGNEDKLYKRLSALGATGGSV 60
           MM RN +RLIS G+ L R+LC+    T  + +A      +  + +LY RLSALGATGGSV
Sbjct: 40  MMARNPNRLISAGAGLARRLCTAAAATEPEEVAVQAASRSVRQPRLYHRLSALGATGGSV 99

Query: 61  TGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDL 120
              LN +I EGK + K  L  C++ LRK+ +++HALE+++WME+RK+ FSY D+AV LDL
Sbjct: 100 ADTLNEHIKEGKLIAKHELSSCIKQLRKYRQFQHALEIMDWMENRKIFFSYADYAVRLDL 159

Query: 121 TAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTV 180
            +KT G+A AE+YFN LS  AKN  TYG LLNCYCKE M E+ALALFEKMDEL F   ++
Sbjct: 160 LSKTKGLATAEEYFNNLSPSAKNLLTYGTLLNCYCKEKMEEKALALFEKMDELNFASTSL 219

Query: 181 AFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEM 240
            FNNL ++++RLG+PE V PLV++MK+R+IS D  TY + MQSY+ LNDI+G ERV  E+
Sbjct: 220 TFNNLMSLHMRLGKPEMVPPLVDEMKKRSISPDTFTYNILMQSYARLNDIEGAERVLEEI 279

Query: 241 CNECEDKCRWTTYSNLASIYVKAELFEKAELALKKL-EEMKPRDRKAYHFLISLYCNTSN 299
             E EDK  WTTYSNLA++YV A LFEKAELALKKL EEM   DR AYHFLISLY   +N
Sbjct: 280 KRENEDKLSWTTYSNLAAVYVNARLFEKAELALKKLEEEMGFHDRLAYHFLISLYAGINN 339

Query: 300 LDAVNRVWGILKSTFPPTNT-SYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADV 358
           L  VNRVW  LKS FP TN  SY ++LQALA LN +D LK CFEEW+S C S+D+RLA+V
Sbjct: 340 LSEVNRVWNSLKSAFPKTNNMSYFIMLQALANLNDVDGLKICFEEWKSSCFSFDVRLANV 399

Query: 359 IIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALS 418
            +RA+L  DM ++A  I   A KR  +S  F+ + + FM ++L+ R++D AL  MEAA S
Sbjct: 400 AVRAFLGWDMIKDAESILYEAVKR--SSGPFYTALDMFMAHHLKVREIDTALKYMEAAAS 457

Query: 419 EAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLN 459
           E K   W+P    V  F ++FEEEKDV+GAE+FCK+LK+++
Sbjct: 458 EVKNNEWQPAPERVLAFLKYFEEEKDVEGAEKFCKILKNIS 498

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|395146485|gb|AFN53641.1| pentatricopeptide repeat-containing protein [Linum usitatissimum]

 Score =  485 bits (1249), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 255/498 (51%), Positives = 338/498 (67%), Gaps = 21/498 (4%)

Query: 2   MIRNQSRLISTGSYLVRQLCSTPTETVSQRIAAPTPF-----PTGNEDKLYKRLSALGAT 56
           M R+ +RLI  G    RQL ST TE  +   +AP P       +GN  +LY+RLSALGAT
Sbjct: 1   MWRSAARLIGNGRCPRRQL-STATEASA---SAPDPSYKEQRSSGNPLRLYRRLSALGAT 56

Query: 57  GGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAV 116
           GG+V   LN Y+M+G ++RK  L  CV+ LRK+GR+ H LE++EWME R ++  + D AV
Sbjct: 57  GGTVDKVLNDYVMDGMSIRKVELMRCVKELRKYGRFNHGLEIMEWMEKRGINLGHGDLAV 116

Query: 117 YLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFL 176
            LDL  KT GI  AE YFNGL   AKN  TYG+LLN YCK+L +E+AL LF+KMD+LKF 
Sbjct: 117 RLDLICKTKGITEAENYFNGLVPSAKNPATYGSLLNSYCKKLDSEKALQLFQKMDKLKFF 176

Query: 177 GNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERV 236
            N++ FNNL +MY+RLGQ EKV  LV+QMKQ N+     TY +W+QS  H+ D +G+++V
Sbjct: 177 RNSLPFNNLMSMYMRLGQQEKVPELVSQMKQMNLPPCTFTYNIWIQSLGHMRDFEGIKKV 236

Query: 237 FYEMCNECE--DKCRWTTYSNLASIYVKAELFEKAELALKKLEE-MKPRDRKAYHFLISL 293
             EM N+    +   WTTYSNLA++Y  A  FE+A+LALK +EE +   DR AYHFL++L
Sbjct: 237 LEEMRNDVNFGNNFNWTTYSNLAAVYTSAGEFERAKLALKMMEERIDSHDRNAYHFLLTL 296

Query: 294 YCNTSNLDAVNRVWGILKSTFPP-TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYD 352
           Y   ++L+ V+RVWG LK+ F   TN SYLV+LQALA+L  ++ + + FEEWES C+SYD
Sbjct: 297 YGGIADLEEVHRVWGCLKAKFNQVTNASYLVMLQALARLKDVEGISKVFEEWESVCTSYD 356

Query: 353 MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNE 412
           MR+A+V IR YL+K MY EA  +F+ A +R      +FK+RE  M+  L+ RQL+ AL +
Sbjct: 357 MRVANVAIRVYLEKGMYNEAEAVFDGAMERTPGP--YFKTREMLMVSLLKRRQLEPALKQ 414

Query: 413 MEAALSEAKQF------HWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAY 466
           M+AA +E  Q        WRP    V+ FF +FEEEKDV+GAE+  K+LK +N  D + Y
Sbjct: 415 MKAAFTEVGQNEKGHEKEWRPSAEIVNAFFGYFEEEKDVEGAEKMWKILKCINRCDSTVY 474

Query: 467 SLLIKTYIAAGKLASDMR 484
            LL+KTYIAAGK A DMR
Sbjct: 475 RLLMKTYIAAGKSAVDMR 492

Source: Linum usitatissimum

Species: Linum usitatissimum

Genus: Linum

Family: Linaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255647669|gb|ACU24296.1| unknown [Glycine max]

 Score =  469 bits (1208), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 242/480 (50%), Positives = 324/480 (67%), Gaps = 22/480 (4%)

Query: 5   NQSRLISTGSYLVRQLCSTPTETVSQRIAAPTPFPTGNEDKLYKRLSALGATGGSVTGAL 64
           N +RLIS G +L+R+LC+          AA TP    N   LY+ LSAL  TGG+V+  L
Sbjct: 2   NYARLISGGGWLLRRLCT----------AAETPAKKPN---LYRMLSALDITGGTVSQTL 48

Query: 65  NAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKT 124
           + YIMEGK ++K  LE CV  LRK+ R++HALE+IEWME RK++FS++++AV LDL +KT
Sbjct: 49  DQYIMEGKVIKKPELERCVEQLRKYRRFQHALEIIEWMEIRKVNFSWSNYAVQLDLVSKT 108

Query: 125 NGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNN 184
            G+ AAE +F GL   AKNRYTYGALLNCYCKELM ++AL+ F+ MDEL ++ N +AFNN
Sbjct: 109 KGVDAAENFFGGLPPPAKNRYTYGALLNCYCKELMKDKALSHFDTMDELGYVTN-LAFNN 167

Query: 185 LSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNEC 244
           + T++++LG+P+KV  LV  MK+R I +   TY +WM S +  ND+ G ERV+ EM  E 
Sbjct: 168 VMTLFMKLGEPQKVPQLVELMKKRTIPMSPFTYHIWMNSCASSNDLGGAERVYEEMKTEN 227

Query: 245 EDKCRWTTYSNLASIYVKAELFEKAELALKKLEE-MKPRDRKAYHFLISLYCNTSNLDAV 303
           E +  W TYSNLASIYVK + FEKAE+ LK LEE +KP+ R AYH L+ LY  T NL  V
Sbjct: 228 EGQIGWHTYSNLASIYVKFKDFEKAEMMLKMLEEQVKPKQRDAYHCLLGLYAGTGNLGEV 287

Query: 304 NRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAY 363
           +RVW  LKS  P TN SYLV+L  L +LN ++ L +CF+EWE+ C SYD RL  V + A+
Sbjct: 288 HRVWDSLKSVSPVTNFSYLVMLSTLRRLNDMEGLTKCFKEWEASCVSYDARLVSVCVSAH 347

Query: 364 LQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQF 423
           L ++M EEA L+F  A +R+     FF+ RE FM ++L+  +LD A+  +EAALSE K  
Sbjct: 348 LNQNMLEEAELVFEEASRRSKGP--FFRVREEFMKFFLKKHELDAAVRHLEAALSEVKGD 405

Query: 424 HWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDM 483
            WRP    V  FF+++EEE DVDG +EF K+ K+ N  D       IK+ I A K + ++
Sbjct: 406 KWRPSPQVVGAFFKYYEEETDVDGVDEFSKIFKANNFDDS-----WIKSCITASKSSPEI 460

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356536682|ref|XP_003536865.1| PREDICTED: LOW QUALITY PROTEIN: pentatricopeptide repeat-containing protein At1g02370, mitochondrial-like [Glycine max]

 Score =  466 bits (1200), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 241/480 (50%), Positives = 323/480 (67%), Gaps = 22/480 (4%)

Query: 5   NQSRLISTGSYLVRQLCSTPTETVSQRIAAPTPFPTGNEDKLYKRLSALGATGGSVTGAL 64
           N +RLIS G +L+R+LC+          AA TP    N   LY+ LSAL  TGG+V+  L
Sbjct: 2   NYARLISGGGWLLRRLCT----------AAETPAKKPN---LYRMLSALDITGGTVSQTL 48

Query: 65  NAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKT 124
           + YIMEGK ++K  LE CV  LRK+ R++HALE+IEWME RK++FS++++AV LDL +KT
Sbjct: 49  DQYIMEGKVIKKPELERCVEQLRKYRRFQHALEIIEWMEIRKVNFSWSNYAVQLDLVSKT 108

Query: 125 NGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNN 184
            G+ AAE +F GL   AKNRYTYGALLNCYCKELM ++AL+ F+ MDEL ++ N +AFNN
Sbjct: 109 KGVDAAENFFGGLPPPAKNRYTYGALLNCYCKELMKDKALSHFDTMDELGYVTN-LAFNN 167

Query: 185 LSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNEC 244
           + T++++LG+P+KV  LV  MK+R I +   TY +WM S +  ND+ G ERV+ EM  E 
Sbjct: 168 VMTLFMKLGEPQKVPQLVELMKKRTIPMSPFTYHIWMNSCASSNDLGGAERVYEEMKTEN 227

Query: 245 EDKCRWTTYSNLASIYVKAELFEKAELALKKLEE-MKPRDRKAYHFLISLYCNTSNLDAV 303
           E +  W TYSNLASIYVK + FEKAE+ LK LEE +KP+ R AYH L+ LY  T NL  V
Sbjct: 228 EGQIGWHTYSNLASIYVKFKDFEKAEMMLKMLEEQVKPKQRDAYHCLLGLYAGTGNLGEV 287

Query: 304 NRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAY 363
           +RVW  LKS  P TN SYLV+L  L +LN ++ L +CF+EWE+ C SYD RL  V + A+
Sbjct: 288 HRVWDSLKSVSPVTNFSYLVMLSTLRRLNDMEGLTKCFKEWEASCVSYDARLVSVCVSAH 347

Query: 364 LQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQF 423
           L ++M EEA L+F  A +R+     FF+ RE FM ++L+  +LD A+  +EAALSE K  
Sbjct: 348 LNQNMLEEAELVFEEASRRSKGP--FFRVREEFMKFFLKKHELDAAVRHLEAALSEVKGD 405

Query: 424 HWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDM 483
            WRP    V  F +++EEE DVDG +E  K+LK+ N  D       IK+ I A K + ++
Sbjct: 406 KWRPSPQVVGAFLKYYEEETDVDGVDELSKILKANNFDDS-----WIKSCITASKSSPEI 460

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357442213|ref|XP_003591384.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355480432|gb|AES61635.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  450 bits (1158), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 231/456 (50%), Positives = 306/456 (67%), Gaps = 14/456 (3%)

Query: 5   NQSRLISTGSYLVRQLCSTPTETVSQRIAAPTPFPTGNEDKLYKRLSALGATGGSVTGAL 64
           N SRLIS G  L+R+LC+  T       AA  P    N   LY+RL+ L  TGG+V+  L
Sbjct: 61  NYSRLISGGGRLLRRLCTAAT-------AAELPNKKAN---LYRRLADLEKTGGTVSQTL 110

Query: 65  NAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKT 124
           N YI+EGK + KD LE CV+ LRK+ R+ HA E++EWM  R+++FS+ ++AVYLDL +K 
Sbjct: 111 NQYIIEGKALGKDELERCVQELRKYRRFHHAFEIMEWMMMRQINFSWDNYAVYLDLVSKV 170

Query: 125 NGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNN 184
            G+  AE +FN     AKN+YTYG+LLNCYCKELM ++AL+ F+KMDE  +L  +++F N
Sbjct: 171 KGVVEAENHFNSFPPPAKNKYTYGSLLNCYCKELMLDKALSHFDKMDEFGYL-TSLSFTN 229

Query: 185 LSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNEC 244
           L +MY+RL QP KV  LVN MK+R I +   TYI+WM S + LND+  VERV+ EM  E 
Sbjct: 230 LMSMYMRLSQPSKVPQLVNVMKERKIRMTEFTYILWMNSCAALNDLGEVERVYEEMKRED 289

Query: 245 EDKCRWTTYSNLASIYVKAELFEKAELALKKLEE-MKPRDRKAYHFLISLYCNTSNLDAV 303
           EDK  W TYSNLA+IY+KA  FEKAEL LKK+E  MKPR R+ YHFL+SLY  T N+  V
Sbjct: 290 EDKIDWKTYSNLAAIYIKAGFFEKAELMLKKVEGVMKPRQRETYHFLLSLYAGTGNVKEV 349

Query: 304 NRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAY 363
            RVWG LK   P TN SYL++L  L +LN ++ + + F+EWESR  SYD RL  V ++AY
Sbjct: 350 YRVWGTLKKITPVTNRSYLIMLSNLRRLNDMEGIIKLFKEWESRHVSYDSRLVGVAVQAY 409

Query: 364 LQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQF 423
           L ++M +EA L+F  A K       FF+ RE FM   L   QLD A++ +EAALSEA  +
Sbjct: 410 LSQNMDKEAVLVFEEALKSCRGP--FFRIREMFMASLLEKGQLDGAMSHLEAALSEASDY 467

Query: 424 HWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLN 459
            ++P    V  F +++EEE D+DG +E  K+L+S N
Sbjct: 468 KYQPSPQVVSAFLKYYEEETDLDGVDELSKILRSHN 503

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	485
TAIR|locus:2204808	537	AT1G02370 "AT1G02370" [Arabido	0.964	0.871	0.461	4e-106
TAIR|locus:2141360	502	AT4G01990 [Arabidopsis thalian	0.962	0.930	0.431	9.7e-96
TAIR|locus:2036586	491	AT1G60770 [Arabidopsis thalian	0.907	0.896	0.383	4.1e-72
TAIR|locus:2140220	532	AT4G02820 "AT4G02820" [Arabido	0.892	0.813	0.306	7.2e-52
TAIR|locus:2204793	524	AT1G02150 [Arabidopsis thalian	0.872	0.807	0.305	9.2e-52
TAIR|locus:504955535	492	AT4G21705 "AT4G21705" [Arabido	0.882	0.869	0.305	8.3e-51
TAIR|locus:2051379	490	AT2G20710 [Arabidopsis thalian	0.896	0.887	0.280	3.6e-50
TAIR|locus:2146390	491	AT5G27460 "AT5G27460" [Arabido	0.872	0.861	0.284	1.6e-45
TAIR|locus:2184807	409	AT5G09450 "AT5G09450" [Arabido	0.657	0.779	0.300	1.9e-37
TAIR|locus:2074668	541	AT3G11380 "AT3G11380" [Arabido	0.404	0.362	0.289	2.4e-25

TAIR|locus:2204808 AT1G02370 "AT1G02370" [Arabidopsis thaliana (taxid:3702)]

 Score = 1031 (368.0 bits), Expect = 4.0e-106, Sum P(2) = 4.0e-106
 Identities = 219/475 (46%), Positives = 287/475 (60%)

Query:    16 LVRQLCSTPTETVSQRIAAPTPFPTGNEDKLYKRLSALGATGGSVTGALNAYIMEGKTVR 75
             +V    S+P      R +   P     + +LYK+LS L  TGG+V   LN +IMEG TVR
Sbjct:    43 VVEASVSSPAAENGVRTSVAAPTVASRQRELYKKLSMLSVTGGTVAETLNQFIMEGITVR 102

Query:    76 KDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFN 135
             KD L  C ++LRKF R +HA E+ +WME RKM FS +D A+ LDL  KT G+ AAE YFN
Sbjct:   103 KDDLFRCAKTLRKFRRPQHAFEIFDWMEKRKMTFSVSDHAICLDLIGKTKGLEAAENYFN 162

Query:   136 GLSEYAKNRY-TYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQ 194
              L   AKN   TYGAL+NCYC EL  E+A A FE MDEL F+ N++ FNN+ +MY+RL Q
Sbjct:   163 NLDPSAKNHQSTYGALMNCYCVELEEEKAKAHFEIMDELNFVNNSLPFNNMMSMYMRLSQ 222

Query:   195 PEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYS 254
             PEKV  LV+ MKQR IS   +TY +WMQS   LND+DG+E++  EM  + E K  W T+S
Sbjct:   223 PEKVPVLVDAMKQRGISPCGVTYSIWMQSCGSLNDLDGLEKIIDEMGKDSEAKTTWNTFS 282

Query:   255 NLASIYVXXXXXXXXXXXXXXXXX-MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKST 313
             NLA+IY                   M P +R ++HFL+SLY   S    V RVW  LK  
Sbjct:   283 NLAAIYTKAGLYEKADSALKSMEEKMNPNNRDSHHFLMSLYAGISKGPEVYRVWESLKKA 342

Query:   314 FPPTNT-SYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEA 372
              P  N  SYLV+LQA++KL  +D +K+ F EWES+C +YDMRLA++ I  YL+ +MYEEA
Sbjct:   343 RPEVNNLSYLVMLQAMSKLGDLDGIKKIFTEWESKCWAYDMRLANIAINTYLKGNMYEEA 402

Query:   373 ALIXXXXXXXXXXXXXXXXSRESFMIYYLRSRQLDLALNEMEAALSEAKQF--HWRPMQV 430
               I                +R+  MI+ L + + DLA+  +EAA+S++ +    W     
Sbjct:   403 EKILDGAMKKSKGPFSK--ARQLLMIHLLENDKADLAMKHLEAAVSDSAENKDEWGWSSE 460

Query:   431 TVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMRQ 485
              V  FF  FE+ KDVDGAE+FCK+L +   LD    + LIKTY AA K + DMR+
Sbjct:   461 LVSLFFLHFEKAKDVDGAEDFCKILSNWKPLDSETMTFLIKTYAAAEKTSPDMRE 515

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0006626 "protein targeting to mitochondrion" evidence=RCA

TAIR|locus:2141360 AT4G01990 [Arabidopsis thaliana (taxid:3702)]

 Score = 952 (340.2 bits), Expect = 9.7e-96, P = 9.7e-96
 Identities = 207/480 (43%), Positives = 290/480 (60%)

Query:    14 SYLVRQLCST---PTETVSQRIAAPTPFPTGNEDKLYKRLSALGATGGS-VTGALNAYIM 69
             S L R+ C+T    T  +S   AA  P        +YK+LS+LG  GG  +   LN ++M
Sbjct:     6 SRLARRFCATLATATAEISGEAAASVPTKAKKHRSIYKKLSSLGTRGGGKMEETLNQFVM 65

Query:    70 EGKTVRK-DMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIA 128
             EG  V+K D++ Y  + LRKF + + ALE+ EWME +++ F+ +D A+ L+L AK+ G+ 
Sbjct:    66 EGVPVKKHDLIRYA-KDLRKFRQPQRALEIFEWMERKEIAFTGSDHAIRLNLIAKSKGLE 124

Query:   129 AAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTM 188
             AAE YFN L +  KN+ TYG+LLNCYC E    +A A FE M +L  + N++ FNNL  M
Sbjct:   125 AAETYFNSLDDSIKNQSTYGSLLNCYCVEKEEVKAKAHFENMVDLNHVSNSLPFNNLMAM 184

Query:   189 YLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKC 248
             Y+ LGQPEKV  LV  MK+++I+  ++TY +W+QS   L D+DGVE+V  EM  E E   
Sbjct:   185 YMGLGQPEKVPALVVAMKEKSITPCDITYSMWIQSCGSLKDLDGVEKVLDEMKAEGEGIF 244

Query:   249 RWTTYSNLASIYVXXXXXXXXXXXXXXXXX-MKPRDRKAYHFLISLYCNTSNLDAVNRVW 307
              W T++NLA+IY+                  M P  R  YHFLI+LY   +N   V RVW
Sbjct:   245 SWNTFANLAAIYIKVGLYGKAEEALKSLENNMNPDVRDCYHFLINLYTGIANASEVYRVW 304

Query:   308 GILKSTFPPTN-TSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQK 366
              +LK  +P  N +SYL +L+AL+KL+ ID +K+ F EWES C +YDMR+A+V I +YL++
Sbjct:   305 DLLKKRYPNVNNSSYLTMLRALSKLDDIDGVKKVFAEWESTCWTYDMRMANVAISSYLKQ 364

Query:   367 DMYEEAALIXXXXXXXXXXXXXXXXSRESFMIYYLRSRQLDLALNEMEAA-LSEAKQFHW 425
             +MYEEA  +                +R+  M++ L++ Q DLAL   EAA L + K + W
Sbjct:   365 NMYEEAEAVFNGAMKKCKGQFSK--ARQLLMMHLLKNDQADLALKHFEAAVLDQDKNWTW 422

Query:   426 RPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMRQ 485
                   + +FF  FEE KDVDGAEEFCK L   + L    Y+LL+KTY+AAGK   DM++
Sbjct:   423 S--SELISSFFLHFEEAKDVDGAEEFCKTLTKWSPLSSETYTLLMKTYLAAGKACPDMKK 480

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009560 "embryo sac egg cell differentiation" evidence=RCA

TAIR|locus:2036586 AT1G60770 [Arabidopsis thaliana (taxid:3702)]

 Score = 729 (261.7 bits), Expect = 4.1e-72, P = 4.1e-72
 Identities = 172/449 (38%), Positives = 246/449 (54%)

Query:    43 EDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWM 102
             E+ LY RL   G T   V   LN ++   K V K  +   ++ LR  G Y  AL++ E M
Sbjct:    22 EEPLYNRLFKDGGTEVKVRQQLNQFLKGTKHVFKWEVGDTIKKLRNRGLYYPALKLSEVM 81

Query:   103 ESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTER 162
             E R M+ + +D A++LDL AK   I A E YF  L E +K   TYG+LLNCYCKEL+TE+
Sbjct:    82 EERGMNKTVSDQAIHLDLVAKAREITAGENYFVDLPETSKTELTYGSLLNCYCKELLTEK 141

Query:   163 ALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQ 222
             A  L  KM EL    +++++N+L T+Y + G+ EKV  ++ ++K  N+  D+ TY VWM+
Sbjct:   142 AEGLLNKMKELNITPSSMSYNSLMTLYTKTGETEKVPAMIQELKAENVMPDSYTYNVWMR 201

Query:   223 SYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVXXXXXXXXXXXXXXXXXMK-- 280
             + +  NDI GVERV  EM  +      WTTYSN+ASIYV                 MK  
Sbjct:   202 ALAATNDISGVERVIEEMNRDGRVAPDWTTYSNMASIYVDAGLSQKAEKALQELE-MKNT 260

Query:   281 PRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPT-NTSYLVLLQALAKLNAIDILKQ 339
              RD  AY FLI+LY     L  V R+W  L+   P T N +YL ++Q L KLN +   + 
Sbjct:   261 QRDFTAYQFLITLYGRLGKLTEVYRIWRSLRLAIPKTSNVAYLNMIQVLVKLNDLPGAET 320

Query:   340 CFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIXXXXXXXXXXXXXXXXSRESFMIY 399
              F+EW++ CS+YD+R+ +V+I AY Q+ + ++A  +                  E FM Y
Sbjct:   321 LFKEWQANCSTYDIRIVNVLIGAYAQEGLIQKANELKEKAPRRGGKLNAKTW--EIFMDY 378

Query:   400 YLRSRQLDLALNEMEAALSEAKQF--HWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKS 457
             Y++S  +  AL  M  A+S  K     W P   TV     +FE++KDV+GAE   ++LK+
Sbjct:   379 YVKSGDMARALECMSKAVSIGKGDGGKWLPSPETVRALMSYFEQKKDVNGAENLLEILKN 438

Query:   458 -LNCLDFSAYSLLIKTYIAAGKLASDMRQ 485
               + +    +  LI+TY AAGK    MR+
Sbjct:   439 GTDNIGAEIFEPLIRTYAAAGKSHPAMRR 467

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2140220 AT4G02820 "AT4G02820" [Arabidopsis thaliana (taxid:3702)]

 Score = 538 (194.4 bits), Expect = 7.2e-52, P = 7.2e-52
 Identities = 136/444 (30%), Positives = 228/444 (51%)

Query:    41 GNEDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIE 100
             G  D L  RL +L  T  S    +  +  EG +VRK  L   VR LRK  RY+HALE+ E
Sbjct:    58 GGRDTLGGRLLSLVYTKRSAVVTIRKWKEEGHSVRKYELNRIVRELRKIKRYKHALEICE 117

Query:   101 WMESRK-MHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELM 159
             WM  ++ +     D+AV+LDL +K  G+ +AEK+F  + +  +      +LL+ Y +  +
Sbjct:   118 WMVVQEDIKLQAGDYAVHLDLISKIRGLNSAEKFFEDMPDQMRGHAACTSLLHSYVQNKL 177

Query:   160 TERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIV 219
             +++A ALFEKM E  FL + + +N++ +MY+  GQ EKV  L+ ++K R  S D +TY +
Sbjct:   178 SDKAEALFEKMGECGFLKSCLPYNHMLSMYISRGQFEKVPVLIKELKIRT-SPDIVTYNL 236

Query:   220 WMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVXXXXXXXXXXXXXXXXXM 279
             W+ +++  ND++G E+V+ +   E  +   W TYS L ++Y                  +
Sbjct:   237 WLTAFASGNDVEGAEKVYLKAKEEKLNP-DWVTYSVLTNLYAKTDNVEKARLALKEMEKL 295

Query:   280 -KPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTS-YLVLLQALAKLNAIDIL 337
                ++R AY  LISL+ N  + D VN  W  +KS+F   N + YL ++ A+ KL   +  
Sbjct:   296 VSKKNRVAYASLISLHANLGDKDGVNLTWKKVKSSFKKMNDAEYLSMISAVVKLGEFEQA 355

Query:   338 KQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIXXXXXXXXXXXXXXXXSRESFM 397
             K  ++EWES   + D R+ ++I+  Y+ +D   E  L                 S    +
Sbjct:   356 KGLYDEWESVSGTGDARIPNLILAEYMNRD---EVLLGEKFYERIVEKGINPSYSTWEIL 412

Query:   398 IY-YLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLK 456
              + YL+ + ++  L+    A+   K+  W      V    +  EE+ +V GAE+   +L+
Sbjct:   413 TWAYLKRKDMEKVLDCFGKAIDSVKK--WTVNVRLVKGACKELEEQGNVKGAEKLMTLLQ 470

Query:   457 SLNCLDFSAYSLLIKTYIAAGKLA 480
                 ++   Y+ L++TY  AG++A
Sbjct:   471 KAGYVNTQLYNSLLRTYAKAGEMA 494

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

GO:0006606 "protein import into nucleus" evidence=RCA

GO:0009560 "embryo sac egg cell differentiation" evidence=RCA

TAIR|locus:2204793 AT1G02150 [Arabidopsis thaliana (taxid:3702)]

 Score = 537 (194.1 bits), Expect = 9.2e-52, P = 9.2e-52
 Identities = 131/429 (30%), Positives = 214/429 (49%)

Query:    46 LYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESR 105
             +YK++S +          LN +   G+ + K  L   V+ LRK+ R   ALEV +WM +R
Sbjct:    69 IYKKISLMEKPELGAASVLNQWEKAGRKLTKWELCRVVKELRKYKRANQALEVYDWMNNR 128

Query:   106 KMHF--SYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERA 163
                F  S +D A+ LDL  K  GI  AE++F  L E  K+R  YG+LLN Y +    E+A
Sbjct:   129 GERFRLSASDAAIQLDLIGKVRGIPDAEEFFLQLPENFKDRRVYGSLLNAYVRAKSREKA 188

Query:   164 LALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQS 223
              AL   M +  +  + + FN + T+Y+ L + +KV  +V +MKQ++I LD  +Y +W+ S
Sbjct:   189 EALLNTMRDKGYALHPLPFNVMMTLYMNLREYDKVDAMVFEMKQKDIRLDIYSYNIWLSS 248

Query:   224 YSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVXXXXXXXXXXXXXXXXX-MKPR 282
                L  ++ +E V+ +M ++      WTT+S +A++Y+                  +  R
Sbjct:   249 CGSLGSVEKMELVYQQMKSDVSIYPNWTTFSTMATMYIKMGETEKAEDALRKVEARITGR 308

Query:   283 DRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPT-NTSYLVLLQALAKLNAIDILKQCF 341
             +R  YH+L+SLY +  N   + RVW + KS  P   N  Y  L+ +L ++  I+  ++ +
Sbjct:   309 NRIPYHYLLSLYGSLGNKKELYRVWHVYKSVVPSIPNLGYHALVSSLVRMGDIEGAEKVY 368

Query:   342 EEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIXXXXXXXXXXXXXXXXSRESFMIYYL 401
             EEW    SSYD R+ ++++ AY++ D  E A  +                  E   + + 
Sbjct:   369 EEWLPVKSSYDPRIPNLLMNAYVKNDQLETAEGLFDHMVEMGGKPSSSTW--EILAVGHT 426

Query:   402 RSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL 461
             R R +  AL  +  A S     +WRP  + +  FF+  EEE DV   E   ++L+    L
Sbjct:   427 RKRCISEALTCLRNAFSAEGSSNWRPKVLMLSGFFKLCEEESDVTSKEAVLELLRQSGDL 486

Query:   462 DFSAYSLLI 470
             +  +Y  LI
Sbjct:   487 EDKSYLALI 495

GO:0005739 "mitochondrion" evidence=ISM

GO:0009507 "chloroplast" evidence=IDA

GO:0006364 "rRNA processing" evidence=RCA

GO:0006399 "tRNA metabolic process" evidence=RCA

GO:0009658 "chloroplast organization" evidence=RCA

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

GO:0045036 "protein targeting to chloroplast" evidence=RCA

TAIR|locus:504955535 AT4G21705 "AT4G21705" [Arabidopsis thaliana (taxid:3702)]

 Score = 528 (190.9 bits), Expect = 8.3e-51, P = 8.3e-51
 Identities = 134/438 (30%), Positives = 211/438 (48%)

Query:    46 LYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWM-ES 104
             LY ++S LG    SV   L  ++  GK V    L   V  LR+  R+ HALEV +WM E+
Sbjct:    27 LYSKISPLGDPKSSVYPELQNWVQCGKKVSVAELIRIVHDLRRRKRFLHALEVSKWMNET 86

Query:   105 RKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERAL 164
                 FS T+ AV+LDL  +  G   AE+YF  L E  KN  TYGALLNCY ++   E++L
Sbjct:    87 GVCVFSPTEHAVHLDLIGRVYGFVTAEEYFENLKEQYKNDKTYGALLNCYVRQQNVEKSL 146

Query:   165 ALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSY 224
               FEKM E+ F+ +++ +NN+  +Y  +GQ EKV  ++ +MK+ N++ DN +Y + + ++
Sbjct:   147 LHFEKMKEMGFVTSSLTYNNIMCLYTNIGQHEKVPKVLEEMKEENVAPDNYSYRICINAF 206

Query:   225 SHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVXXXX-XXXXXXXXXXXXXMKPRD 283
               + D++ +     +M    +    W TY+  A  Y+                  ++ +D
Sbjct:   207 GAMYDLERIGGTLRDMERRQDITMDWNTYAVAAKFYIDGGDCDRAVELLKMSENRLEKKD 266

Query:   284 RKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPT-NTSYLVLLQALAKLNAIDILKQCFE 342
              + Y+ LI+LY        V R+W + K       N  YL +LQ+L K++A+   ++   
Sbjct:   267 GEGYNHLITLYARLGKKIEVLRLWDLEKDVCKRRINQDYLTVLQSLVKIDALVEAEEVLT 326

Query:   343 EWESRCSSYDMRLADVIIRAYLQKDMYEEAALIXXXXXXXXXXXXXXXXSRESFMIYYLR 402
             EW+S  + YD R+ + +IR Y+ K M E+A  +                S E     Y  
Sbjct:   327 EWKSSGNCYDFRVPNTVIRGYIGKSMEEKAEAMLEDLARRGKATTPE--SWELVATAYAE 384

Query:   403 SRQLDLALNEMEAALS-EAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL 461
                L+ A   M+ AL  E     WRP    V +   +  +E  +   E F   L+  NC+
Sbjct:   385 KGTLENAFKCMKTALGVEVGSRKWRPGLTLVTSVLSWVGDEGSLKEVESFVASLR--NCI 442

Query:   462 DFSA--YSLLIKTYIAAG 477
               +   Y  L+K  I  G
Sbjct:   443 GVNKQMYHALVKADIREG 460

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2051379 AT2G20710 [Arabidopsis thaliana (taxid:3702)]

 Score = 522 (188.8 bits), Expect = 3.6e-50, P = 3.6e-50
 Identities = 125/446 (28%), Positives = 222/446 (49%)

Query:    36 TPFPTGNEDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHA 95
             TP P    D L +R++  G    S+   L+ ++ +G  V+   L   ++ LRKF R+ HA
Sbjct:    30 TPSPLDPYDTLQRRVARSGDPSASIIKVLDGWLDQGNLVKTSELHSIIKMLRKFSRFSHA 89

Query:    96 LEVIEWMESRKMH-FSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCY 154
             L++ +WM   ++H  S  D A+ LDL AK  G+  AEK+F  +    +N + YGALLNCY
Sbjct:    90 LQISDWMSEHRVHEISEGDVAIRLDLIAKVGGLGEAEKFFETIPMERRNYHLYGALLNCY 149

Query:   155 CKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDN 214
               + +  +A  +F++M EL FL   + +N +  +Y+R G+   V  L+ +M+   +  D 
Sbjct:   150 ASKKVLHKAEQVFQEMKELGFLKGCLPYNVMLNLYVRTGKYTMVEKLLREMEDETVKPDI 209

Query:   215 LTYIVWMQSYSHLNDIDGVERVFYEMCNECED-KCRWTTYSNLASIYVXXXXXXXXXXXX 273
              T    + +YS ++D++G+E+ F   C   +     W TY++ A+ Y+            
Sbjct:   210 FTVNTRLHAYSVVSDVEGMEK-FLMRCEADQGLHLDWRTYADTANGYIKAGLTEKALEML 268

Query:   274 XXXXXM-KPRDRK-AYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKL 331
                  M   + RK AY  L+S Y      + V R+W + K      NT Y+ ++ AL K+
Sbjct:   269 RKSEQMVNAQKRKHAYEVLMSFYGAAGKKEEVYRLWSLYKELDGFYNTGYISVISALLKM 328

Query:   332 NAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIXXXXXXXXXXXXXXXX 391
             + I+ +++  EEWE+  S +D+R+  ++I  Y +K M E+A  +                
Sbjct:   329 DDIEEVEKIMEEWEAGHSLFDIRIPHLLITGYCKKGMMEKAEEVVNILVQKWRVEDTSTW 388

Query:   392 SRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEF 451
              R    + Y  + +++ A+ + + A+  +K   WRP QV + +   + E ++D++G    
Sbjct:   389 ER--LALGYKMAGKMEKAVEKWKRAIEVSKP-GWRPHQVVLMSCVDYLEGQRDMEGLR-- 443

Query:   452 CKVLKSLNCLDFSAYSLLIKTYIAAG 477
              K+L+ L+     +Y  L+     AG
Sbjct:   444 -KILRLLSERGHISYDQLLYDMNGAG 468

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009560 "embryo sac egg cell differentiation" evidence=RCA

TAIR|locus:2146390 AT5G27460 "AT5G27460" [Arabidopsis thaliana (taxid:3702)]

 Score = 478 (173.3 bits), Expect = 1.6e-45, P = 1.6e-45
 Identities = 123/432 (28%), Positives = 209/432 (48%)

Query:    59 SVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRK-MHFSYTDFAVY 117
             SVT  L   I  G  V    L    + L +  RY  AL+++EWME++K + FS  D A+ 
Sbjct:    53 SVTSLLQERIDSGHAVSLSELRLISKRLIRSNRYDLALQMMEWMENQKDIEFSVYDIALR 112

Query:   118 LDLTAKTNGIAAAEKYFNGLSEYAKN----RYTYGALLNCYCKELMTERALALFEKMDEL 173
             LDL  KT+G+   E+YF  L   + +    +  Y  LL  Y K  M + A AL EK++ L
Sbjct:   113 LDLIIKTHGLKQGEEYFEKLLHSSVSMRVAKSAYLPLLRAYVKNKMVKEAEALMEKLNGL 172

Query:   174 KFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGV 233
              FL     FN +  +Y   GQ EKV  +V+ MK   I  + L+Y +WM +   ++ +  V
Sbjct:   173 GFLVTPHPFNEMMKLYEASGQYEKVVMVVSMMKGNKIPRNVLSYNLWMNACCEVSGVAAV 232

Query:   234 ERVFYEMCNECEDKCRWTTYSNLASIYVXXXXXXXXXXXXXXXXXMKPR-DRKAYHFLIS 292
             E V+ EM  +   +  W++   LA++Y+                 M  R +R  Y FLI+
Sbjct:   233 ETVYKEMVGDKSVEVGWSSLCTLANVYIKSGFDEKARLVLEDAEKMLNRSNRLGYFFLIT 292

Query:   293 LYCNTSNLDAVNRVWGILKSTFPPTN-TSYLVLLQALAKLNAIDILKQCFEEWESRCSSY 351
             LY +  N + V R+W + KS     +  +Y+ +L +L K   ++  ++ F EWE++C +Y
Sbjct:   293 LYASLGNKEGVVRLWEVSKSVCGRISCVNYICVLSSLVKTGDLEEAERVFSEWEAQCFNY 352

Query:   352 DMRLADVIIRAYLQKDMYEEAALIXXXXXXXXXXXXXXXXSRESFMIYYLRSRQLDLALN 411
             D+R+++V++ AY++     +A  +                  E  M  +++   ++ A++
Sbjct:   353 DVRVSNVLLGAYVRNGEIRKAESLHGCVLERGGTPNYKTW--EILMEGWVKCENMEKAID 410

Query:   412 EMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIK 471
              M       ++ HWRP    V     +FE+E+ ++ A  + + L  L       Y LL++
Sbjct:   411 AMHQVFVLMRRCHWRPSHNIVMAIAEYFEKEEKIEEATAYVRDLHRLGLASLPLYRLLLR 470

Query:   472 TYIAAGKLASDM 483
              +  A + A D+
Sbjct:   471 MHEHAKRPAYDI 482

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2184807 AT5G09450 "AT5G09450" [Arabidopsis thaliana (taxid:3702)]

 Score = 402 (146.6 bits), Expect = 1.9e-37, P = 1.9e-37
 Identities = 99/329 (30%), Positives = 165/329 (50%)

Query:    43 EDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWM 102
             +D L  R+  L     S T  L  +I EG  +  + L    + LR+  RY+HALEV EWM
Sbjct:    54 KDDLKSRIFRLRLPKRSATTVLEKWIGEGNQMTINELREISKELRRTRRYKHALEVTEWM 113

Query:   103 -ESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTE 161
              +  +   S  D+A  +DL +K  GI AAE+YF GL   +K   TY +LL+ Y     TE
Sbjct:   114 VQHEESKISDADYASRIDLISKVFGIDAAERYFEGLDIDSKTAETYTSLLHAYAASKQTE 173

Query:   162 RALALFEKM---DELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYI 218
             RA ALF+++   D L F    + +N + T+Y+ +GQ EKV  ++  +KQ+ +S D  TY 
Sbjct:   174 RAEALFKRIIESDSLTF--GAITYNEMMTLYMSVGQVEKVPEVIEVLKQKKVSPDIFTYN 231

Query:   219 VWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVXXXXXXXXXXXX--XXX 276
             +W+ S +   +ID + ++  EM ++      W  Y +L SIY+                 
Sbjct:   232 LWLSSCAATFNIDELRKILEEMRHDASSNEGWVRYIDLTSIYINSSRVTNAESTLPVEAE 291

Query:   277 XXMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNT-SYLVLLQALAKLNAID 335
               +  R+   Y FL+ L+    N   ++++W  L++T    ++ SY+ +L +   L  + 
Sbjct:   292 KSISQREWITYDFLMILHTGLGNKVMIDQIWKSLRNTNQILSSRSYICVLSSYLMLGHLR 351

Query:   336 ILKQCFEEW-ESRCSSYDMRLADVIIRAY 363
               ++   +W ES+ + +D      I+ A+
Sbjct:   352 EAEEIIHQWKESKTTEFDASACLRILNAF 380

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2074668 AT3G11380 "AT3G11380" [Arabidopsis thaliana (taxid:3702)]

 Score = 244 (91.0 bits), Expect = 2.4e-25, Sum P(2) = 2.4e-25
 Identities = 59/204 (28%), Positives = 105/204 (51%)

Query:    39 PTGNEDKLYKRLSALGATGGSVTGALNAYIME----GKTVRKDMLEYCVRSLRKFGRYRH 94
             P  N+  L  R+ A       +T  L  ++ +    GK +   +L   V  LR   R R 
Sbjct:    35 PATNQT-LQSRIEAASHQKAEITTVLEQWLQQQQQQGKQLNPSLLRGIVEKLRSSNRPRQ 93

Query:    95 ALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCY 154
             ALEV +WM  +KM+    DF+    LT K   +  AEK+F  + E  +    Y +LL  Y
Sbjct:    94 ALEVSDWMVEQKMYNLPEDFSARFHLTEKVLNLEEAEKFFESIPENMRFESMYNSLLRSY 153

Query:   155 CK---ELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNIS 211
              +   E   ++A ++F+KM +L  L     +N+++++Y  LG  +KV  ++ +MK+ N+ 
Sbjct:   154 ARQSGEKALKKAESVFKKMKKLGLLLRPSPYNSMTSLYSSLGNRDKVDEILREMKENNVE 213

Query:   212 LDNLTYIVWMQSYSHLNDIDGVER 235
             LDN+T    ++ Y+ ++D+  +++
Sbjct:   214 LDNVTVNNALRVYAAVSDVATMDK 237

GO:0003674 "molecular_function" evidence=ND

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)
Q9FZ24	PPR4_ARATH	No assigned EC number	0.4926	0.9649	0.8715	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: GSVIVG00028131001 SubName- Full=Chromosome chr7 scaffold_42, whole genome shotgun sequence; (472 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	485
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-04
pfam01535	31	pfam01535, PPR, PPR repeat	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.003

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

 Score = 38.5 bits (91), Expect = 2e-04
 Identities = 14/40 (35%), Positives = 22/40 (55%)

Query: 178 NTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTY 217
           + V +N L   Y + G+ E+   L N+MK+R I  +  TY
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTY 41

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 = 37.4 bits (88), Expect = 5e-04
 Identities = 14/44 (31%), Positives = 22/44 (50%)

Query: 142 KNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNL 185
            +  TY  L++ YCK+   E AL LF +M +     N   ++ L
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSIL 44

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

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

 Score = 35.9 bits (84), Expect = 0.001
 Identities = 13/31 (41%), Positives = 18/31 (58%)

Query: 145 YTYGALLNCYCKELMTERALALFEKMDELKF 175
            TY +L++ YCK    E AL LF++M E   
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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 35.1 bits (82), Expect = 0.003
 Identities = 12/35 (34%), Positives = 17/35 (48%)

Query: 145 YTYGALLNCYCKELMTERALALFEKMDELKFLGNT 179
            TY  L++  CK    E AL LF++M E     + 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	485
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
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
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
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.96
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.96
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.94
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.94
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.94
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.94
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.93
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.93
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.93
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.92
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.92
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.91
PRK14574	822	hmsH outer membrane protein; Provisional	99.89
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.89
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.86
PRK14574	822	hmsH outer membrane protein; Provisional	99.85
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.84
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.84
KOG2003	840	consensus TPR repeat-containing protein [General f	99.82
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.81
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.78
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.78
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.78
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.77
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.77
KOG1126	638	consensus DNA-binding cell division cycle control	99.76
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.75
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.75
KOG2076	895	consensus RNA polymerase III transcription factor	99.75
KOG2003	840	consensus TPR repeat-containing protein [General f	99.74
KOG1126	638	consensus DNA-binding cell division cycle control	99.74
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.74
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.74
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.74
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.74
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.73
KOG2076	895	consensus RNA polymerase III transcription factor	99.73
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.71
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.7
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.68
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.68
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.68
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.67
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.62
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.61
PRK12370	553	invasion protein regulator; Provisional	99.57
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.57
KOG1129	478	consensus TPR repeat-containing protein [General f	99.56
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.56
PRK12370	553	invasion protein regulator; Provisional	99.55
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.55
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.55
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.55
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.54
KOG1129	478	consensus TPR repeat-containing protein [General f	99.54
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.54
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.53
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.51
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.49
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.48
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.48
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.46
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.44
PRK11189	296	lipoprotein NlpI; Provisional	99.44
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.44
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.43
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.43
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.42
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.4
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.39
PF13041	50	PPR_2: PPR repeat family	99.39
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.38
PF13041	50	PPR_2: PPR repeat family	99.36
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.36
PRK11189	296	lipoprotein NlpI; Provisional	99.35
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.34
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.33
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.32
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.31
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.3
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.28
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.28
KOG1125	579	consensus TPR repeat-containing protein [General f	99.23
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.22
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.21
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.2
PRK04841	903	transcriptional regulator MalT; Provisional	99.17
KOG1125	579	consensus TPR repeat-containing protein [General f	99.14
PLN02789	320	farnesyltranstransferase	99.11
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.11
PRK04841	903	transcriptional regulator MalT; Provisional	99.11
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.1
PLN02789	320	farnesyltranstransferase	99.09
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.02
PRK15359	144	type III secretion system chaperone protein SscB;	98.99
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.99
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.98
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.98
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.97
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.97
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.97
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.97
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.96
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.96
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.95
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.95
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.93
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.92
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.92
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.92
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.92
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.91
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.9
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.88
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.86
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.86
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.83
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.81
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.8
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.8
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.76
PRK15359	144	type III secretion system chaperone protein SscB;	98.75
PF12854	34	PPR_1: PPR repeat	98.7
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.68
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.68
PF12854	34	PPR_1: PPR repeat	98.65
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.64
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.62
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.6
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.59
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.49
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.41
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.4
KOG0553	304	consensus TPR repeat-containing protein [General f	98.38
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.35
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.28
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.28
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.26
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.25
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.22
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.18
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.17
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.16
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.16
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.15
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.15
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.15
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.14
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.12
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.11
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.1
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.09
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.09
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.06
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.04
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.04
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.04
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	98.0
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.99
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.99
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.98
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.98
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.98
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.94
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.93
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.92
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.9
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.9
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.89
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.89
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.89
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.89
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.88
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.87
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.86
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.86
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.85
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.85
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.82
PRK10803	263	tol-pal system protein YbgF; Provisional	97.82
KOG0553	304	consensus TPR repeat-containing protein [General f	97.81
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.79
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.79
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.79
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.77
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.73
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.7
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.68
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.68
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.65
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.6
PF12688	120	TPR_5: Tetratrico peptide repeat	97.6
PF12688	120	TPR_5: Tetratrico peptide repeat	97.59
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.56
PF13371	73	TPR_9: Tetratricopeptide repeat	97.55
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.5
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.5
PRK10803	263	tol-pal system protein YbgF; Provisional	97.5
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.49
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.45
PF13431	34	TPR_17: Tetratricopeptide repeat	97.43
COG4105	254	ComL DNA uptake lipoprotein [General function pred	97.4
PF13428	44	TPR_14: Tetratricopeptide repeat	97.35
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.3
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.27
PF13371	73	TPR_9: Tetratricopeptide repeat	97.26
PRK15331	165	chaperone protein SicA; Provisional	97.26
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.18
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.15
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.14
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.13
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.11
PRK15331	165	chaperone protein SicA; Provisional	97.08
COG0457	291	NrfG FOG: TPR repeat [General function prediction	97.05
KOG1258	577	consensus mRNA processing protein [RNA processing	97.03
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.92
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.91
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.88
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.85
PF13512	142	TPR_18: Tetratricopeptide repeat	96.83
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.8
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.77
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.77
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.77
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.76
KOG1585	308	consensus Protein required for fusion of vesicles	96.73
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.72
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.72
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.72
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.7
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.69
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	96.62
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.6
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	96.59
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.59
KOG1585	308	consensus Protein required for fusion of vesicles	96.58
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.57
PRK11906	458	transcriptional regulator; Provisional	96.56
KOG3941	406	consensus Intermediate in Toll signal transduction	96.54
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.53
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.52
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.52
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.47
PRK11906	458	transcriptional regulator; Provisional	96.44
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	96.44
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.43
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	96.42
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.41
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.35
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.34
KOG4555	175	consensus TPR repeat-containing protein [Function	96.25
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.23
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.19
KOG4555	175	consensus TPR repeat-containing protein [Function	96.19
PF13428	44	TPR_14: Tetratricopeptide repeat	96.1
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.1
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.09
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.84
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.83
PF13512	142	TPR_18: Tetratricopeptide repeat	95.71
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.68
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.65
KOG4234	271	consensus TPR repeat-containing protein [General f	95.58
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.39
KOG1258	577	consensus mRNA processing protein [RNA processing	95.39
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.38
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.25
KOG3941	406	consensus Intermediate in Toll signal transduction	95.15
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	95.12
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	95.09
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.07
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.05
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	95.05
KOG4234	271	consensus TPR repeat-containing protein [General f	94.91
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.85
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.83
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.8
KOG4648	536	consensus Uncharacterized conserved protein, conta	94.73
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.47
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.36
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.3
PF13431	34	TPR_17: Tetratricopeptide repeat	94.23
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	94.1
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.02
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.0
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	93.99
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	93.72
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.53
KOG1550	552	consensus Extracellular protein SEL-1 and related	93.52
COG1747	711	Uncharacterized N-terminal domain of the transcrip	93.4
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.34
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	93.21
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	93.12
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	93.11
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	93.05
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.91
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	92.84
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.7
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	92.62
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	92.55
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	92.5
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	92.44
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	92.14
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	92.03
PRK11619	644	lytic murein transglycosylase; Provisional	92.03
PRK11619	644	lytic murein transglycosylase; Provisional	91.8
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.5
KOG4648	536	consensus Uncharacterized conserved protein, conta	91.42
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	91.34
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	91.24
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	91.2
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	91.19
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	91.16
COG1747	711	Uncharacterized N-terminal domain of the transcrip	91.12
KOG1586	288	consensus Protein required for fusion of vesicles	91.07
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	91.05
KOG4570	418	consensus Uncharacterized conserved protein [Funct	90.95
KOG2471	696	consensus TPR repeat-containing protein [General f	90.74
COG3947	361	Response regulator containing CheY-like receiver a	90.5
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	89.91
KOG4570	418	consensus Uncharacterized conserved protein [Funct	89.89
KOG1550	552	consensus Extracellular protein SEL-1 and related	89.69
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	89.49
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	89.33
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	89.29
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	89.05
KOG1586	288	consensus Protein required for fusion of vesicles	88.9
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	88.9
KOG4507	886	consensus Uncharacterized conserved protein, conta	88.87
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	88.85
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	88.56
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	88.29
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	88.15
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	87.76
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	87.69
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	87.59
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	87.51
KOG4507	886	consensus Uncharacterized conserved protein, conta	87.32
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	87.11
COG4455	273	ImpE Protein of avirulence locus involved in tempe	86.9
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	86.88
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	86.67
COG3947	361	Response regulator containing CheY-like receiver a	86.17
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	86.13
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	86.06
KOG0403	645	consensus Neoplastic transformation suppressor Pdc	85.8
smart00386	33	HAT HAT (Half-A-TPR) repeats. Present in several R	85.35
PRK10941	269	hypothetical protein; Provisional	85.05
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	84.82
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	84.73
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	84.26
PF09477	116	Type_III_YscG: Bacterial type II secretion system	84.0
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	83.98
PF13929	292	mRNA_stabil: mRNA stabilisation	83.74
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	83.45
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	83.2
PRK10941	269	hypothetical protein; Provisional	83.04
PF13929	292	mRNA_stabil: mRNA stabilisation	82.98
KOG0686	466	consensus COP9 signalosome, subunit CSN1 [Posttran	82.77
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	81.59
COG4455	273	ImpE Protein of avirulence locus involved in tempe	81.47

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.3e-62  Score=488.30  Aligned_cols=465  Identities=13%  Similarity=0.097  Sum_probs=405.0

Q ss_pred             hhhhhhHHhhhcCCCCccccccCCCCCCCCC-CCchhHH-HHHHhhcCCCCcHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Q 048394           10 ISTGSYLVRQLCSTPTETVSQRIAAPTPFPT-GNEDKLY-KRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLR   87 (485)
Q Consensus        10 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~-~~l~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~   87 (485)
                      ...+..+...++..+....+...+..++..+ .++..++ ..+.+.....+.+.+++..+.... .|+..+|+.++.+|+
T Consensus       370 ~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~-~pd~~Tyn~LL~a~~  448 (1060)
T PLN03218        370 SPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIR-NPTLSTFNMLMSVCA  448 (1060)
T ss_pred             chHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcC-CCCHHHHHHHHHHHH
Confidence            3445566777778888888888888887766 3344433 334444444566666665554433 389999999999999


Q ss_pred             HcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc--cCCCHhHHHHHHHHHHhcCcHHHHHH
Q 048394           88 KFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE--YAKNRYTYGALLNCYCKELMTERALA  165 (485)
Q Consensus        88 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~A~~  165 (485)
                      +.|+++.|.++|+.|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+  ..||..+|+.+|.+|++.|++++|.+
T Consensus       449 k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~  528 (1060)
T PLN03218        449 SSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFG  528 (1060)
T ss_pred             hCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHH
Confidence            9999999999999999999999999999999999999999999999999987  67899999999999999999999999


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHH--cCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhc
Q 048394          166 LFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQ--RNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNE  243 (485)
Q Consensus       166 ~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  243 (485)
                      +|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|..  .|+.||..+|+.++.+|++.|++++|.++|+.|.+ 
T Consensus       529 lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e-  607 (1060)
T PLN03218        529 AYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHE-  607 (1060)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-
Confidence            999999999999999999999999999999999999999976  57899999999999999999999999999999998 


Q ss_pred             cCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHh-cCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC-ChhhH
Q 048394          244 CEDKCRWTTYSNLASIYVKAELFEKAELALKKLEE-MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-TNTSY  321 (485)
Q Consensus       244 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~  321 (485)
                      .+..|+..+|+.++.+|++.|++++|.++|++|.+ +..||..+|+.++.+|++.|++++|.++++.|.+.+.. +..+|
T Consensus       608 ~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~ty  687 (1060)
T PLN03218        608 YNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSY  687 (1060)
T ss_pred             cCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHH
Confidence            78899999999999999999999999999999998 66779999999999999999999999999999998887 99999


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHH
Q 048394          322 LVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYL  401 (485)
Q Consensus       322 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~  401 (485)
                      +.++.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+.|+  .||..+|+.++.+|+
T Consensus       688 nsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi--~Pd~~Ty~sLL~a~~  765 (1060)
T PLN03218        688 SSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGL--CPNTITYSILLVASE  765 (1060)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999  999999999999999


Q ss_pred             hcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhh----c-------------------CChhhHHHHHHHHhhc
Q 048394          402 RSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEE----E-------------------KDVDGAEEFCKVLKSL  458 (485)
Q Consensus       402 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~-------------------~~~~~A~~~~~~~~~~  458 (485)
                      +.|++++|.+++++|.+.|    +.||..+|+.++..|.+    .                   +..+.|..+|++|.+.
T Consensus       766 k~G~le~A~~l~~~M~k~G----i~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~  841 (1060)
T PLN03218        766 RKDDADVGLDLLSQAKEDG----IKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISA  841 (1060)
T ss_pred             HCCCHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHC
Confidence            9999999999999999988    88999999998876532    1                   1235788999999987


Q ss_pred             C-CCCHHHHHHHHHHHHHhCCCcch
Q 048394          459 N-CLDFSAYSLLIKTYIAAGKLASD  482 (485)
Q Consensus       459 ~-~~~~~~~~~l~~~~~~~g~~~~A  482 (485)
                      + .||..+|..++.++++.+..+.+
T Consensus       842 Gi~Pd~~T~~~vL~cl~~~~~~~~~  866 (1060)
T PLN03218        842 GTLPTMEVLSQVLGCLQLPHDATLR  866 (1060)
T ss_pred             CCCCCHHHHHHHHHHhcccccHHHH
Confidence            7 46889999998877776665543

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=7.4e-61  Score=478.63  Aligned_cols=453  Identities=15%  Similarity=0.115  Sum_probs=412.9

Q ss_pred             hhHHhhhcCCCCccccccCCCCCCCCC-CCchhHHHHHHhhcCCCCcHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCh
Q 048394           14 SYLVRQLCSTPTETVSQRIAAPTPFPT-GNEDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRY   92 (485)
Q Consensus        14 ~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~~~~~   92 (485)
                      ..++..++..+....+...+..++.+. .++..++..+.+.+. ......+++.|.+.|..||..+|+.++.+|++.|++
T Consensus       410 ~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~a~~k~g~-~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~v  488 (1060)
T PLN03218        410 AKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMSVCASSQD-IDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKV  488 (1060)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHhCcC-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCH
Confidence            345555666666777776666666543 455555566555433 556677788899999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc--cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHH
Q 048394           93 RHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE--YAKNRYTYGALLNCYCKELMTERALALFEKM  170 (485)
Q Consensus        93 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m  170 (485)
                      +.|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|+.|.+  ..||..+|+.||.+|++.|++++|.++|++|
T Consensus       489 d~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM  568 (1060)
T PLN03218        489 DAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEM  568 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999987  8899999999999999999999999999999


Q ss_pred             Hh--CCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCC
Q 048394          171 DE--LKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKC  248 (485)
Q Consensus       171 ~~--~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  248 (485)
                      ..  .|+.||..+|+.++.+|++.|++++|.++|++|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+ .+..|
T Consensus       569 ~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~-~Gv~P  647 (1060)
T PLN03218        569 KAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKK-KGVKP  647 (1060)
T ss_pred             HHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHH-cCCCC
Confidence            76  6789999999999999999999999999999999999999999999999999999999999999999999 89999


Q ss_pred             cHHHHHHHHHHHHhcccHHHHHHHHHHHHh-cCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC-ChhhHHHHHH
Q 048394          249 RWTTYSNLASIYVKAELFEKAELALKKLEE-MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-TNTSYLVLLQ  326 (485)
Q Consensus       249 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~l~~  326 (485)
                      |..+|+.++.+|++.|++++|.++++.|.+ +.+|+..+|+.++.+|++.|++++|.++|++|...+.. +..+|+.+|.
T Consensus       648 D~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~  727 (1060)
T PLN03218        648 DEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALIT  727 (1060)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            999999999999999999999999999999 66789999999999999999999999999999988777 9999999999


Q ss_pred             HHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHh----
Q 048394          327 ALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLR----  402 (485)
Q Consensus       327 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----  402 (485)
                      +|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|.+|.+.|+  .||..+|+.++..|.+    
T Consensus       728 gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi--~pd~~tynsLIglc~~~y~k  805 (1060)
T PLN03218        728 ALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGI--KPNLVMCRCITGLCLRRFEK  805 (1060)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999  9999999999876432    


Q ss_pred             c-------------------ccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhc-CCCC
Q 048394          403 S-------------------RQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSL-NCLD  462 (485)
Q Consensus       403 ~-------------------g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~  462 (485)
                      .                   +..+.|+.+|++|.+.|    +.||..||..++.++.+.+....+..+++.+... .+++
T Consensus       806 a~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~G----i~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~  881 (1060)
T PLN03218        806 ACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAG----TLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQK  881 (1060)
T ss_pred             HhhhhhhhhhhhccccccccchHHHHHHHHHHHHHCC----CCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcc
Confidence            1                   23467999999999999    9999999999998888889999999999887654 3568


Q ss_pred             HHHHHHHHHHHH
Q 048394          463 FSAYSLLIKTYI  474 (485)
Q Consensus       463 ~~~~~~l~~~~~  474 (485)
                      ..+|+.|+.++.
T Consensus       882 ~~~y~~Li~g~~  893 (1060)
T PLN03218        882 QSNLSTLVDGFG  893 (1060)
T ss_pred             hhhhHHHHHhhc
Confidence            999999999984

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=7.1e-60  Score=480.22  Aligned_cols=458  Identities=12%  Similarity=0.076  Sum_probs=405.7

Q ss_pred             hhhhhhHHhhhcCCCCccccccCCCCCCCCC-CCchhHHHHHHhhcCCCCcHHHHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 048394           10 ISTGSYLVRQLCSTPTETVSQRIAAPTPFPT-GNEDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRK   88 (485)
Q Consensus        10 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~   88 (485)
                      ..+++.++..++..+..+.+...+..++.+. .+|+.++..+.+.+. ......++++|.+.|+.||..+|+.++.+|++
T Consensus       222 ~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~-~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~  300 (857)
T PLN03077        222 VDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGE-CLEGLELFFTMRELSVDPDLMTITSVISACEL  300 (857)
T ss_pred             cchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCC-HHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Confidence            3456788999999999999999999998876 778888888887655 56677788999999999999999999999999


Q ss_pred             cCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHH
Q 048394           89 FGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFE  168 (485)
Q Consensus        89 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~  168 (485)
                      .|+.+.|.+++..|.+.|+.||..+|+.++.+|++.|++++|.++|++|..  ||..+||++|.+|++.|++++|+++|+
T Consensus       301 ~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~--~d~~s~n~li~~~~~~g~~~~A~~lf~  378 (857)
T PLN03077        301 LGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET--KDAVSWTAMISGYEKNGLPDKALETYA  378 (857)
T ss_pred             cCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC--CCeeeHHHHHHHHHhCCCHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999986  899999999999999999999999999


Q ss_pred             HHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCC
Q 048394          169 KMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKC  248 (485)
Q Consensus       169 ~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  248 (485)
                      +|.+.|+.||..||+.++.+|++.|++++|.++++.|.+.|+.|+..+|+.++.+|++.|++++|.++|++|.+     +
T Consensus       379 ~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~-----~  453 (857)
T PLN03077        379 LMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE-----K  453 (857)
T ss_pred             HHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC-----C
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999865     4


Q ss_pred             cHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcC--------------
Q 048394          249 RWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTF--------------  314 (485)
Q Consensus       249 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------------  314 (485)
                      |..+|+.++.+|++.|+.++|..+|++|.....||..+|+.++.+|++.|+.+.+.+++..+.+.+              
T Consensus       454 d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~  533 (857)
T PLN03077        454 DVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDL  533 (857)
T ss_pred             CeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHH
Confidence            667888899999999999999999998887666777777766655555554444444444443333              


Q ss_pred             -----------------CCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHH
Q 048394          315 -----------------PPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFN  377 (485)
Q Consensus       315 -----------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  377 (485)
                                       .+|..+|+.++.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|++++|.++|+
T Consensus       534 y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~  613 (857)
T PLN03077        534 YVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFH  613 (857)
T ss_pred             HHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHH
Confidence                             347778888888888888899999999999988899999999999999999999999999999


Q ss_pred             HHH-hcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHh
Q 048394          378 NAK-KRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLK  456 (485)
Q Consensus       378 ~~~-~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  456 (485)
                      .|. +.|+  .|+..+|+.++.+|++.|++++|.+++++|.       ..||..+|.+|+.+|...|+.+.++...+++.
T Consensus       614 ~M~~~~gi--~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~-------~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~  684 (857)
T PLN03077        614 SMEEKYSI--TPNLKHYACVVDLLGRAGKLTEAYNFINKMP-------ITPDPAVWGALLNACRIHRHVELGELAAQHIF  684 (857)
T ss_pred             HHHHHhCC--CCchHHHHHHHHHHHhCCCHHHHHHHHHHCC-------CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            988 5688  8998999999999999999999999988873       56999999999999999999999999999999


Q ss_pred             hcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          457 SLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       457 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      +..|.+...|..|+++|.+.|+|++|.+
T Consensus       685 ~l~p~~~~~y~ll~n~ya~~g~~~~a~~  712 (857)
T PLN03077        685 ELDPNSVGYYILLCNLYADAGKWDEVAR  712 (857)
T ss_pred             hhCCCCcchHHHHHHHHHHCCChHHHHH
Confidence            9999999999999999999999998864

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.9e-58  Score=469.72  Aligned_cols=458  Identities=14%  Similarity=0.126  Sum_probs=364.7

Q ss_pred             hhhhhHHhhhcCCCCccccccCCCCCCCCC-CCchhHHHHHHhhcCCCCcHHHHHHHHHHhCCCCCHHHHHHHHHHHHHc
Q 048394           11 STGSYLVRQLCSTPTETVSQRIAAPTPFPT-GNEDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKF   89 (485)
Q Consensus        11 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~~   89 (485)
                      ..++.++..++..+....+...+..++.+. .+|+.++..+.+.+. ...+..+++.|...|+.||..+|+.++++|+..
T Consensus       122 ~~~n~li~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~-~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~  200 (857)
T PLN03077        122 RLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGY-FDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGI  200 (857)
T ss_pred             hHHHHHHHHHHhCCChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCC-HHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCc
Confidence            345677888888899999999999998877 778888888877554 566777788888899999999999999999999


Q ss_pred             CChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHH
Q 048394           90 GRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEK  169 (485)
Q Consensus        90 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  169 (485)
                      +++..+.+++..|.+.|+.||..+|+.++.+|++.|+++.|.++|++|..  ||..+||++|.+|++.|++++|+++|++
T Consensus       201 ~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~--~d~~s~n~li~~~~~~g~~~eAl~lf~~  278 (857)
T PLN03077        201 PDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPR--RDCISWNAMISGYFENGECLEGLELFFT  278 (857)
T ss_pred             cchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCC--CCcchhHHHHHHHHhCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999986  8999999999999999999999999999


Q ss_pred             HHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCc
Q 048394          170 MDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCR  249 (485)
Q Consensus       170 m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  249 (485)
                      |...|+.||..||+.++.+|++.|+.+.+.+++..|.+.|+.||..+|+.++.+|++.|++++|.++|++|..     ||
T Consensus       279 M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~-----~d  353 (857)
T PLN03077        279 MRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET-----KD  353 (857)
T ss_pred             HHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC-----CC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999998864     56


Q ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHh-cCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC-ChhhHHHHHHH
Q 048394          250 WTTYSNLASIYVKAELFEKAELALKKLEE-MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-TNTSYLVLLQA  327 (485)
Q Consensus       250 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~  327 (485)
                      ..+|+.++.+|++.|++++|.++|++|.+ ...|+..+|+.++.+|++.|+++.|.++++.+.+.+.. +..+++.++.+
T Consensus       354 ~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~  433 (857)
T PLN03077        354 AVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEM  433 (857)
T ss_pred             eeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHH
Confidence            77888888888888888888888888877 55567777777777777777777777777777776666 66666666666


Q ss_pred             HHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHh--------------------------
Q 048394          328 LAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKK--------------------------  381 (485)
Q Consensus       328 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--------------------------  381 (485)
                      |++.|++++|.++|++|.+    +|..+|+.++.+|++.|+.++|..+|++|..                          
T Consensus       434 y~k~g~~~~A~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~  509 (857)
T PLN03077        434 YSKCKCIDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGK  509 (857)
T ss_pred             HHHcCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhH
Confidence            6666666666666665533    2333344444333333333333333333321                          


Q ss_pred             --------ccc----------------------------ccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCC
Q 048394          382 --------RAN----------------------------ASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHW  425 (485)
Q Consensus       382 --------~~~----------------------------~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  425 (485)
                              .|+                            ...||..+|+.+|.+|++.|+.++|+++|++|.+.|    .
T Consensus       510 ~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g----~  585 (857)
T PLN03077        510 EIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESG----V  585 (857)
T ss_pred             HHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcC----C
Confidence                    110                            003567777777777777777777777777777776    7


Q ss_pred             CccHHHHHHHHHHHhhcCChhhHHHHHHHHhh-cC-CCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          426 RPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKS-LN-CLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       426 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~-~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      .||..||+.++.+|.+.|++++|.++|+.|.+ .+ .|+..+|..++.+|++.|++++|.+
T Consensus       586 ~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~  646 (857)
T PLN03077        586 NPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYN  646 (857)
T ss_pred             CCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHH
Confidence            77777777777777777777777777777773 22 4567777777777777777777753

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

Probab=100.00  E-value=9.7e-59  Score=461.10  Aligned_cols=424  Identities=16%  Similarity=0.147  Sum_probs=356.4

Q ss_pred             CCchhHHHHHHhhcCCCCcHHHHHHHHHHh-CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 048394           41 GNEDKLYKRLSALGATGGSVTGALNAYIME-GKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLD  119 (485)
Q Consensus        41 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  119 (485)
                      ..|..++..+.+.+. ...+.++++.|... +..|+..+|+.++.+|.+.++++.|.+++..|.+.|+.||..+|+.++.
T Consensus        88 ~~~~~~i~~l~~~g~-~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~  166 (697)
T PLN03081         88 VSLCSQIEKLVACGR-HREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLL  166 (697)
T ss_pred             eeHHHHHHHHHcCCC-HHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHH
Confidence            456667666666433 45556666777665 4678999999999999999999999999999999999999999999999


Q ss_pred             HHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChh-------------------
Q 048394          120 LTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTV-------------------  180 (485)
Q Consensus       120 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~-------------------  180 (485)
                      +|++.|+++.|.++|++|.+  ||..+||.+|.+|++.|++++|+++|++|.+.|+.||..                   
T Consensus       167 ~y~k~g~~~~A~~lf~~m~~--~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~  244 (697)
T PLN03081        167 MHVKCGMLIDARRLFDEMPE--RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQ  244 (697)
T ss_pred             HHhcCCCHHHHHHHHhcCCC--CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHH
Confidence            99999999999999999986  899999999999999999999999999998777666554                   


Q ss_pred             ----------------hHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhcc
Q 048394          181 ----------------AFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNEC  244 (485)
Q Consensus       181 ----------------~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  244 (485)
                                      +|+.|+.+|++.|++++|.++|++|.    .+|..+|+.++.+|++.|++++|.++|++|.+ .
T Consensus       245 ~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~-~  319 (697)
T PLN03081        245 QLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMRD-S  319 (697)
T ss_pred             HHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHHHHHHH-c
Confidence                            45667777777788888888887774    35778888888888888888888888888877 6


Q ss_pred             CCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHh-cCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHH
Q 048394          245 EDKCRWTTYSNLASIYVKAELFEKAELALKKLEE-MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLV  323 (485)
Q Consensus       245 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  323 (485)
                      +..||..+|+.++.+|++.|++++|.+++..|.+ +.+++..+|+.++++|++.|++++|.++|++|.+   +|..+|+.
T Consensus       320 g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~---~d~~t~n~  396 (697)
T PLN03081        320 GVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR---KNLISWNA  396 (697)
T ss_pred             CCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC---CCeeeHHH
Confidence            7888888888888888888888888888888887 5567888888888888888888888888888753   37788888


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHh-cccccCCchhHHHHHHHHHHh
Q 048394          324 LLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKK-RANASARFFKSRESFMIYYLR  402 (485)
Q Consensus       324 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~~~~p~~~~~~~l~~~~~~  402 (485)
                      +|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+ .|+  .|+..+|+.++++|++
T Consensus       397 lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~--~p~~~~y~~li~~l~r  474 (697)
T PLN03081        397 LIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRI--KPRAMHYACMIELLGR  474 (697)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCC--CCCccchHhHHHHHHh
Confidence            8888888888888888888888888888888888888888888888888888888875 477  8888888888888888


Q ss_pred             cccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcch
Q 048394          403 SRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASD  482 (485)
Q Consensus       403 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  482 (485)
                      .|++++|.+++++|   +    +.|+..+|++++.+|...|+++.|..+++++.+..|.+..+|..|+++|++.|++++|
T Consensus       475 ~G~~~eA~~~~~~~---~----~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A  547 (697)
T PLN03081        475 EGLLDEAYAMIRRA---P----FKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEA  547 (697)
T ss_pred             cCCHHHHHHHHHHC---C----CCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHH
Confidence            88888888888765   2    6799999999999999999999999999999999999999999999999999999998


Q ss_pred             hc
Q 048394          483 MR  484 (485)
Q Consensus       483 ~~  484 (485)
                      .+
T Consensus       548 ~~  549 (697)
T PLN03081        548 AK  549 (697)
T ss_pred             HH
Confidence            64

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

Probab=100.00  E-value=2.7e-57  Score=450.77  Aligned_cols=396  Identities=14%  Similarity=0.155  Sum_probs=365.9

Q ss_pred             CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC-CCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc--cCCCHhHH
Q 048394           71 GKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRK-MHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE--YAKNRYTY  147 (485)
Q Consensus        71 g~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~  147 (485)
                      ....+...++.++..+.+.|++++|+++|++|...+ ..||..+|+.++.+|++.++++.+.+++..|.+  ..||..+|
T Consensus        82 ~~~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~  161 (697)
T PLN03081         82 QIRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMM  161 (697)
T ss_pred             cCCCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHH
Confidence            455667789999999999999999999999998764 679999999999999999999999999999988  78999999


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhc
Q 048394          148 GALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHL  227 (485)
Q Consensus       148 ~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  227 (485)
                      +.|+.+|++.|++++|.++|++|.+    ||..+||.++.+|++.|++++|+++|++|.+.|+.|+..+|+.++.+|+..
T Consensus       162 n~Li~~y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~  237 (697)
T PLN03081        162 NRVLLMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGL  237 (697)
T ss_pred             HHHHHHHhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcC
Confidence            9999999999999999999999975    799999999999999999999999999999999999999999999999999


Q ss_pred             CCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHH
Q 048394          228 NDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVW  307 (485)
Q Consensus       228 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  307 (485)
                      |..+.+.+++..+.+ .+..+|..+|+.++.+|++.|++++|.++|+.|   .+++..+|+.++.+|++.|++++|.++|
T Consensus       238 ~~~~~~~~l~~~~~~-~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m---~~~~~vt~n~li~~y~~~g~~~eA~~lf  313 (697)
T PLN03081        238 GSARAGQQLHCCVLK-TGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM---PEKTTVAWNSMLAGYALHGYSEEALCLY  313 (697)
T ss_pred             CcHHHHHHHHHHHHH-hCCCccceeHHHHHHHHHHCCCHHHHHHHHHhC---CCCChhHHHHHHHHHHhCCCHHHHHHHH
Confidence            999999999999988 789999999999999999999999999999885   4568899999999999999999999999


Q ss_pred             HHhhhcCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhccccc
Q 048394          308 GILKSTFPP-TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANAS  386 (485)
Q Consensus       308 ~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  386 (485)
                      ++|...+.. +..+|+.++.+|++.|++++|.+++..|.+.|+.||..+|++|+.+|++.|++++|.++|++|.      
T Consensus       314 ~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~------  387 (697)
T PLN03081        314 YEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP------  387 (697)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC------
Confidence            999988877 9999999999999999999999999999999999999999999999999999999999999885      


Q ss_pred             CCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhc-C-CCCHH
Q 048394          387 ARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSL-N-CLDFS  464 (485)
Q Consensus       387 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~  464 (485)
                      .||..+|+.+|.+|++.|+.++|+++|++|.+.|    +.||..||+.++.+|.+.|++++|.++|+.|.+. + .|+..
T Consensus       388 ~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g----~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~  463 (697)
T PLN03081        388 RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEG----VAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAM  463 (697)
T ss_pred             CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhC----CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCcc
Confidence            5677899999999999999999999999999988    8999999999999999999999999999999864 2 46788


Q ss_pred             HHHHHHHHHHHhCCCcchhc
Q 048394          465 AYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       465 ~~~~l~~~~~~~g~~~~A~~  484 (485)
                      +|+.++.+|++.|++++|.+
T Consensus       464 ~y~~li~~l~r~G~~~eA~~  483 (697)
T PLN03081        464 HYACMIELLGREGLLDEAYA  483 (697)
T ss_pred             chHhHHHHHHhcCCHHHHHH
Confidence            89999999999999998864

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

Probab=100.00  E-value=2.4e-30  Score=269.73  Aligned_cols=394  Identities=16%  Similarity=0.136  Sum_probs=240.6

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHH
Q 048394           75 RKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNC  153 (485)
Q Consensus        75 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~  153 (485)
                      +...+..+...+...|++++|.+.|+.+...+ +.+..++..+...+.+.|+.++|..+|+++.. .+.+...+..++..
T Consensus       498 ~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  576 (899)
T TIGR02917       498 FFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQY  576 (899)
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHH
Confidence            33444444445555555555555555554433 23344445555555555555555555555544 33334445555555


Q ss_pred             HHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHH
Q 048394          154 YCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGV  233 (485)
Q Consensus       154 ~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  233 (485)
                      +.+.|++++|..+++++..... .+..+|..+..++...|++++|...|+++.+.. +.+...+..+..++.+.|++++|
T Consensus       577 ~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  654 (899)
T TIGR02917       577 YLGKGQLKKALAILNEAADAAP-DSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKA  654 (899)
T ss_pred             HHHCCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHH
Confidence            5555555555555555554332 244455555555555566666666655555432 22344455555555556666666


Q ss_pred             HHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhc
Q 048394          234 ERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKST  313 (485)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  313 (485)
                      ...++.+.+  ..+.+..++..++..+...|++++|..+++.+....|.+...+..+...+...|++++|...++.+...
T Consensus       655 ~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  732 (899)
T TIGR02917       655 ITSLKRALE--LKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKR  732 (899)
T ss_pred             HHHHHHHHh--cCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence            666665555  344445555555666666666666666666655555555555666666666666666666666666555


Q ss_pred             CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHH
Q 048394          314 FPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSR  393 (485)
Q Consensus       314 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~  393 (485)
                      .+.+ .++..++.++.+.|++++|.+.++.+.+..+. +...+..+...|...|++++|..+|+++.+.+   +++...+
T Consensus       733 ~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~---p~~~~~~  807 (899)
T TIGR02917       733 APSS-QNAIKLHRALLASGNTAEAVKTLEAWLKTHPN-DAVLRTALAELYLAQKDYDKAIKHYRTVVKKA---PDNAVVL  807 (899)
T ss_pred             CCCc-hHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC---CCCHHHH
Confidence            4443 44445566666666666666666666655433 56666666677777777777777777776654   4455666


Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHH
Q 048394          394 ESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTY  473 (485)
Q Consensus       394 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  473 (485)
                      +.+...+...|+ .+|+.+++++...     .+.+..++..+...+...|++++|.++++++.+.+|.++.++..++.+|
T Consensus       808 ~~l~~~~~~~~~-~~A~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~  881 (899)
T TIGR02917       808 NNLAWLYLELKD-PRALEYAEKALKL-----APNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPEAAAIRYHLALAL  881 (899)
T ss_pred             HHHHHHHHhcCc-HHHHHHHHHHHhh-----CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHH
Confidence            667777777777 6677777777665     3345566677778888889999999999999998888999999999999


Q ss_pred             HHhCCCcchhc
Q 048394          474 IAAGKLASDMR  484 (485)
Q Consensus       474 ~~~g~~~~A~~  484 (485)
                      ++.|++++|++
T Consensus       882 ~~~g~~~~A~~  892 (899)
T TIGR02917       882 LATGRKAEARK  892 (899)
T ss_pred             HHcCCHHHHHH
Confidence            99999988864

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=9.4e-30  Score=265.30  Aligned_cols=392  Identities=17%  Similarity=0.117  Sum_probs=196.0

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHH
Q 048394           76 KDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCY  154 (485)
Q Consensus        76 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~  154 (485)
                      ...+..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|.+.|+++.. .+.+..++..+...+
T Consensus       465 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  543 (899)
T TIGR02917       465 ASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLY  543 (899)
T ss_pred             cHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHH
Confidence            3344444444444444444444444443332 12233333344444444444444444444443 222334444444444


Q ss_pred             HhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHH
Q 048394          155 CKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVE  234 (485)
Q Consensus       155 ~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  234 (485)
                      .+.|+.++|..+|+++...+.. +...+..++..+...|++++|..+++++.+. .+.+..+|..+..++...|++++|.
T Consensus       544 ~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~  621 (899)
T TIGR02917       544 LRTGNEEEAVAWLEKAAELNPQ-EIEPALALAQYYLGKGQLKKALAILNEAADA-APDSPEAWLMLGRAQLAAGDLNKAV  621 (899)
T ss_pred             HHcCCHHHHHHHHHHHHHhCcc-chhHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            4444444444444444443321 3334444444455555555555555554433 2233444555555555555555555


Q ss_pred             HHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcC
Q 048394          235 RVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTF  314 (485)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  314 (485)
                      ..|+.+.+  ..+.+...+..++.++.+.|++++|...++++.+..|.+..++..++..+...|++++|..+++.+....
T Consensus       622 ~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  699 (899)
T TIGR02917       622 SSFKKLLA--LQPDSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH  699 (899)
T ss_pred             HHHHHHHH--hCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            55555544  2333444444555555555555555555555555444455555555555555555555555555555554


Q ss_pred             CCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHH
Q 048394          315 PPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRE  394 (485)
Q Consensus       315 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~  394 (485)
                      +.+...+..+...+...|++++|.+.|..+.+.++.  ..++..++.++.+.|++++|...++++.+..   +.+...+.
T Consensus       700 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~---~~~~~~~~  774 (899)
T TIGR02917       700 PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPS--SQNAIKLHRALLASGNTAEAVKTLEAWLKTH---PNDAVLRT  774 (899)
T ss_pred             cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCC--chHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCCHHHHH
Confidence            444445555555555555555555555555544322  2344445555555555555555555555443   33444555


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHH
Q 048394          395 SFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYI  474 (485)
Q Consensus       395 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  474 (485)
                      .+...|...|++++|...|+++.+.     .+++..++..+...+...|+ .+|...++++.+..|.++..+..++.+|.
T Consensus       775 ~la~~~~~~g~~~~A~~~~~~~~~~-----~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  848 (899)
T TIGR02917       775 ALAELYLAQKDYDKAIKHYRTVVKK-----APDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLV  848 (899)
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHHHh-----CCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHH
Confidence            5555555566666666666666554     33445555555555555555 55666666666655556666666666666


Q ss_pred             HhCCCcchh
Q 048394          475 AAGKLASDM  483 (485)
Q Consensus       475 ~~g~~~~A~  483 (485)
                      ..|++++|+
T Consensus       849 ~~g~~~~A~  857 (899)
T TIGR02917       849 EKGEADRAL  857 (899)
T ss_pred             HcCCHHHHH
Confidence            666666654

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

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

Probab=99.96  E-value=1.7e-25  Score=200.03  Aligned_cols=387  Identities=14%  Similarity=0.086  Sum_probs=208.3

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHH-HHHHHH
Q 048394           76 KDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYG-ALLNCY  154 (485)
Q Consensus        76 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~li~~~  154 (485)
                      .++|..+...+...|++++|+.+++.+.+.. +-....|..+..++...|+.+.|...|.+..+..|+..... .+...+
T Consensus       116 ae~ysn~aN~~kerg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLl  194 (966)
T KOG4626|consen  116 AEAYSNLANILKERGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLL  194 (966)
T ss_pred             HHHHHHHHHHHHHhchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHH
Confidence            4445555555555555555555555555443 22344555555555555555555555555555444443222 222223


Q ss_pred             HhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCcc-HHHHHHHHHHHHhcCCHhHH
Q 048394          155 CKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLD-NLTYIVWMQSYSHLNDIDGV  233 (485)
Q Consensus       155 ~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a  233 (485)
                      -..|+.++|...+.+..+.... =...|+.|...+-..|+...|++.|++....  .|+ ...|-.|...|...+.++.|
T Consensus       195 ka~Grl~ea~~cYlkAi~~qp~-fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~A  271 (966)
T KOG4626|consen  195 KAEGRLEEAKACYLKAIETQPC-FAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRA  271 (966)
T ss_pred             HhhcccchhHHHHHHHHhhCCc-eeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHH
Confidence            3345555555555555543321 2334555555555555555566555555543  232 34455555555555556666


Q ss_pred             HHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhc
Q 048394          234 ERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKST  313 (485)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  313 (485)
                      ...+.....  --+....++..+...|-..|+.|-|+..+++..+..|.-+.+|+.|..++-..|++.+|.+.+.+....
T Consensus       272 vs~Y~rAl~--lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l  349 (966)
T KOG4626|consen  272 VSCYLRALN--LRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRL  349 (966)
T ss_pred             HHHHHHHHh--cCCcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHh
Confidence            655555554  233334455555555555666666666666665555555556666666666666666666666665555


Q ss_pred             CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCc-hhH
Q 048394          314 FPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARF-FKS  392 (485)
Q Consensus       314 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~-~~~  392 (485)
                      .+....+.+.|...+...|.+++|..+|....+-.+. -....+.|...|-++|++++|...+++.++.    .|+ ...
T Consensus       350 ~p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~-~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI----~P~fAda  424 (966)
T KOG4626|consen  350 CPNHADAMNNLGNIYREQGKIEEATRLYLKALEVFPE-FAAAHNNLASIYKQQGNLDDAIMCYKEALRI----KPTFADA  424 (966)
T ss_pred             CCccHHHHHHHHHHHHHhccchHHHHHHHHHHhhChh-hhhhhhhHHHHHHhcccHHHHHHHHHHHHhc----CchHHHH
Confidence            5555555555666666666666666666555554222 2344455555666666666666666655544    332 334


Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCcc-HHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHH
Q 048394          393 RESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPM-QVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIK  471 (485)
Q Consensus       393 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  471 (485)
                      |+.+...|-..|+.+.|++.+.+.+...      |. .+.+..|...|...|++.+|+.-|+.++++.|+.+.+|..++.
T Consensus       425 ~~NmGnt~ke~g~v~~A~q~y~rAI~~n------Pt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh  498 (966)
T KOG4626|consen  425 LSNMGNTYKEMGDVSAAIQCYTRAIQIN------PTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLH  498 (966)
T ss_pred             HHhcchHHHHhhhHHHHHHHHHHHHhcC------cHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHH
Confidence            5555555555666666666666655532      32 3455556666666666666666666666666666666655555


Q ss_pred             HHHHhCCC
Q 048394          472 TYIAAGKL  479 (485)
Q Consensus       472 ~~~~~g~~  479 (485)
                      ++.--.+|
T Consensus       499 ~lq~vcdw  506 (966)
T KOG4626|consen  499 CLQIVCDW  506 (966)
T ss_pred             HHHHHhcc
Confidence            54433333

>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=4.3e-25  Score=197.56  Aligned_cols=433  Identities=15%  Similarity=0.137  Sum_probs=359.4

Q ss_pred             CCCCCCCCCCCchhHHHHHHhhcCCCCcHHHHHHHHHHh--CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC
Q 048394           32 IAAPTPFPTGNEDKLYKRLSALGATGGSVTGALNAYIME--GKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHF  109 (485)
Q Consensus        32 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~--g~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  109 (485)
                      -+..++.....--++-.++-.    .++..++.+...--  ..+.+......+-..+.+..+.+....--....+.. +.
T Consensus        40 q~~~t~~~~~~~l~lah~~yq----~gd~~~a~~h~nmv~~~d~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~-~q  114 (966)
T KOG4626|consen   40 QFNKTHEGSDDRLELAHRLYQ----GGDYKQAEKHCNMVGQEDPTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKN-PQ  114 (966)
T ss_pred             HhccCCccchhHHHHHHHHHh----ccCHHHHHHHHhHhhccCCCcccceeeehhhhhcccchhhhhhhhhhhhhcc-ch
Confidence            334444443333334444443    77888887654433  334445555555566777777776655444444443 35


Q ss_pred             ChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCC-CHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhH-HHHHH
Q 048394          110 SYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAK-NRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAF-NNLST  187 (485)
Q Consensus       110 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~-~~l~~  187 (485)
                      -..+|..+.+.+...|++++|+.+++.+.+..| ....|..+..++...|+.+.|.+.|.+.++.+  |+.... +.+..
T Consensus       115 ~ae~ysn~aN~~kerg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~lgn  192 (966)
T KOG4626|consen  115 GAEAYSNLANILKERGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSDLGN  192 (966)
T ss_pred             HHHHHHHHHHHHHHhchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcchhH
Confidence            678999999999999999999999999999545 56799999999999999999999999998854  665443 33444


Q ss_pred             HHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHH
Q 048394          188 MYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFE  267 (485)
Q Consensus       188 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  267 (485)
                      .+...|+.++|...|.+..... +--...|+.|...+...|+...|++.|++..+  -.|--...|-.|...|...+.++
T Consensus       193 Llka~Grl~ea~~cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvk--ldP~f~dAYiNLGnV~ke~~~~d  269 (966)
T KOG4626|consen  193 LLKAEGRLEEAKACYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVK--LDPNFLDAYINLGNVYKEARIFD  269 (966)
T ss_pred             HHHhhcccchhHHHHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhc--CCCcchHHHhhHHHHHHHHhcch
Confidence            5566899999999999988752 22356788899999999999999999999998  55666788999999999999999


Q ss_pred             HHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048394          268 KAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESR  347 (485)
Q Consensus       268 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  347 (485)
                      .|...+.+.....|....++..+...|...|..|.|++.+++..+..|.-..+|+.|..++-..|++.+|.+.|.+....
T Consensus       270 ~Avs~Y~rAl~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l  349 (966)
T KOG4626|consen  270 RAVSCYLRALNLRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRL  349 (966)
T ss_pred             HHHHHHHHHHhcCCcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHh
Confidence            99999999999999899999999999999999999999999999999989999999999999999999999999999998


Q ss_pred             cCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCc
Q 048394          348 CSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRP  427 (485)
Q Consensus       348 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  427 (485)
                      .+. .....+.|...|...|.+++|..+|....+..   +--...++.|...|-+.|++++|+..|++.+..      .|
T Consensus       350 ~p~-hadam~NLgni~~E~~~~e~A~~ly~~al~v~---p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI------~P  419 (966)
T KOG4626|consen  350 CPN-HADAMNNLGNIYREQGKIEEATRLYLKALEVF---PEFAAAHNNLASIYKQQGNLDDAIMCYKEALRI------KP  419 (966)
T ss_pred             CCc-cHHHHHHHHHHHHHhccchHHHHHHHHHHhhC---hhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhc------Cc
Confidence            766 57777889999999999999999999998763   223456888999999999999999999999985      46


Q ss_pred             c-HHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          428 M-QVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       428 ~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      + ...|..+...|...|+...|.+.+.+++...|.-..++..|+.+|...|+..+||.
T Consensus       420 ~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~  477 (966)
T KOG4626|consen  420 TFADALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQ  477 (966)
T ss_pred             hHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHH
Confidence            5 56899999999999999999999999999999999999999999999999999874

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.94  E-value=1.9e-22  Score=211.22  Aligned_cols=455  Identities=12%  Similarity=0.020  Sum_probs=294.0

Q ss_pred             hhhcCCCCccccccCCCCCCCCCCCch----hHHHHHHhhcCCCCcHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCChH
Q 048394           18 RQLCSTPTETVSQRIAAPTPFPTGNED----KLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYR   93 (485)
Q Consensus        18 ~~~~~~~~~~~~~~~~~~~~~~~~~~~----~l~~~l~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~~~~~~   93 (485)
                      +.+...+..+.+...+...-...++..    ..+..+.....+.......++.+.+. .|.+......+...+...|+++
T Consensus       120 ~ll~~~g~~~eA~~~~~~~l~~~p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~-~P~~~~~~~~LA~ll~~~g~~~  198 (1157)
T PRK11447        120 RLLATTGRTEEALASYDKLFNGAPPELDLAVEYWRLVAKLPAQRPEAINQLQRLNAD-YPGNTGLRNTLALLLFSSGRRD  198 (1157)
T ss_pred             HHHHhCCCHHHHHHHHHHHccCCCCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHccCCHH
Confidence            345666777776664333222211121    22333333222333444445555443 3556777888888899999999


Q ss_pred             HHHHHHHHHHhCCC------------------C--------------CChhhH---------------------HHHHHH
Q 048394           94 HALEVIEWMESRKM------------------H--------------FSYTDF---------------------AVYLDL  120 (485)
Q Consensus        94 ~A~~~~~~~~~~~~------------------~--------------~~~~~~---------------------~~l~~~  120 (485)
                      +|++.++++.....                  .              |+....                     ......
T Consensus       199 eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~G~~  278 (1157)
T PRK11447        199 EGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQGLA  278 (1157)
T ss_pred             HHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHHHHH
Confidence            99999998754320                  0              110000                     011234


Q ss_pred             HHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCC-hhhHH------------HHH
Q 048394          121 TAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGN-TVAFN------------NLS  186 (485)
Q Consensus       121 ~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~-~~~~~------------~l~  186 (485)
                      +...|++++|+..|++..+ .+.+...+..+...+.+.|++++|+..|++..+...... ...|.            ...
T Consensus       279 ~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g  358 (1157)
T PRK11447        279 AVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQG  358 (1157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHH
Confidence            5667999999999999888 444778889999999999999999999999887653211 11121            223


Q ss_pred             HHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHH----------
Q 048394          187 TMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNL----------  256 (485)
Q Consensus       187 ~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l----------  256 (485)
                      ..+.+.|++++|+..|+++.+.. +.+...+..+...+...|++++|++.|+++.+  ..+.+...+..+          
T Consensus       359 ~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~--~~p~~~~a~~~L~~l~~~~~~~  435 (1157)
T PRK11447        359 DAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALR--MDPGNTNAVRGLANLYRQQSPE  435 (1157)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCHH
Confidence            45678899999999999998863 34566677788899999999999999999887  334444433323          


Q ss_pred             --------------------------------HHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHH
Q 048394          257 --------------------------------ASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVN  304 (485)
Q Consensus       257 --------------------------------~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  304 (485)
                                                      ...+...|++++|...++++.+..|.+...+..+...|.+.|++++|.
T Consensus       436 ~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~  515 (1157)
T PRK11447        436 KALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQAD  515 (1157)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence                                            333445688888888888888877777888888888888888888888


Q ss_pred             HHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHcc------------------------------------
Q 048394          305 RVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRC------------------------------------  348 (485)
Q Consensus       305 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------------------------------------  348 (485)
                      ..++++....+.+...+..+...+...++.++|...++.+....                                    
T Consensus       516 ~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~  595 (1157)
T PRK11447        516 ALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEAL  595 (1157)
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHH
Confidence            88888877666655544444444445555555555544321110                                    


Q ss_pred             ---CCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCC
Q 048394          349 ---SSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHW  425 (485)
Q Consensus       349 ---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  425 (485)
                         ...+...+..+...+.+.|++++|...|++..+..   +.+...+..++..|...|++++|++.++...+.     .
T Consensus       596 l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~---P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~-----~  667 (1157)
T PRK11447        596 LRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE---PGNADARLGLIEVDIAQGDLAAARAQLAKLPAT-----A  667 (1157)
T ss_pred             HHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc-----C
Confidence               12234445556666777777777777777776653   334556666677777777777777777766554     2


Q ss_pred             CccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCH------HHHHHHHHHHHHhCCCcchhc
Q 048394          426 RPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDF------SAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       426 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      +.+...+..+..++...|++++|.++++++.+..|.++      ..+..++.++...|++++|+.
T Consensus       668 p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~  732 (1157)
T PRK11447        668 NDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALE  732 (1157)
T ss_pred             CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHH
Confidence            23445555666666777777777777777766544322      355666777777777777753

>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=99.94  E-value=5.4e-22  Score=195.40  Aligned_cols=371  Identities=12%  Similarity=-0.008  Sum_probs=204.1

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCC-CHhHHHHHHHHHHh
Q 048394           78 MLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAK-NRYTYGALLNCYCK  156 (485)
Q Consensus        78 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~li~~~~~  156 (485)
                      .+......+.+.|+++.|+..|++.....  |+...|..+..+|.+.|++++|++.++...+..| +...|..+..+|..
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~~--p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIECK--PDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence            34556777889999999999999988764  7788888899999999999999999999988444 56789999999999


Q ss_pred             cCcHHHHHHHHHHHHhCCCCCCh-----------------------------hhHHHHHHHH------------------
Q 048394          157 ELMTERALALFEKMDELKFLGNT-----------------------------VAFNNLSTMY------------------  189 (485)
Q Consensus       157 ~~~~~~A~~~~~~m~~~~~~p~~-----------------------------~~~~~l~~~~------------------  189 (485)
                      .|++++|+.-|......+...+.                             ..+..+...+                  
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  286 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNEL  286 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccccc
Confidence            99999998877655432211010                             0000000000                  


Q ss_pred             ------------------HhCCCcccHHHHHHHHHHcC-CCc-cHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCc
Q 048394          190 ------------------LRLGQPEKVRPLVNQMKQRN-ISL-DNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCR  249 (485)
Q Consensus       190 ------------------~~~g~~~~a~~~~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  249 (485)
                                        ...+++++|.+.|++..+.+ ..| +...+..+...+...|++++|+..++...+  ..+..
T Consensus       287 ~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~--l~P~~  364 (615)
T TIGR00990       287 DEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIE--LDPRV  364 (615)
T ss_pred             ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCc
Confidence                              01133445555555554432 112 223344444445555555555555555554  23333


Q ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHH
Q 048394          250 WTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALA  329 (485)
Q Consensus       250 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  329 (485)
                      ...|..+..++...|++++|...|+++.+..|.+...|..+...+...|++++|...|++.....+.+...+..+...+.
T Consensus       365 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~  444 (615)
T TIGR00990       365 TQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQY  444 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHH
Confidence            44455555555555555555555555555545455555555555555555555555555555555544445555555555


Q ss_pred             hcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchh------HHHHHHHHHHhc
Q 048394          330 KLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFK------SRESFMIYYLRS  403 (485)
Q Consensus       330 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~------~~~~l~~~~~~~  403 (485)
                      +.|++++|...|+...+..+. +...++.+...+...|++++|...|++..+...  ..+..      .++.....+...
T Consensus       445 ~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p--~~~~~~~~~~~l~~~a~~~~~~~  521 (615)
T TIGR00990       445 KEGSIASSMATFRRCKKNFPE-APDVYNYYGELLLDQNKFDEAIEKFDTAIELEK--ETKPMYMNVLPLINKALALFQWK  521 (615)
T ss_pred             HCCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCC--ccccccccHHHHHHHHHHHHHHh
Confidence            555555555555555544322 344555555555555555555555555544321  00000      011111112223


Q ss_pred             ccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCC
Q 048394          404 RQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNC  460 (485)
Q Consensus       404 g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  460 (485)
                      |++++|..++++.+...     +.+...+..+...+...|++++|.+.|+++.+..+
T Consensus       522 ~~~~eA~~~~~kAl~l~-----p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~  573 (615)
T TIGR00990       522 QDFIEAENLCEKALIID-----PECDIAVATMAQLLLQQGDVDEALKLFERAAELAR  573 (615)
T ss_pred             hhHHHHHHHHHHHHhcC-----CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhc
Confidence            55555555555554431     12223444455555555555555555555555443

>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=99.94  E-value=1.3e-22  Score=199.83  Aligned_cols=366  Identities=11%  Similarity=0.018  Sum_probs=293.9

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCC
Q 048394          114 FAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLG  193 (485)
Q Consensus       114 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g  193 (485)
                      +......+.+.|++++|++.|++.....|+...|..+..+|.+.|++++|++.+++..+.+.. +..+|..+..+|...|
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~-~~~a~~~~a~a~~~lg  208 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPD-YSKALNRRANAYDGLG  208 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHcC
Confidence            445567788899999999999999997889899999999999999999999999999987643 5678899999999999


Q ss_pred             CcccHHHHHHHHHHcCC----------------------------Ccc-HHHHHHH------------------------
Q 048394          194 QPEKVRPLVNQMKQRNI----------------------------SLD-NLTYIVW------------------------  220 (485)
Q Consensus       194 ~~~~a~~~~~~~~~~~~----------------------------~p~-~~~~~~l------------------------  220 (485)
                      ++++|+..|......+-                            .|. ...+..+                        
T Consensus       209 ~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  288 (615)
T TIGR00990       209 KYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDE  288 (615)
T ss_pred             CHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccccccc
Confidence            99999876654432110                            000 0000000                        


Q ss_pred             ------HHHH------HhcCCHhHHHHHHHHHHhccC-CCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHH
Q 048394          221 ------MQSY------SHLNDIDGVERVFYEMCNECE-DKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAY  287 (485)
Q Consensus       221 ------~~~~------~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  287 (485)
                            +...      ...+++++|.+.|+...+... .+.....+..+..++...|++++|...+++.....|.....|
T Consensus       289 ~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~~~~~~  368 (615)
T TIGR00990       289 ETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPRVTQSY  368 (615)
T ss_pred             ccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHH
Confidence                  0000      112578899999999887222 244556788889999999999999999999999888888999


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcC
Q 048394          288 HFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKD  367 (485)
Q Consensus       288 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  367 (485)
                      ..+...+...|++++|...++++.+..+.+...+..+...+...|++++|...|++..+..+. +...+..+..++.+.|
T Consensus       369 ~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~-~~~~~~~la~~~~~~g  447 (615)
T TIGR00990       369 IKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPD-FIFSHIQLGVTQYKEG  447 (615)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCcc-CHHHHHHHHHHHHHCC
Confidence            999999999999999999999999988888899999999999999999999999999987655 6777888999999999


Q ss_pred             cHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhc-CCCccH-HHHHHHHHHHhhcCCh
Q 048394          368 MYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQF-HWRPMQ-VTVDTFFRFFEEEKDV  445 (485)
Q Consensus       368 ~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~-~~~~~l~~~~~~~~~~  445 (485)
                      ++++|...|++..+..   +.+...|+.+...+...|++++|+..|++.+...... +...+. ..+...+..+...|++
T Consensus       448 ~~~eA~~~~~~al~~~---P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~  524 (615)
T TIGR00990       448 SIASSMATFRRCKKNF---PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDF  524 (615)
T ss_pred             CHHHHHHHHHHHHHhC---CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhH
Confidence            9999999999998763   3456788889999999999999999999998864110 000011 1122222334456999


Q ss_pred             hhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          446 DGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       446 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      ++|.++++++.+..|.+..++..++.++.+.|++++|++
T Consensus       525 ~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~  563 (615)
T TIGR00990       525 IEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALK  563 (615)
T ss_pred             HHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHH
Confidence            999999999999999999999999999999999999975

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.94  E-value=4.5e-22  Score=208.42  Aligned_cols=366  Identities=11%  Similarity=0.022  Sum_probs=260.1

Q ss_pred             HHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCH---hHHH-----------
Q 048394           83 VRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNR---YTYG-----------  148 (485)
Q Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~-----------  148 (485)
                      ...+...|++++|+..|++..+.. +.+...+..+..++.+.|++++|+..|++..+..|+.   ..|.           
T Consensus       276 G~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~  354 (1157)
T PRK11447        276 GLAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLL  354 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHH
Confidence            344556677777777777776654 2355666666677777777777777777766633322   1111           


Q ss_pred             -HHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHH----------
Q 048394          149 -ALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTY----------  217 (485)
Q Consensus       149 -~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~----------  217 (485)
                       .....+.+.|++++|+..|+++.+.... +...+..+...+...|++++|++.|++..+.. +.+...+          
T Consensus       355 ~~~g~~~~~~g~~~eA~~~~~~Al~~~P~-~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~~  432 (1157)
T PRK11447        355 IQQGDAALKANNLAQAERLYQQARQVDNT-DSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQQ  432 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence             1233455667777777777777765432 44556666677777777777777777766542 1112222          


Q ss_pred             --------------------------------HHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhccc
Q 048394          218 --------------------------------IVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAEL  265 (485)
Q Consensus       218 --------------------------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  265 (485)
                                                      ..+...+...|++++|++.|++..+  ..|.+...+..+...|.+.|+
T Consensus       433 ~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~--~~P~~~~~~~~LA~~~~~~G~  510 (1157)
T PRK11447        433 SPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLA--LDPGSVWLTYRLAQDLRQAGQ  510 (1157)
T ss_pred             CHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCC
Confidence                                            2233445668999999999999988  566677788889999999999


Q ss_pred             HHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhh---------------------------------
Q 048394          266 FEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKS---------------------------------  312 (485)
Q Consensus       266 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---------------------------------  312 (485)
                      +++|...++++.+..|.++..+..+...+...+++++|...++.+..                                 
T Consensus       511 ~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~  590 (1157)
T PRK11447        511 RSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEA  590 (1157)
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHH
Confidence            99999999999887776766665555455555555555555443311                                 


Q ss_pred             -------cCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccc
Q 048394          313 -------TFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANA  385 (485)
Q Consensus       313 -------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  385 (485)
                             ..+.+...+..+...+.+.|+.++|++.|+.+.+..+. +...+..++..|...|++++|...++.+.+..  
T Consensus       591 eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~-~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~--  667 (1157)
T PRK11447        591 EAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPG-NADARLGLIEVDIAQGDLAAARAQLAKLPATA--  667 (1157)
T ss_pred             HHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC--
Confidence                   23346667778899999999999999999999998665 78889999999999999999999999887653  


Q ss_pred             cCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCc---cHHHHHHHHHHHhhcCChhhHHHHHHHHhhcC
Q 048394          386 SARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRP---MQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLN  459 (485)
Q Consensus       386 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  459 (485)
                       +.+...+..+..++...|++++|.+++++++.....  .+|   +...+..+...+...|++++|...|+++....
T Consensus       668 -p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~--~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~  741 (1157)
T PRK11447        668 -NDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKS--QPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVAS  741 (1157)
T ss_pred             -CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCcc--CCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc
Confidence             334455667788889999999999999999886311  122   23456667788999999999999999997633

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.93  E-value=1.6e-21  Score=191.25  Aligned_cols=335  Identities=8%  Similarity=-0.073  Sum_probs=274.3

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHH
Q 048394           76 KDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCY  154 (485)
Q Consensus        76 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~  154 (485)
                      ......++..+.+.|++++|..+++........ +...+..++.+....|++++|.+.|+++.. .+.+...+..+...+
T Consensus        42 ~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l  120 (656)
T PRK15174         42 EQNIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVL  120 (656)
T ss_pred             ccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            444566777888999999999999998877633 344455556667779999999999999998 445567888889999


Q ss_pred             HhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHH
Q 048394          155 CKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVE  234 (485)
Q Consensus       155 ~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  234 (485)
                      .+.|++++|...|++....... +...+..+...+...|++++|...++.+..... .+...+..+ ..+...|++++|.
T Consensus       121 ~~~g~~~~Ai~~l~~Al~l~P~-~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P-~~~~a~~~~-~~l~~~g~~~eA~  197 (656)
T PRK15174        121 LKSKQYATVADLAEQAWLAFSG-NSQIFALHLRTLVLMDKELQAISLARTQAQEVP-PRGDMIATC-LSFLNKSRLPEDH  197 (656)
T ss_pred             HHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCC-CCHHHHHHH-HHHHHcCCHHHHH
Confidence            9999999999999999886533 566788899999999999999999998876532 223333333 3478899999999


Q ss_pred             HHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhh----HHHHHHHh
Q 048394          235 RVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDA----VNRVWGIL  310 (485)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~  310 (485)
                      ..++.+.+ ....++...+..++.++...|++++|...++++....|.+...+..+...+...|++++    |...++++
T Consensus       198 ~~~~~~l~-~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~A  276 (656)
T PRK15174        198 DLARALLP-FFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHA  276 (656)
T ss_pred             HHHHHHHh-cCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHH
Confidence            99999877 22233444555567888899999999999999999888889999999999999999986    89999999


Q ss_pred             hhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCch
Q 048394          311 KSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFF  390 (485)
Q Consensus       311 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~  390 (485)
                      ....|.+...+..+...+...|++++|...+++..+..+. +...+..+..++.+.|++++|...|+++.+.    .|+.
T Consensus       277 l~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~-~~~a~~~La~~l~~~G~~~eA~~~l~~al~~----~P~~  351 (656)
T PRK15174        277 LQFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPD-LPYVRAMYARALRQVGQYTAASDEFVQLARE----KGVT  351 (656)
T ss_pred             HhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh----Cccc
Confidence            9988888899999999999999999999999999987655 5677778899999999999999999999887    4544


Q ss_pred             hH-HHHHHHHHHhcccHHHHHHHHHHHHHHh
Q 048394          391 KS-RESFMIYYLRSRQLDLALNEMEAALSEA  420 (485)
Q Consensus       391 ~~-~~~l~~~~~~~g~~~~A~~~~~~~~~~~  420 (485)
                      .. +..+..++...|+.++|...|++..+..
T Consensus       352 ~~~~~~~a~al~~~G~~deA~~~l~~al~~~  382 (656)
T PRK15174        352 SKWNRYAAAALLQAGKTSEAESVFEHYIQAR  382 (656)
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            33 3345667889999999999999998875

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.93  E-value=1.2e-22  Score=190.32  Aligned_cols=301  Identities=14%  Similarity=0.080  Sum_probs=223.2

Q ss_pred             HHHHhhCCHHHHHHHHHhhcccC-CCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCC---hhhHHHHHHHHHhCCC
Q 048394          119 DLTAKTNGIAAAEKYFNGLSEYA-KNRYTYGALLNCYCKELMTERALALFEKMDELKFLGN---TVAFNNLSTMYLRLGQ  194 (485)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~---~~~~~~l~~~~~~~g~  194 (485)
                      ..+...|++++|...|.++.+.. .+..++..+...+...|++++|..+++.+...+..++   ..++..+...|.+.|+
T Consensus        43 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~  122 (389)
T PRK11788         43 LNFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGL  122 (389)
T ss_pred             HHHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCC
Confidence            34456678888888888887733 3455777788888888888888888888776532221   2456777778888888


Q ss_pred             cccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCc---HHHHHHHHHHHHhcccHHHHHH
Q 048394          195 PEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCR---WTTYSNLASIYVKAELFEKAEL  271 (485)
Q Consensus       195 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~  271 (485)
                      +++|..+|+++.+.. +++..++..++..+.+.|++++|.+.++.+.+....++.   ...+..++..+.+.|++++|..
T Consensus       123 ~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  201 (389)
T PRK11788        123 LDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARA  201 (389)
T ss_pred             HHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence            888888888887652 345667778888888888888888888888762211111   2234567777788888888888


Q ss_pred             HHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCC
Q 048394          272 ALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSS  350 (485)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  350 (485)
                      .|+++.+..|.+...+..++..+.+.|++++|.++++++....+. ...++..++.+|...|+.++|...++.+.+..  
T Consensus       202 ~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--  279 (389)
T PRK11788        202 LLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY--  279 (389)
T ss_pred             HHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--
Confidence            888888766767778888888888888888888888888876665 45667788888888888888888888887764  


Q ss_pred             CCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHh---cccHHHHHHHHHHHHHHhhhcCCCc
Q 048394          351 YDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLR---SRQLDLALNEMEAALSEAKQFHWRP  427 (485)
Q Consensus       351 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~  427 (485)
                      |+...+..++..+.+.|++++|..+++++.+.    .|+..+++.++..+..   .|+.++++.+++++.+.+    +.|
T Consensus       280 p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~----~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~----~~~  351 (389)
T PRK11788        280 PGADLLLALAQLLEEQEGPEAAQALLREQLRR----HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQ----LKR  351 (389)
T ss_pred             CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh----CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHH----HhC
Confidence            44455677888888888888888888888776    6777788777777664   457888888888888876    445


Q ss_pred             cHH
Q 048394          428 MQV  430 (485)
Q Consensus       428 ~~~  430 (485)
                      ++.
T Consensus       352 ~p~  354 (389)
T PRK11788        352 KPR  354 (389)
T ss_pred             CCC
Confidence            444

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.93  E-value=1.8e-22  Score=189.12  Aligned_cols=296  Identities=14%  Similarity=0.097  Sum_probs=251.9

Q ss_pred             HHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCcc---HHHHHHHHHHHHhc
Q 048394          151 LNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLD---NLTYIVWMQSYSHL  227 (485)
Q Consensus       151 i~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~  227 (485)
                      ...+...|++++|...|+++.+.+.. +..++..+...+...|++++|..+++.+...+..++   ..++..+...|.+.
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~  120 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLKVDPE-TVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKA  120 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHC
Confidence            44567889999999999999987643 566889999999999999999999999987643222   35678889999999


Q ss_pred             CCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCC-----hHHHHHHHHHHHhcCChhh
Q 048394          228 NDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRD-----RKAYHFLISLYCNTSNLDA  302 (485)
Q Consensus       228 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~  302 (485)
                      |++++|..+|+++.+  ..+.+..++..++.++.+.|++++|.+.++.+.+..+.+     ...+..++..+...|++++
T Consensus       121 g~~~~A~~~~~~~l~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  198 (389)
T PRK11788        121 GLLDRAEELFLQLVD--EGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDA  198 (389)
T ss_pred             CCHHHHHHHHHHHHc--CCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHH
Confidence            999999999999988  466778899999999999999999999999998855433     2245677888899999999


Q ss_pred             HHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhc
Q 048394          303 VNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKR  382 (485)
Q Consensus       303 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  382 (485)
                      |...++++.+..+.+...+..++..+.+.|++++|.++++++.+.++.....+++.++.+|...|++++|...++++.+.
T Consensus       199 A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  278 (389)
T PRK11788        199 ARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE  278 (389)
T ss_pred             HHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99999999988777778888999999999999999999999988755444567888999999999999999999999887


Q ss_pred             ccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhh---cCChhhHHHHHHHHhhcC
Q 048394          383 ANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEE---EKDVDGAEEFCKVLKSLN  459 (485)
Q Consensus       383 ~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~A~~~~~~~~~~~  459 (485)
                          .|+...+..++..+.+.|++++|..+++++.+..      |+..++..++..+..   .|+.+++..+++++.+..
T Consensus       279 ----~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~------P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~  348 (389)
T PRK11788        279 ----YPGADLLLALAQLLEEQEGPEAAQALLREQLRRH------PSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQ  348 (389)
T ss_pred             ----CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhC------cCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHH
Confidence                5666677889999999999999999999998864      888888888876664   458889999998888643

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.92  E-value=2.7e-21  Score=193.84  Aligned_cols=398  Identities=10%  Similarity=-0.031  Sum_probs=222.5

Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhccc-CCCHhHHHHHH
Q 048394           73 TVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEY-AKNRYTYGALL  151 (485)
Q Consensus        73 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~li  151 (485)
                      +.++..+...+......|+.++|++++....... +.+...+..+..++.+.|++++|.++|++.... +.+...+..++
T Consensus        12 ~~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la   90 (765)
T PRK10049         12 ALSNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLI   90 (765)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            4555556666666666777777777766665422 234445666666666677777777777766663 33455566666


Q ss_pred             HHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHh
Q 048394          152 NCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDID  231 (485)
Q Consensus       152 ~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  231 (485)
                      ..+...|++++|...+++..+.... +.. +..+..++...|+.++|+..++++.+.. +.+...+..+..++...+..+
T Consensus        91 ~~l~~~g~~~eA~~~l~~~l~~~P~-~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e  167 (765)
T PRK10049         91 LTLADAGQYDEALVKAKQLVSGAPD-KAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSA  167 (765)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCC-CHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChH
Confidence            6666677777777777776665322 334 6666666666777777777777766642 223334444555666666666


Q ss_pred             HHHHHHHHHHhccCCCCcH------HHHHHHHHHHH-----hcccH---HHHHHHHHHHHhcCCCCh---HHH----HHH
Q 048394          232 GVERVFYEMCNECEDKCRW------TTYSNLASIYV-----KAELF---EKAELALKKLEEMKPRDR---KAY----HFL  290 (485)
Q Consensus       232 ~a~~~~~~~~~~~~~~~~~------~~~~~l~~~~~-----~~~~~---~~A~~~~~~~~~~~~~~~---~~~----~~l  290 (485)
                      .|++.++.+..    .|+.      .....++..+.     ..+++   ++|+..++.+.+..+.++   ..+    ...
T Consensus       168 ~Al~~l~~~~~----~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~  243 (765)
T PRK10049        168 PALGAIDDANL----TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDR  243 (765)
T ss_pred             HHHHHHHhCCC----CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHH
Confidence            66666654433    1111      01111222211     11223   556666666654211111   111    111


Q ss_pred             HHHHHhcCChhhHHHHHHHhhhcCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCC---CHHhHHHHHHHHHhc
Q 048394          291 ISLYCNTSNLDAVNRVWGILKSTFPP-TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSY---DMRLADVIIRAYLQK  366 (485)
Q Consensus       291 ~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~  366 (485)
                      +.++...|++++|...|+.+.+.+++ .......+...|...|++++|+..|+.+.+..+..   .......+..++...
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            22334556667777777766665533 22222334556666777777777777665543221   123344455556666


Q ss_pred             CcHHHHHHHHHHHHhccc---------ccCCch---hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHH
Q 048394          367 DMYEEAALIFNNAKKRAN---------ASARFF---KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDT  434 (485)
Q Consensus       367 ~~~~~A~~~~~~~~~~~~---------~~~p~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  434 (485)
                      |++++|..+++++.+...         ...|+.   ..+..+...+...|++++|+..++++...     .+.+...+..
T Consensus       324 g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~-----~P~n~~l~~~  398 (765)
T PRK10049        324 ENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYN-----APGNQGLRID  398 (765)
T ss_pred             ccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCCHHHHHH
Confidence            777777777766665420         001221   12334455566667777777777776665     3445556666


Q ss_pred             HHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchh
Q 048394          435 FFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDM  483 (485)
Q Consensus       435 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  483 (485)
                      +...+...|++++|++.++++++..|.+...+..++..+.+.|++++|.
T Consensus       399 lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~  447 (765)
T PRK10049        399 YASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMD  447 (765)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHH
Confidence            6666666777777777777777766666667666666777777766664

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.92  E-value=1.1e-20  Score=185.39  Aligned_cols=360  Identities=8%  Similarity=-0.027  Sum_probs=287.6

Q ss_pred             HHcCChHHHHHHHHHHHhCC--CCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcHHHH
Q 048394           87 RKFGRYRHALEVIEWMESRK--MHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMTERA  163 (485)
Q Consensus        87 ~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A  163 (485)
                      .++.+|+.-.-.|....+..  -.-+......++..+.+.|+.++|+.+++.... .+-+...+..++.+....|++++|
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A   95 (656)
T PRK15174         16 LKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAV   95 (656)
T ss_pred             hhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHH
Confidence            44555555444444332110  011223344567777889999999999999888 444556677777788889999999


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhc
Q 048394          164 LALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNE  243 (485)
Q Consensus       164 ~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  243 (485)
                      ...|+++....+. +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++.+.. 
T Consensus        96 ~~~l~~~l~~~P~-~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~-  172 (656)
T PRK15174         96 LQVVNKLLAVNVC-QPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQ-  172 (656)
T ss_pred             HHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHH-
Confidence            9999999987644 66788889999999999999999999999852 33566788889999999999999999998876 


Q ss_pred             cCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCC-CChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHH
Q 048394          244 CEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKP-RDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYL  322 (485)
Q Consensus       244 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  322 (485)
                       ..+.+...+..+ ..+...|++++|...++.+....+ ++...+..+..++...|++++|...++++....+.+...+.
T Consensus       173 -~~P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~  250 (656)
T PRK15174        173 -EVPPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRR  250 (656)
T ss_pred             -hCCCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHH
Confidence             333444444444 347889999999999999887543 44455566678899999999999999999998888889999


Q ss_pred             HHHHHHHhcCChhH----HHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHH
Q 048394          323 VLLQALAKLNAIDI----LKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMI  398 (485)
Q Consensus       323 ~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~  398 (485)
                      .+...+...|++++    |...|+.+.+..+. +...+..+...+...|++++|...+++..+..   +.+...+..+..
T Consensus       251 ~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~---P~~~~a~~~La~  326 (656)
T PRK15174        251 SLGLAYYQSGRSREAKLQAAEHWRHALQFNSD-NVRIVTLYADALIRTGQNEKAIPLLQQSLATH---PDLPYVRAMYAR  326 (656)
T ss_pred             HHHHHHHHcCCchhhHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCCHHHHHHHHH
Confidence            99999999999986    89999999987665 78889999999999999999999999999874   334556777888


Q ss_pred             HHHhcccHHHHHHHHHHHHHHhhhcCCCccH-HHHHHHHHHHhhcCChhhHHHHHHHHhhcCCC
Q 048394          399 YYLRSRQLDLALNEMEAALSEAKQFHWRPMQ-VTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL  461 (485)
Q Consensus       399 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  461 (485)
                      .+.+.|++++|+..++++....      |+. ..+..+..++...|+.++|...|+++.+..|.
T Consensus       327 ~l~~~G~~~eA~~~l~~al~~~------P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~  384 (656)
T PRK15174        327 ALRQVGQYTAASDEFVQLAREK------GVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARAS  384 (656)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC------ccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChh
Confidence            9999999999999999999864      554 33444567889999999999999999998776

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.91  E-value=8.6e-20  Score=183.03  Aligned_cols=397  Identities=8%  Similarity=-0.082  Sum_probs=299.5

Q ss_pred             CCcHHHHHHHHHHhC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHH
Q 048394           57 GGSVTGALNAYIMEG--KTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYF  134 (485)
Q Consensus        57 ~~~~~~~~~~~~~~g--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  134 (485)
                      .+...+++..+.+..  .+.+...+..+...+...|++++|.++|++..+.. +.+...+..+..++...|++++|...+
T Consensus        28 ~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l  106 (765)
T PRK10049         28 AGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKA  106 (765)
T ss_pred             cCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            455555555555443  34556678999999999999999999999988775 345666778888899999999999999


Q ss_pred             Hhhcc-cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCcc
Q 048394          135 NGLSE-YAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLD  213 (485)
Q Consensus       135 ~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  213 (485)
                      +++.+ .+.+.. +..+...+...|+.++|+..++++.+..+. +...+..+..++...|..++|++.++....   .|+
T Consensus       107 ~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~Al~~l~~~~~---~p~  181 (765)
T PRK10049        107 KQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAPALGAIDDANL---TPA  181 (765)
T ss_pred             HHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHHHHHHHHhCCC---CHH
Confidence            99988 444566 888999999999999999999999997644 555667788888889999999998876654   233


Q ss_pred             H------HHHHHHHHHHH-----hcCCH---hHHHHHHHHHHhccCCCCcH-HHHH----HHHHHHHhcccHHHHHHHHH
Q 048394          214 N------LTYIVWMQSYS-----HLNDI---DGVERVFYEMCNECEDKCRW-TTYS----NLASIYVKAELFEKAELALK  274 (485)
Q Consensus       214 ~------~~~~~l~~~~~-----~~~~~---~~a~~~~~~~~~~~~~~~~~-~~~~----~l~~~~~~~~~~~~A~~~~~  274 (485)
                      .      .....++....     ..+++   ++|++.++.+.+.....|+. ..+.    ..+..+...|++++|+..|+
T Consensus       182 ~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~  261 (765)
T PRK10049        182 EKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQ  261 (765)
T ss_pred             HHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            1      11222233222     12234   77888888888622222322 1111    11334467799999999999


Q ss_pred             HHHhcCCCCh-HHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHHHccC
Q 048394          275 KLEEMKPRDR-KAYHFLISLYCNTSNLDAVNRVWGILKSTFPPT----NTSYLVLLQALAKLNAIDILKQCFEEWESRCS  349 (485)
Q Consensus       275 ~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  349 (485)
                      .+.+..++.+ .....+..+|...|++++|...|+++....+.+    ......+..++...|++++|.++++.+.+..+
T Consensus       262 ~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P  341 (765)
T PRK10049        262 RLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSP  341 (765)
T ss_pred             HhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCC
Confidence            9988543221 223335779999999999999999988765443    34566677788999999999999999987632


Q ss_pred             -----------CCC---HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHH
Q 048394          350 -----------SYD---MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEA  415 (485)
Q Consensus       350 -----------~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  415 (485)
                                 .|+   ...+..+...+...|+.++|+.+++++....   +.+...+..+...+...|++++|++.+++
T Consensus       342 ~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~---P~n~~l~~~lA~l~~~~g~~~~A~~~l~~  418 (765)
T PRK10049        342 PFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA---PGNQGLRIDYASVLQARGWPRAAENELKK  418 (765)
T ss_pred             ceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence                       123   2345567788899999999999999998874   45567788888899999999999999999


Q ss_pred             HHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHH
Q 048394          416 ALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYS  467 (485)
Q Consensus       416 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  467 (485)
                      ++..     .+.+...+......+...|++++|+.+++++++..|.++.+..
T Consensus       419 al~l-----~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~~~~~  465 (765)
T PRK10049        419 AEVL-----EPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDPGVQR  465 (765)
T ss_pred             HHhh-----CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHHHH
Confidence            9997     4445677777888899999999999999999999998876644

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.89  E-value=4.6e-18  Score=167.45  Aligned_cols=416  Identities=11%  Similarity=-0.009  Sum_probs=300.7

Q ss_pred             CCcHHHHHHHHHHh-CCCCCH-HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHH
Q 048394           57 GGSVTGALNAYIME-GKTVRK-DMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYF  134 (485)
Q Consensus        57 ~~~~~~~~~~~~~~-g~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  134 (485)
                      .++...+++.+.+. ...|+. .....++..+...|+.++|+..+++..... +........+...+...|++++|.++|
T Consensus        47 ~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~p~-n~~~~~llalA~ly~~~gdyd~Aiely  125 (822)
T PRK14574         47 AGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARAYRNEKRWDQALALW  125 (822)
T ss_pred             CCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            55566666666544 233443 234488888888899999999999887221 122333333355777889999999999


Q ss_pred             Hhhcc-cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCcc
Q 048394          135 NGLSE-YAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLD  213 (485)
Q Consensus       135 ~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  213 (485)
                      +++.+ .+.|...+..++..+...++.++|++.++++....  |+...+..++..+...++..+|++.++++.+.. +-+
T Consensus       126 ~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~d--p~~~~~l~layL~~~~~~~~~AL~~~ekll~~~-P~n  202 (822)
T PRK14574        126 QSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAERD--PTVQNYMTLSYLNRATDRNYDALQASSEAVRLA-PTS  202 (822)
T ss_pred             HHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccC--cchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC-CCC
Confidence            99988 44456677788888899999999999999988754  555555444444444566656999999998863 345


Q ss_pred             HHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHH--HHHHHHHH---------hccc---HHHHHHHHHHHHh-
Q 048394          214 NLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTY--SNLASIYV---------KAEL---FEKAELALKKLEE-  278 (485)
Q Consensus       214 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~~l~~~~~---------~~~~---~~~A~~~~~~~~~-  278 (485)
                      ...+..+..+..+.|-...|.++..+-..  -+.+.....  ...+.-.+         ...+   .+.|+.-++.+.. 
T Consensus       203 ~e~~~~~~~~l~~~~~~~~a~~l~~~~p~--~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~  280 (822)
T PRK14574        203 EEVLKNHLEILQRNRIVEPALRLAKENPN--LVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTR  280 (822)
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHhCcc--ccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhh
Confidence            66777788888899988888877765443  122211111  00011111         1122   3445555555554 


Q ss_pred             --cCCCCh----HHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccC--
Q 048394          279 --MKPRDR----KAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-TNTSYLVLLQALAKLNAIDILKQCFEEWESRCS--  349 (485)
Q Consensus       279 --~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--  349 (485)
                        ..|+..    .+..-.+-++...|+..++++.++.+...+.+ ...+-..+.++|...+++++|..++..+.....  
T Consensus       281 ~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~  360 (822)
T PRK14574        281 WGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKT  360 (822)
T ss_pred             ccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccc
Confidence              223221    22234566788899999999999999998877 888999999999999999999999999976531  


Q ss_pred             ---CCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhccc-----------ccCCchhH-HHHHHHHHHhcccHHHHHHHHH
Q 048394          350 ---SYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRAN-----------ASARFFKS-RESFMIYYLRSRQLDLALNEME  414 (485)
Q Consensus       350 ---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-----------~~~p~~~~-~~~l~~~~~~~g~~~~A~~~~~  414 (485)
                         .++......|.-+|...+++++|..+++++.+...           ...||-.. +..++..+.-.|+..+|++.++
T Consensus       361 ~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le  440 (822)
T PRK14574        361 FRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLE  440 (822)
T ss_pred             cCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence               22344457789999999999999999999987311           00122222 3445677889999999999999


Q ss_pred             HHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchh
Q 048394          415 AALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDM  483 (485)
Q Consensus       415 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  483 (485)
                      ++...     -|-|......+...+...|.+.+|+..++.+....|.+..+....+.++...|+|.+|-
T Consensus       441 ~l~~~-----aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~  504 (822)
T PRK14574        441 DLSST-----APANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQME  504 (822)
T ss_pred             HHHHh-----CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHH
Confidence            99887     56688899999999999999999999999999999999999999999999999999883

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.89  E-value=6.2e-18  Score=169.99  Aligned_cols=394  Identities=10%  Similarity=-0.031  Sum_probs=274.2

Q ss_pred             CCHHHHHHH-HHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh-hCCHHHHHHHHHhhcccCCCHhHHHHHH
Q 048394           74 VRKDMLEYC-VRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAK-TNGIAAAEKYFNGLSEYAKNRYTYGALL  151 (485)
Q Consensus        74 ~~~~~~~~l-~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~li  151 (485)
                      |++..+... .+.|.+.|++++|++++..+.+.+. .+......+..+|.. .++ +.+..+++.  ....+...+..++
T Consensus       179 ~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~p-l~~~~~~~L~~ay~q~l~~-~~a~al~~~--~lk~d~~l~~ala  254 (987)
T PRK09782        179 PEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNT-LSAAERRQWFDVLLAGQLD-DRLLALQSQ--GIFTDPQSRITYA  254 (987)
T ss_pred             CCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHhhCH-HHHHHHhch--hcccCHHHHHHHH
Confidence            345545555 8888899999999999999988873 445545666667766 366 777777553  2335778888888


Q ss_pred             HHHHhcCcHHHHHHHHHHHHhCCCC-CChhhH------------------------------HHHHHHH-----------
Q 048394          152 NCYCKELMTERALALFEKMDELKFL-GNTVAF------------------------------NNLSTMY-----------  189 (485)
Q Consensus       152 ~~~~~~~~~~~A~~~~~~m~~~~~~-p~~~~~------------------------------~~l~~~~-----------  189 (485)
                      ..|.+.|+.++|.++++++...... |...+|                              -.++..+           
T Consensus       255 ~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  334 (987)
T PRK09782        255 TALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQK  334 (987)
T ss_pred             HHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHH
Confidence            9999999999999888887654322 222222                              0001111           


Q ss_pred             ----------------------------------------------------HhCCCcccHHHHHHHHHHc-C-CCccHH
Q 048394          190 ----------------------------------------------------LRLGQPEKVRPLVNQMKQR-N-ISLDNL  215 (485)
Q Consensus       190 ----------------------------------------------------~~~g~~~~a~~~~~~~~~~-~-~~p~~~  215 (485)
                                                                          .+.|+.++|.++|+..... + -.++..
T Consensus       335 ~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  414 (987)
T PRK09782        335 LLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQT  414 (987)
T ss_pred             HhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHH
Confidence                                                                2234445555555554431 0 112223


Q ss_pred             HHHHHHHHHHhcCC---HhHHHH----------------------HHHHHHhcc-CCCC--cHHHHHHHHHHHHhcccHH
Q 048394          216 TYIVWMQSYSHLND---IDGVER----------------------VFYEMCNEC-EDKC--RWTTYSNLASIYVKAELFE  267 (485)
Q Consensus       216 ~~~~l~~~~~~~~~---~~~a~~----------------------~~~~~~~~~-~~~~--~~~~~~~l~~~~~~~~~~~  267 (485)
                      ...-++..|.+.+.   ...+..                      .++...... ..++  +...|..+..++.. ++.+
T Consensus       415 l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~  493 (987)
T PRK09782        415 LMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPG  493 (987)
T ss_pred             HHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcH
Confidence            33355555555544   122211                      122221111 2344  67777778888776 7888


Q ss_pred             HHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048394          268 KAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESR  347 (485)
Q Consensus       268 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  347 (485)
                      +|...+.+.....|. ......+...+...|++++|...|+++....+. ...+..+...+.+.|+.++|.+.++...+.
T Consensus       494 eAi~a~~~Al~~~Pd-~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~-~~a~~~la~all~~Gd~~eA~~~l~qAL~l  571 (987)
T PRK09782        494 VALYAWLQAEQRQPD-AWQHRAVAYQAYQVEDYATALAAWQKISLHDMS-NEDLLAAANTAQAAGNGAARDRWLQQAEQR  571 (987)
T ss_pred             HHHHHHHHHHHhCCc-hHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCC-cHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            899988887776553 333444555567899999999999987665333 344567778888999999999999999887


Q ss_pred             cCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCc
Q 048394          348 CSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRP  427 (485)
Q Consensus       348 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  427 (485)
                      .+. +...+..+.......|++++|...+++..+.    .|+...|..+...+.+.|++++|+..+++.+..     .+.
T Consensus       572 ~P~-~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l----~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l-----~Pd  641 (987)
T PRK09782        572 GLG-DNALYWWLHAQRYIPGQPELALNDLTRSLNI----APSANAYVARATIYRQRHNVPAAVSDLRAALEL-----EPN  641 (987)
T ss_pred             CCc-cHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh----CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----CCC
Confidence            533 3333334444455669999999999999877    667788888889999999999999999999997     445


Q ss_pred             cHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          428 MQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       428 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      +...+..+..++...|++++|...++++.+..|.++.++..++.++...|++++|++
T Consensus       642 ~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~  698 (987)
T PRK09782        642 NSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQH  698 (987)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            667788888899999999999999999999999999999999999999999998864

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

Probab=99.86  E-value=1.2e-17  Score=157.96  Aligned_cols=391  Identities=14%  Similarity=0.077  Sum_probs=247.0

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhh--HHHHHHHHHhhCCHHHHHHHHHhhcccCCC-HhHHHHHH
Q 048394           75 RKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTD--FAVYLDLTAKTNGIAAAEKYFNGLSEYAKN-RYTYGALL  151 (485)
Q Consensus        75 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~li  151 (485)
                      -+..|..+.+++...|+++.|...|.+..+..  ++..+  +--+.+.+.+.|+++.+...|+.+....|| ..+...|.
T Consensus       306 ~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~--~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG  383 (1018)
T KOG2002|consen  306 KAESFYQLGRSYHAQGDFEKAFKYYMESLKAD--NDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILG  383 (1018)
T ss_pred             HHHHHHHHHHHHHhhccHHHHHHHHHHHHccC--CCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHH
Confidence            34567777888888888888888888776654  33333  344667788888888888888887773343 44555555


Q ss_pred             HHHHhcC----cHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHH----HcCCCccHHHHHHHHHH
Q 048394          152 NCYCKEL----MTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMK----QRNISLDNLTYIVWMQS  223 (485)
Q Consensus       152 ~~~~~~~----~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~----~~~~~p~~~~~~~l~~~  223 (485)
                      ..|...+    ..+.|..++.+..+..+. |...|-.+...+-.. ++..++..|....    ..+..+.+...|.+...
T Consensus       384 ~Lya~~~~~~~~~d~a~~~l~K~~~~~~~-d~~a~l~laql~e~~-d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvasl  461 (1018)
T KOG2002|consen  384 CLYAHSAKKQEKRDKASNVLGKVLEQTPV-DSEAWLELAQLLEQT-DPWASLDAYGNALDILESKGKQIPPEVLNNVASL  461 (1018)
T ss_pred             hHHHhhhhhhHHHHHHHHHHHHHHhcccc-cHHHHHHHHHHHHhc-ChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHH
Confidence            5555543    445555555555544322 444554444443322 2222243333322    23333444555555555


Q ss_pred             HHhcCCHhHHHHHHHHHHhcc------------------------------------------CCCCcHHHHHHHHHHHH
Q 048394          224 YSHLNDIDGVERVFYEMCNEC------------------------------------------EDKCRWTTYSNLASIYV  261 (485)
Q Consensus       224 ~~~~~~~~~a~~~~~~~~~~~------------------------------------------~~~~~~~~~~~l~~~~~  261 (485)
                      +...|++..|...|.......                                          ..|--...|.-++....
T Consensus       462 hf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~YId~ylRl~~ma~  541 (1018)
T KOG2002|consen  462 HFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHPGYIDAYLRLGCMAR  541 (1018)
T ss_pred             HHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCchhHHHHHHhhHHHH
Confidence            555555555555555444310                                          22222223323332222


Q ss_pred             hcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC--ChhhHHHHHHHHHh---------
Q 048394          262 KAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP--TNTSYLVLLQALAK---------  330 (485)
Q Consensus       262 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~---------  330 (485)
                      ..+...+|...++........++..+..+...+.+...+..|..-|+.+.+....  |..+...|.+.|..         
T Consensus       542 ~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~  621 (1018)
T KOG2002|consen  542 DKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNP  621 (1018)
T ss_pred             hccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccCh
Confidence            3355566666666666666666777777777777777777777766655544333  55555566665542         


Q ss_pred             ---cCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHH
Q 048394          331 ---LNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLD  407 (485)
Q Consensus       331 ---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  407 (485)
                         .+..+.|+++|.++++..+. |...-|.+.-+++..|++.+|..+|.+..+..   .....+|..+.+.|+..|++.
T Consensus       622 ek~kk~~~KAlq~y~kvL~~dpk-N~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~---~~~~dv~lNlah~~~e~~qy~  697 (1018)
T KOG2002|consen  622 EKEKKHQEKALQLYGKVLRNDPK-NMYAANGIGIVLAEKGRFSEARDIFSQVREAT---SDFEDVWLNLAHCYVEQGQYR  697 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCcc-hhhhccchhhhhhhccCchHHHHHHHHHHHHH---hhCCceeeeHHHHHHHHHHHH
Confidence               24567788888888887666 77777888888888888888888888888764   335567778888888888888


Q ss_pred             HHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHh
Q 048394          408 LALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAA  476 (485)
Q Consensus       408 ~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  476 (485)
                      .|+++|+...+.-   ....+..+...|.+++.+.|.+.+|.+.+..+....|.|+.....++-+..+.
T Consensus       698 ~AIqmYe~~lkkf---~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkl  763 (1018)
T KOG2002|consen  698 LAIQMYENCLKKF---YKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKL  763 (1018)
T ss_pred             HHHHHHHHHHHHh---cccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHH
Confidence            8888888887763   12346677778888888888888888888888888888877766666655443

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.85  E-value=5e-16  Score=153.21  Aligned_cols=398  Identities=11%  Similarity=-0.015  Sum_probs=291.2

Q ss_pred             CcHHHHHHHHHHhCCCCCHHHHHH--HHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHH
Q 048394           58 GSVTGALNAYIMEGKTVRKDMLEY--CVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFN  135 (485)
Q Consensus        58 ~~~~~~~~~~~~~g~~~~~~~~~~--l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  135 (485)
                      +...+++..+.+.-.+-+...+..  +...+...|++++|+++|+++.+.. +-+...+..++..+...++.++|++.++
T Consensus        82 G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~  160 (822)
T PRK14574         82 GRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQAT  160 (822)
T ss_pred             CCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHH
Confidence            444445555544442223333333  3567888899999999999998886 3456677777888999999999999999


Q ss_pred             hhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHH
Q 048394          136 GLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNL  215 (485)
Q Consensus       136 ~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  215 (485)
                      ++....|+...+..++..+...++..+|++.++++.+..+. +...+..++.++.+.|-...|.++..+-.+. +.+...
T Consensus       161 ~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~P~-n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~  238 (822)
T PRK14574        161 ELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRLAPT-SEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHY  238 (822)
T ss_pred             HhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHH
Confidence            99997788777766655555567776799999999998644 6777888999999999999998877664432 112111


Q ss_pred             HH------HHHHHHH-H----hcCC---HhHHHHHHHHHHhccCC-CCcHHH----HHHHHHHHHhcccHHHHHHHHHHH
Q 048394          216 TY------IVWMQSY-S----HLND---IDGVERVFYEMCNECED-KCRWTT----YSNLASIYVKAELFEKAELALKKL  276 (485)
Q Consensus       216 ~~------~~l~~~~-~----~~~~---~~~a~~~~~~~~~~~~~-~~~~~~----~~~l~~~~~~~~~~~~A~~~~~~~  276 (485)
                      -+      ..+++.- .    ...+   .+.|+.-++.+....+. |+....    ..-.+-++...+++.++++.++.+
T Consensus       239 ~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l  318 (822)
T PRK14574        239 RQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAM  318 (822)
T ss_pred             HHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHh
Confidence            11      1111110 0    1112   34555566665542233 322222    223455677889999999999999


Q ss_pred             Hh-cCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCC-----C-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccC
Q 048394          277 EE-MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFP-----P-TNTSYLVLLQALAKLNAIDILKQCFEEWESRCS  349 (485)
Q Consensus       277 ~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  349 (485)
                      .. ..+-...+-..+.++|...+++++|..++..+....+     + +......|.-++...+++++|..+++.+.+..+
T Consensus       319 ~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p  398 (822)
T PRK14574        319 EAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTP  398 (822)
T ss_pred             hhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCC
Confidence            87 3344567888999999999999999999999876542     1 344457889999999999999999999987422


Q ss_pred             -----------CCC---HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHH
Q 048394          350 -----------SYD---MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEA  415 (485)
Q Consensus       350 -----------~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  415 (485)
                                 .||   ...+..++..+.-.|+..+|++.++++....   +-|......+...+...|.+.+|.+.++.
T Consensus       399 ~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a---P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~  475 (822)
T PRK14574        399 YQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA---PANQNLRIALASIYLARDLPRKAEQELKA  475 (822)
T ss_pred             cEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence                       122   2234456777889999999999999998774   56777788888999999999999999987


Q ss_pred             HHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHH
Q 048394          416 ALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAY  466 (485)
Q Consensus       416 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  466 (485)
                      ....     .+-+..+......++...+++.+|..+.+.+.+..|.+..+-
T Consensus       476 a~~l-----~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~Pe~~~~~  521 (822)
T PRK14574        476 VESL-----APRSLILERAQAETAMALQEWHQMELLTDDVISRSPEDIPSQ  521 (822)
T ss_pred             Hhhh-----CCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCCCchhHH
Confidence            7776     344567778888899999999999999999999999877554

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.84  E-value=3.5e-16  Score=157.48  Aligned_cols=381  Identities=10%  Similarity=-0.055  Sum_probs=279.3

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHH--HhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhc
Q 048394           81 YCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLT--AKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKE  157 (485)
Q Consensus        81 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~  157 (485)
                      .++..+.+.++++.+.++.+      ..|....  ..++..  ...+...++.+.+..+-+ .+-+.....-+.....+.
T Consensus       318 ~~~~~~~~~~~~~~~~~~~~------~~~~~~~--~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~  389 (987)
T PRK09782        318 ATLPVLLKEGQYDAAQKLLA------TLPANEM--LEERYAVSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQN  389 (987)
T ss_pred             HHHHHHHhccHHHHHHHHhc------CCCcchH--HHHHHhhccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHc
Confidence            34666777888886665522      2233332  233322  233566666666666655 344666666666667889


Q ss_pred             CcHHHHHHHHHHHHhC-C-CCCChhhHHHHHHHHHhCCCcc---cHHHH----------------------HHHHHHc-C
Q 048394          158 LMTERALALFEKMDEL-K-FLGNTVAFNNLSTMYLRLGQPE---KVRPL----------------------VNQMKQR-N  209 (485)
Q Consensus       158 ~~~~~A~~~~~~m~~~-~-~~p~~~~~~~l~~~~~~~g~~~---~a~~~----------------------~~~~~~~-~  209 (485)
                      |+.++|.++|+..... + -.++....+-++..|.+.+...   ++..+                      +...... +
T Consensus       390 ~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~  469 (987)
T PRK09782        390 GQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLG  469 (987)
T ss_pred             ccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcc
Confidence            9999999999988762 1 2223334456777777776522   22222                      1112111 1


Q ss_pred             C-Cc--cHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHH
Q 048394          210 I-SL--DNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKA  286 (485)
Q Consensus       210 ~-~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  286 (485)
                      . ++  +...|..+..++.. ++.++|...+.+...  .. |+......+...+...|++++|...++++....+ +...
T Consensus       470 ~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~--~~-Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p-~~~a  544 (987)
T PRK09782        470 DMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQ--RQ-PDAWQHRAVAYQAYQVEDYATALAAWQKISLHDM-SNED  544 (987)
T ss_pred             cCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHH--hC-CchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCC-CcHH
Confidence            1 33  56677777777766 889999998888776  22 4444444455666789999999999999766544 4556


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhc
Q 048394          287 YHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQK  366 (485)
Q Consensus       287 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  366 (485)
                      +..+..++.+.|+.++|...+++..+..+.....+..+.......|++++|...+++..+..  |+...+..+..++.+.
T Consensus       545 ~~~la~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~~l  622 (987)
T PRK09782        545 LLAAANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLNIA--PSANAYVARATIYRQR  622 (987)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHC
Confidence            77788889999999999999999988876665555555556667799999999999998875  4678888999999999


Q ss_pred             CcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChh
Q 048394          367 DMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVD  446 (485)
Q Consensus       367 ~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  446 (485)
                      |++++|...+++..+..   +.+...++.+...+...|++++|+..+++.++.     .+-+...+..+..++...|+++
T Consensus       623 G~~deA~~~l~~AL~l~---Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l-----~P~~~~a~~nLA~al~~lGd~~  694 (987)
T PRK09782        623 HNVPAAVSDLRAALELE---PNNSNYQAALGYALWDSGDIAQSREMLERAHKG-----LPDDPALIRQLAYVNQRLDDMA  694 (987)
T ss_pred             CCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----CCCCHHHHHHHHHHHHHCCCHH
Confidence            99999999999999884   445567777888899999999999999999997     4557788999999999999999


Q ss_pred             hHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          447 GAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       447 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      +|+..++++.+..|.+..+....++...+..+++.|.+
T Consensus       695 eA~~~l~~Al~l~P~~a~i~~~~g~~~~~~~~~~~a~~  732 (987)
T PRK09782        695 ATQHYARLVIDDIDNQALITPLTPEQNQQRFNFRRLHE  732 (987)
T ss_pred             HHHHHHHHHHhcCCCCchhhhhhhHHHHHHHHHHHHHH
Confidence            99999999999999998888888888888887776653

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.84  E-value=4.6e-16  Score=134.33  Aligned_cols=290  Identities=18%  Similarity=0.219  Sum_probs=181.4

Q ss_pred             HHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHH--hhCCH-------------------------HHHHHHHHhhc
Q 048394           86 LRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTA--KTNGI-------------------------AAAEKYFNGLS  138 (485)
Q Consensus        86 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~g~~-------------------------~~a~~~~~~~~  138 (485)
                      +...|...++.-+|+.|.+.|++.+...-..++...+  ...++                         +-|.-+|+.. 
T Consensus       125 mIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~vAdL~~E~~-  203 (625)
T KOG4422|consen  125 MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGAVADLLFETL-  203 (625)
T ss_pred             HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccccHHHHHHhhc-
Confidence            4566777888888888887777666665555444322  11111                         1112222222 


Q ss_pred             ccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHH
Q 048394          139 EYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYI  218 (485)
Q Consensus       139 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~  218 (485)
                        +.+..+|..+|.++++-...+.|.+++++-.....+.+..+||.+|.+-.-..    ..+++.+|....+.||..|+|
T Consensus       204 --PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfN  277 (625)
T KOG4422|consen  204 --PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFN  277 (625)
T ss_pred             --CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHH
Confidence              23566777777777777777777777777776666667777777776544322    266777777777777777777


Q ss_pred             HHHHHHHhcCCHhH----HHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHH-HHHHHHHHHh---------cCCCCh
Q 048394          219 VWMQSYSHLNDIDG----VERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEK-AELALKKLEE---------MKPRDR  284 (485)
Q Consensus       219 ~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-A~~~~~~~~~---------~~~~~~  284 (485)
                      +++++..+.|+++.    |.+++.+|.+ -|..|+..+|..++..+++.++..+ |..++..+..         ..|.+.
T Consensus       278 alL~c~akfg~F~~ar~aalqil~EmKe-iGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~  356 (625)
T KOG4422|consen  278 ALLSCAAKFGKFEDARKAALQILGEMKE-IGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDN  356 (625)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHHHHHH-hCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchh
Confidence            77777777776654    4455666666 6777777777777777777766533 3333333332         233455


Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHhhhc------CCC--ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhH
Q 048394          285 KAYHFLISLYCNTSNLDAVNRVWGILKST------FPP--TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLA  356 (485)
Q Consensus       285 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  356 (485)
                      ..|...+..|.+..+.+.|.++..-+...      |+.  ...-|..+....|.....+.-...|+.|.-.-.-|+..+.
T Consensus       357 ~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m  436 (625)
T KOG4422|consen  357 KFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTM  436 (625)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhH
Confidence            66666777777777777776665554432      111  2233455666666666677777777777666666666666


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHhcc
Q 048394          357 DVIIRAYLQKDMYEEAALIFNNAKKRA  383 (485)
Q Consensus       357 ~~l~~~~~~~~~~~~A~~~~~~~~~~~  383 (485)
                      ..++++..-.|.++-.-++|..++..|
T Consensus       437 ~~~lrA~~v~~~~e~ipRiw~D~~~~g  463 (625)
T KOG4422|consen  437 IHLLRALDVANRLEVIPRIWKDSKEYG  463 (625)
T ss_pred             HHHHHHHhhcCcchhHHHHHHHHHHhh
Confidence            666776666666666666666665554

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

Probab=99.82  E-value=5.1e-17  Score=141.19  Aligned_cols=348  Identities=15%  Similarity=0.069  Sum_probs=230.5

Q ss_pred             HHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhH--------HHHHHH----
Q 048394          121 TAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAF--------NNLSTM----  188 (485)
Q Consensus       121 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~--------~~l~~~----  188 (485)
                      +.+.|+++.|+..|+...+..||..+-..|+-++.--|+-++..+.|.+|...-..||..-|        ..|+.-    
T Consensus       286 fiq~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~n  365 (840)
T KOG2003|consen  286 FIQAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIKN  365 (840)
T ss_pred             EEecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHhh
Confidence            34678888888888888887788776666666666778888888999888765433333222        111111    


Q ss_pred             -----HHhCC--CcccHHHHHHHHHHcCCCccHH-------------HH--------HHHHHHHHhcCCHhHHHHHHHHH
Q 048394          189 -----YLRLG--QPEKVRPLVNQMKQRNISLDNL-------------TY--------IVWMQSYSHLNDIDGVERVFYEM  240 (485)
Q Consensus       189 -----~~~~g--~~~~a~~~~~~~~~~~~~p~~~-------------~~--------~~l~~~~~~~~~~~~a~~~~~~~  240 (485)
                           .-+.+  +-++++-.--++..--+.|+-.             .+        ..-...+.+.|+++.|+++++-.
T Consensus       366 d~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieilkv~  445 (840)
T KOG2003|consen  366 DHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEILKVF  445 (840)
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHHHHH
Confidence                 11111  0111111111111100111100             00        01123466777777777777665


Q ss_pred             HhccC-----------------------------------CCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChH
Q 048394          241 CNECE-----------------------------------DKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRK  285 (485)
Q Consensus       241 ~~~~~-----------------------------------~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  285 (485)
                      .+...                                   ...+......-.+.....|++++|.+.+++....+.....
T Consensus       446 ~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~e  525 (840)
T KOG2003|consen  446 EKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASCTE  525 (840)
T ss_pred             HhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHHHH
Confidence            54111                                   1111111111111222357888888888887765444455


Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHh
Q 048394          286 AYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQ  365 (485)
Q Consensus       286 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  365 (485)
                      ....+.-.+-..|++++|++.|-++...-..+..+...+.+.|....+..+|++++.+.... +..|+.+...|...|-+
T Consensus       526 alfniglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl~dlydq  604 (840)
T KOG2003|consen  526 ALFNIGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKLADLYDQ  604 (840)
T ss_pred             HHHHhcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHHHHhhc
Confidence            55556666778888899988888876655557777888888888888888998888877665 33478888999999999


Q ss_pred             cCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHH-HHhhcCC
Q 048394          366 KDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFR-FFEEEKD  444 (485)
Q Consensus       366 ~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~  444 (485)
                      .|+-..|.+.+-.--+. .  +-+..+...|...|....-+++|+.+|++..-      ++|+..-|..++. ++.+.|+
T Consensus       605 egdksqafq~~ydsyry-f--p~nie~iewl~ayyidtqf~ekai~y~ekaal------iqp~~~kwqlmiasc~rrsgn  675 (840)
T KOG2003|consen  605 EGDKSQAFQCHYDSYRY-F--PCNIETIEWLAAYYIDTQFSEKAINYFEKAAL------IQPNQSKWQLMIASCFRRSGN  675 (840)
T ss_pred             ccchhhhhhhhhhcccc-c--CcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh------cCccHHHHHHHHHHHHHhccc
Confidence            99999888876443322 2  55677888888888899999999999998765      5699999988884 5577899


Q ss_pred             hhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCC
Q 048394          445 VDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGK  478 (485)
Q Consensus       445 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  478 (485)
                      +..|..+|+......|.|......|+..+...|-
T Consensus       676 yqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  676 YQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            9999999999999999999999999888776664

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

Probab=99.81  E-value=2.7e-15  Score=136.23  Aligned_cols=397  Identities=12%  Similarity=0.052  Sum_probs=295.5

Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC--ChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-c
Q 048394           64 LNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHF--SYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-Y  140 (485)
Q Consensus        64 ~~~~~~~g~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~  140 (485)
                      +..+...|+..+...+..-...|-..|..--+..+.......|+.-  -..||+.-.+.|.+.+.++-|..+|....+ .
T Consensus       467 l~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvf  546 (913)
T KOG0495|consen  467 LSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVF  546 (913)
T ss_pred             HHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhc
Confidence            3455667888898888888888888888888888888877776542  234677777888888889999999988888 5


Q ss_pred             CCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHH
Q 048394          141 AKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVW  220 (485)
Q Consensus       141 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  220 (485)
                      +.+...|...+..--..|..++-..+|++....-.+ ....|-.....+...|+...|..++.+..+.. +.+...|...
T Consensus       547 p~k~slWlra~~~ek~hgt~Esl~Allqkav~~~pk-ae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaa  624 (913)
T KOG0495|consen  547 PCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCPK-AEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAA  624 (913)
T ss_pred             cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            556678888777777788888888888888876433 55566666777778888888888888887763 3467778888


Q ss_pred             HHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCCh
Q 048394          221 MQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNL  300 (485)
Q Consensus       221 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  300 (485)
                      +.....+.+++.|..+|.+...   ..++..+|..-+....-.++.++|.+++++..+..|.-...|..+.+.+-+.++.
T Consensus       625 vKle~en~e~eraR~llakar~---~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~i  701 (913)
T KOG0495|consen  625 VKLEFENDELERARDLLAKARS---ISGTERVWMKSANLERYLDNVEEALRLLEEALKSFPDFHKLWLMLGQIEEQMENI  701 (913)
T ss_pred             HHHhhccccHHHHHHHHHHHhc---cCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhCCchHHHHHHHhHHHHHHHHH
Confidence            8888888888889888888866   6677777766777777778888888888888888887788888888888888888


Q ss_pred             hhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHH
Q 048394          301 DAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAK  380 (485)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  380 (485)
                      +.|...|..-.+..|.....|..+...-.+.|.+-.|..+++...-.+++ +...|-..|++-.+.|+.+.|..+..+.+
T Consensus       702 e~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk-~~~lwle~Ir~ElR~gn~~~a~~lmakAL  780 (913)
T KOG0495|consen  702 EMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPK-NALLWLESIRMELRAGNKEQAELLMAKAL  780 (913)
T ss_pred             HHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            88888888877777777788888888888888888888888888877776 78888888888888888888888887776


Q ss_pred             hcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCC
Q 048394          381 KRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNC  460 (485)
Q Consensus       381 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  460 (485)
                      +.-   +.+...|..-|...-+.++-..+.+.+++         ..-|+.+...+...+....+++.|.++|.+.++.+|
T Consensus       781 Qec---p~sg~LWaEaI~le~~~~rkTks~DALkk---------ce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~  848 (913)
T KOG0495|consen  781 QEC---PSSGLLWAEAIWLEPRPQRKTKSIDALKK---------CEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDP  848 (913)
T ss_pred             HhC---CccchhHHHHHHhccCcccchHHHHHHHh---------ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCC
Confidence            651   22333454444444444443333332222         335555566666666666666666666666666666


Q ss_pred             CCHHHHHHHHHHHHHhCC
Q 048394          461 LDFSAYSLLIKTYIAAGK  478 (485)
Q Consensus       461 ~~~~~~~~l~~~~~~~g~  478 (485)
                      .+-.+|..+...+.+.|.
T Consensus       849 d~GD~wa~fykfel~hG~  866 (913)
T KOG0495|consen  849 DNGDAWAWFYKFELRHGT  866 (913)
T ss_pred             ccchHHHHHHHHHHHhCC
Confidence            666666666666666663

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

Probab=99.78  E-value=2.2e-14  Score=130.47  Aligned_cols=378  Identities=11%  Similarity=0.002  Sum_probs=322.5

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHH
Q 048394           76 KDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCY  154 (485)
Q Consensus        76 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~  154 (485)
                      ..++..-...|.+.+.++-|..+|....+.- +-+...|......--..|..+.-..+|++... .+.....|......+
T Consensus       516 ~~tw~~da~~~~k~~~~~carAVya~alqvf-p~k~slWlra~~~ek~hgt~Esl~Allqkav~~~pkae~lwlM~ake~  594 (913)
T KOG0495|consen  516 KSTWLDDAQSCEKRPAIECARAVYAHALQVF-PCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCPKAEILWLMYAKEK  594 (913)
T ss_pred             HhHHhhhHHHHHhcchHHHHHHHHHHHHhhc-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCcchhHHHHHHHHH
Confidence            3456666777888899999999999988764 34666777777777778999999999999988 555667788888888


Q ss_pred             HhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHH
Q 048394          155 CKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVE  234 (485)
Q Consensus       155 ~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  234 (485)
                      ...|++..|..++.+..+.... +...|-..+.....+.++++|..+|.+....  .|+...|.--+...--.+..++|.
T Consensus       595 w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~  671 (913)
T KOG0495|consen  595 WKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEAL  671 (913)
T ss_pred             HhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHH
Confidence            9999999999999999987755 7788999999999999999999999998874  688888888888778889999999


Q ss_pred             HHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcC
Q 048394          235 RVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTF  314 (485)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  314 (485)
                      +++++..+  .++.-...|-.+.+.+-+.++.+.|.+.|..-.+..|.....|..+...--+.|.+-.|..++++..-.+
T Consensus       672 rllEe~lk--~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN  749 (913)
T KOG0495|consen  672 RLLEEALK--SFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN  749 (913)
T ss_pred             HHHHHHHH--hCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC
Confidence            99999998  6777788888999999999999999999998877888888999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHH
Q 048394          315 PPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRE  394 (485)
Q Consensus       315 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~  394 (485)
                      |.+...|...|..-.+.|..+.|..+..+..+..+. +...|..-|....+.++-......+++.       .-|.....
T Consensus       750 Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~-sg~LWaEaI~le~~~~rkTks~DALkkc-------e~dphVll  821 (913)
T KOG0495|consen  750 PKNALLWLESIRMELRAGNKEQAELLMAKALQECPS-SGLLWAEAIWLEPRPQRKTKSIDALKKC-------EHDPHVLL  821 (913)
T ss_pred             CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cchhHHHHHHhccCcccchHHHHHHHhc-------cCCchhHH
Confidence            999999999999999999999999999999887655 7888888888877777755554444432       44556666


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHH
Q 048394          395 SFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKT  472 (485)
Q Consensus       395 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  472 (485)
                      .+...|-...++++|.++|.+.++.+     +....+|..+...+.+.|.-+.-.+++.+.....|..-..|.....-
T Consensus       822 aia~lfw~e~k~~kar~Wf~Ravk~d-----~d~GD~wa~fykfel~hG~eed~kev~~~c~~~EP~hG~~W~avSK~  894 (913)
T KOG0495|consen  822 AIAKLFWSEKKIEKAREWFERAVKKD-----PDNGDAWAWFYKFELRHGTEEDQKEVLKKCETAEPTHGELWQAVSKD  894 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHccC-----CccchHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCCCcHHHHHhhh
Confidence            77788889999999999999999984     45678999999999999999999999999999988877777666543

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

Probab=99.78  E-value=3.9e-14  Score=134.56  Aligned_cols=411  Identities=14%  Similarity=0.075  Sum_probs=305.5

Q ss_pred             HHHHHHHHHH--hCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC--CCCChhhHHHHHHHHHhhCCHHHHHHHHH
Q 048394           60 VTGALNAYIM--EGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRK--MHFSYTDFAVYLDLTAKTNGIAAAEKYFN  135 (485)
Q Consensus        60 ~~~~~~~~~~--~g~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  135 (485)
                      +..+...+..  ..-+++...+.--.......+++..|+.+|.......  .+||+..  .+..++.+.|+.+.|...|.
T Consensus       146 ~~~A~a~F~~Vl~~sp~Nil~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~rI--gig~Cf~kl~~~~~a~~a~~  223 (1018)
T KOG2002|consen  146 MDDADAQFHFVLKQSPDNILALLGKARIAYNKKDYRGALKYYKKALRINPACKADVRI--GIGHCFWKLGMSEKALLAFE  223 (1018)
T ss_pred             HHHHHHHHHHHHhhCCcchHHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCccc--hhhhHHHhccchhhHHHHHH
Confidence            4455444432  3345555555555555566789999999999975543  3455432  23456679999999999999


Q ss_pred             hhcccCCC-HhHHHHHHHHHHhc---CcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCC
Q 048394          136 GLSEYAKN-RYTYGALLNCYCKE---LMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNIS  211 (485)
Q Consensus       136 ~~~~~~~~-~~~~~~li~~~~~~---~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  211 (485)
                      +..+..|+ +.++..|...-...   ..+..+..++...-..+.. |+...+.|.+.|...|+++.++.+...+......
T Consensus       224 ralqLdp~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n~~-nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~  302 (1018)
T KOG2002|consen  224 RALQLDPTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKENNE-NPVALNHLANHFYFKKDYERVWHLAEHAIKNTEN  302 (1018)
T ss_pred             HHHhcChhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhcCC-CcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhh
Confidence            99996553 33343333332333   3456677777777655544 7788999999999999999999999998875311


Q ss_pred             --ccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCc-HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHH
Q 048394          212 --LDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCR-WTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYH  288 (485)
Q Consensus       212 --p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  288 (485)
                        .-...|-.+.++|-..|++++|..+|.+..+  ..+.+ ...+.-++..|.+.|+.+.+...|+.+.+..|.+..+..
T Consensus       303 ~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k--~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~  380 (1018)
T KOG2002|consen  303 KSIKAESFYQLGRSYHAQGDFEKAFKYYMESLK--ADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMK  380 (1018)
T ss_pred             hHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHc--cCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHH
Confidence              1234577799999999999999999999887  22222 445566899999999999999999999998888999999


Q ss_pred             HHHHHHHhcC----ChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHH----HccCCCCHHhHHHHH
Q 048394          289 FLISLYCNTS----NLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWE----SRCSSYDMRLADVII  360 (485)
Q Consensus       289 ~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~l~  360 (485)
                      .+...|...+    ..+.|..++.+.....+.+...|..+...+....-+ .++..|..+.    ..+..+.+...|.+.
T Consensus       381 iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laql~e~~d~~-~sL~~~~~A~d~L~~~~~~ip~E~LNNva  459 (1018)
T KOG2002|consen  381 ILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQLLEQTDPW-ASLDAYGNALDILESKGKQIPPEVLNNVA  459 (1018)
T ss_pred             HHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHhcChH-HHHHHHHHHHHHHHHcCCCCCHHHHHhHH
Confidence            9999998875    567888888888888877999998888877665444 3377766543    445557889999999


Q ss_pred             HHHHhcCcHHHHHHHHHHHHhc---ccccCCchh------HHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHH
Q 048394          361 RAYLQKDMYEEAALIFNNAKKR---ANASARFFK------SRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVT  431 (485)
Q Consensus       361 ~~~~~~~~~~~A~~~~~~~~~~---~~~~~p~~~------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  431 (485)
                      ..+...|++++|...|+.....   ..  .++..      +--.+...+-..++.+.|.+.|..++...     +--...
T Consensus       460 slhf~~g~~~~A~~~f~~A~~~~~~~~--n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh-----p~YId~  532 (1018)
T KOG2002|consen  460 SLHFRLGNIEKALEHFKSALGKLLEVA--NKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH-----PGYIDA  532 (1018)
T ss_pred             HHHHHhcChHHHHHHHHHHhhhhhhhc--CccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC-----chhHHH
Confidence            9999999999999999988765   12  34432      22234455567789999999999999973     333445


Q ss_pred             HHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchh
Q 048394          432 VDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDM  483 (485)
Q Consensus       432 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  483 (485)
                      |..++......++..+|...++.+.+.+..++.++..+++.+.+..+|..|-
T Consensus       533 ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~  584 (1018)
T KOG2002|consen  533 YLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAK  584 (1018)
T ss_pred             HHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccc
Confidence            5555544455678899999999999999999999999999999888776654

>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=2.5e-14  Score=124.96  Aligned_cols=353  Identities=13%  Similarity=0.061  Sum_probs=219.0

Q ss_pred             CCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhH---HH
Q 048394          108 HFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAF---NN  184 (485)
Q Consensus       108 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~---~~  184 (485)
                      ..|...+-.....+.+.|....|+..|.......  +..|.+.+....-..+.+.+..+    ...+ ..| ..|   -.
T Consensus       161 ~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~--P~~W~AWleL~~lit~~e~~~~l----~~~l-~~~-~h~M~~~F  232 (559)
T KOG1155|consen  161 EKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRY--PWFWSAWLELSELITDIEILSIL----VVGL-PSD-MHWMKKFF  232 (559)
T ss_pred             cchhHHHHHHHHHHHhhchHHHHHHHHHHHHhcC--CcchHHHHHHHHhhchHHHHHHH----HhcC-ccc-chHHHHHH
Confidence            3444443333445566788888888887766521  23333333322222333322222    1111 111 111   12


Q ss_pred             HHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCC---cHHHHHHHHHHHH
Q 048394          185 LSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKC---RWTTYSNLASIYV  261 (485)
Q Consensus       185 l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~~l~~~~~  261 (485)
                      +..++....+.+++.+-.+.....|++.+...-+....+.....++++|+.+|+++.+  ..|.   |..+|..++-.- 
T Consensus       233 ~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~k--nDPYRl~dmdlySN~LYv~-  309 (559)
T KOG1155|consen  233 LKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRK--NDPYRLDDMDLYSNVLYVK-  309 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHh--cCCCcchhHHHHhHHHHHH-
Confidence            3344555556677777777777777655555555555566677788888888888877  3443   344444443322 


Q ss_pred             hcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHH
Q 048394          262 KAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCF  341 (485)
Q Consensus       262 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  341 (485)
                       . +-.+---+-+...+++.--+.|...+.+-|.-.++.++|...|++..+.++....+|+.+..-|...++...|.+-+
T Consensus       310 -~-~~skLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sY  387 (559)
T KOG1155|consen  310 -N-DKSKLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESY  387 (559)
T ss_pred             -h-hhHHHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHH
Confidence             1 11111112222222444456677777777777777788888888877777777777777788888888888888888


Q ss_pred             HHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhh
Q 048394          342 EEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAK  421 (485)
Q Consensus       342 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  421 (485)
                      +...+-++. |-..|-.|.++|.-.+...-|+-+|++..+..   +.|...|..|.+.|.+.++.++|++.|.+....+ 
T Consensus       388 RrAvdi~p~-DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k---PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-  462 (559)
T KOG1155|consen  388 RRAVDINPR-DYRAWYGLGQAYEIMKMHFYALYYFQKALELK---PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-  462 (559)
T ss_pred             HHHHhcCch-hHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC---CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-
Confidence            877776655 77777778888877777777888887777663   4566777777788888888888888888777763 


Q ss_pred             hcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhc-------CCCCHHHHHHHHHHHHHhCCCcch
Q 048394          422 QFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSL-------NCLDFSAYSLLIKTYIAAGKLASD  482 (485)
Q Consensus       422 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~g~~~~A  482 (485)
                          ..+...+..+...+.+.++.++|...|++.++.       ++....+..-|+.-+.+.+++++|
T Consensus       463 ----dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~A  526 (559)
T KOG1155|consen  463 ----DTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEA  526 (559)
T ss_pred             ----ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHH
Confidence                335567777777777788888887777777662       222334444577777777777766

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

Probab=99.77  E-value=5.5e-18  Score=150.38  Aligned_cols=261  Identities=18%  Similarity=0.127  Sum_probs=104.9

Q ss_pred             HHHHHHHhhCCHHHHHHHHHhhc-cc-CC-CHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhC
Q 048394          116 VYLDLTAKTNGIAAAEKYFNGLS-EY-AK-NRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRL  192 (485)
Q Consensus       116 ~l~~~~~~~g~~~~a~~~~~~~~-~~-~~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  192 (485)
                      .+...+.+.|++++|+++++... .. +| |...|..+...+...++++.|.+.++++...+.. +...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            44667777888888888885443 33 23 3445555666666778888888888888776644 55566666666 678


Q ss_pred             CCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHH
Q 048394          193 GQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELA  272 (485)
Q Consensus       193 g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  272 (485)
                      +++++|.+++.+..+..  ++...+..++..+.+.++++++..+++.+......+.+...|..+...+.+.|+.++|+..
T Consensus        91 ~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             ccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            88888888887765542  4566667777778888888888888888776344566777788888888888888888888


Q ss_pred             HHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCC
Q 048394          273 LKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYD  352 (485)
Q Consensus       273 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  352 (485)
                      +++..+..|.+......++..+...|+.+++..+++......+.++..+..+..++...|+.++|...|++..+..+. |
T Consensus       169 ~~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~-d  247 (280)
T PF13429_consen  169 YRKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPD-D  247 (280)
T ss_dssp             HHHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT--
T ss_pred             HHHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccccc-c
Confidence            888888888788888888888888888888888888777776666777778888888888888888888888776544 7


Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHh
Q 048394          353 MRLADVIIRAYLQKDMYEEAALIFNNAKK  381 (485)
Q Consensus       353 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  381 (485)
                      +.....+..++...|+.++|..+..+..+
T Consensus       248 ~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  248 PLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHHHHT-----------------
T ss_pred             ccccccccccccccccccccccccccccc
Confidence            77777788888888888888887776543

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.77  E-value=3.8e-14  Score=122.67  Aligned_cols=241  Identities=17%  Similarity=0.173  Sum_probs=142.2

Q ss_pred             CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc--cCCCHhHHHH
Q 048394           72 KTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE--YAKNRYTYGA  149 (485)
Q Consensus        72 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~~  149 (485)
                      .|.+..++..++.++|+.-..+.|.+++++-.....+.+..+||.+|.+-.-..+    .+++.+|..  ..||..|+|+
T Consensus       203 ~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNa  278 (625)
T KOG4422|consen  203 LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNA  278 (625)
T ss_pred             cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHH
Confidence            4556667777777777777777777777776665556677777777665432222    445555555  5677777777


Q ss_pred             HHHHHHhcCcHHH----HHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCccc-HHHHHHHHHH----cCCCc----cHHH
Q 048394          150 LLNCYCKELMTER----ALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEK-VRPLVNQMKQ----RNISL----DNLT  216 (485)
Q Consensus       150 li~~~~~~~~~~~----A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~----~~~~p----~~~~  216 (485)
                      ++.+..+.|+++.    |.+++.+|++.|+.|...+|..+|..+++.++..+ +..++.++..    +.++|    |...
T Consensus       279 lL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~F  358 (625)
T KOG4422|consen  279 LLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKF  358 (625)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHH
Confidence            7777777776654    34566667777777777777777777766666543 3333333332    12222    3444


Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHhcc---CCCCc---HHHHHHHHHHHHhcccHHHHHHHHHHHHh-cCCCChHHHHH
Q 048394          217 YIVWMQSYSHLNDIDGVERVFYEMCNEC---EDKCR---WTTYSNLASIYVKAELFEKAELALKKLEE-MKPRDRKAYHF  289 (485)
Q Consensus       217 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~  289 (485)
                      |...+..|.+..+.+.|.++..-+....   ...|+   ..-|..+....|+....+.-...++.|.- ...|+..+...
T Consensus       359 F~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~  438 (625)
T KOG4422|consen  359 FQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIH  438 (625)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHH
Confidence            5555666666667666666665554411   11222   12244555555666666666666666554 33356666666


Q ss_pred             HHHHHHhcCChhhHHHHHHHhhhcCCC
Q 048394          290 LISLYCNTSNLDAVNRVWGILKSTFPP  316 (485)
Q Consensus       290 l~~~~~~~~~~~~a~~~~~~~~~~~~~  316 (485)
                      ++++..-.|.++-.-++|..+..-|..
T Consensus       439 ~lrA~~v~~~~e~ipRiw~D~~~~ght  465 (625)
T KOG4422|consen  439 LLRALDVANRLEVIPRIWKDSKEYGHT  465 (625)
T ss_pred             HHHHHhhcCcchhHHHHHHHHHHhhhh
Confidence            666666666776666666666655533

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

Probab=99.76  E-value=1.5e-16  Score=145.04  Aligned_cols=287  Identities=13%  Similarity=0.082  Sum_probs=159.3

Q ss_pred             cHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcC--CCccHHHHHHHHHHHHhcCCHhHHHHH
Q 048394          159 MTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRN--ISLDNLTYIVWMQSYSHLNDIDGVERV  236 (485)
Q Consensus       159 ~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~  236 (485)
                      +..+|...|++....-.. +......+..+|...+++++|.++|+.+.+..  ..-+..+|.+.+--+-+    +-++.+
T Consensus       334 ~~~~A~~~~~klp~h~~n-t~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~  408 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYN-TGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSY  408 (638)
T ss_pred             HHHHHHHHHHhhHHhcCC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHH
Confidence            445666666664433211 22344455566666666666666666665531  11234455554433211    111222


Q ss_pred             H-HHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCC
Q 048394          237 F-YEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFP  315 (485)
Q Consensus       237 ~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  315 (485)
                      + +.+.+  ..+..+.+|.++.++|.-+++.+.|++.|++..+.+|....+|+.+..-+.....+|.|...|+......+
T Consensus       409 Laq~Li~--~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~  486 (638)
T KOG1126|consen  409 LAQDLID--TDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDP  486 (638)
T ss_pred             HHHHHHh--hCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCc
Confidence            2 22222  34555566666666666666666666666666666666666666666666666666666666666665555


Q ss_pred             CChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHH
Q 048394          316 PTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRES  395 (485)
Q Consensus       316 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~  395 (485)
                      .+-.+|..+...|.+.++++.|+-.|+.+.+-++. +.+....+...+.+.|+.++|+++++++...+.   -|+..--.
T Consensus       487 rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~---kn~l~~~~  562 (638)
T KOG1126|consen  487 RHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDP---KNPLCKYH  562 (638)
T ss_pred             hhhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCC---CCchhHHH
Confidence            55556666666666666666666666666665544 445555555566666666666666666665542   22222223


Q ss_pred             HHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCC
Q 048394          396 FMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL  461 (485)
Q Consensus       396 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  461 (485)
                      -+..+...+++++|+..++++...     .+.+..++..+...|.+.|+.+.|..-|..+.+++|+
T Consensus       563 ~~~il~~~~~~~eal~~LEeLk~~-----vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpk  623 (638)
T KOG1126|consen  563 RASILFSLGRYVEALQELEELKEL-----VPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPK  623 (638)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHHh-----CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCc
Confidence            334455566666666666666654     3333444555556666666666666666666666655

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

Probab=99.75  E-value=1.8e-14  Score=126.74  Aligned_cols=393  Identities=11%  Similarity=-0.004  Sum_probs=261.0

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCC-HhHHHHHHHHHHh
Q 048394           79 LEYCVRSLRKFGRYRHALEVIEWMESRKMHFS-YTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKN-RYTYGALLNCYCK  156 (485)
Q Consensus        79 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~li~~~~~  156 (485)
                      +-....-+.++|++++|++.|++.....  |+ +.-|.....+|...|+++++.+--....+..|+ +..+..-.+++-.
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~l~--p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~P~Y~KAl~RRA~A~E~  195 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIELC--PDEPIFYSNRAACYESLGDWEKVIEDCTKALELNPDYVKALLRRASAHEQ  195 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhcC--CCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHh
Confidence            3334556789999999999999998875  77 777888889999999999999888888886666 3466666677777


Q ss_pred             cCcHHHHHHHHHHHHh-CCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHH-c--CCCccHHHHHHHHHHHHh------
Q 048394          157 ELMTERALALFEKMDE-LKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQ-R--NISLDNLTYIVWMQSYSH------  226 (485)
Q Consensus       157 ~~~~~~A~~~~~~m~~-~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~--~~~p~~~~~~~l~~~~~~------  226 (485)
                      .|++++|+.=..-..- .|+. |..+--.+=+.+-+     .|..-.++-.. .  -+.|+.....+....+-.      
T Consensus       196 lg~~~eal~D~tv~ci~~~F~-n~s~~~~~eR~Lkk-----~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~  269 (606)
T KOG0547|consen  196 LGKFDEALFDVTVLCILEGFQ-NASIEPMAERVLKK-----QAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLF  269 (606)
T ss_pred             hccHHHHHHhhhHHHHhhhcc-cchhHHHHHHHHHH-----HHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccc
Confidence            7887777543222211 1111 11111000001100     01111111111 1  122222222222221110      


Q ss_pred             -------------------cC---CHhHHHHHHHHHHhccCCC-----Cc------HHHHHHHHHHHHhcccHHHHHHHH
Q 048394          227 -------------------LN---DIDGVERVFYEMCNECEDK-----CR------WTTYSNLASIYVKAELFEKAELAL  273 (485)
Q Consensus       227 -------------------~~---~~~~a~~~~~~~~~~~~~~-----~~------~~~~~~l~~~~~~~~~~~~A~~~~  273 (485)
                                         .+   .+..|...+.+-.......     .|      ..+...-...+.-.|+.-.|..-|
T Consensus       270 ~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~  349 (606)
T KOG0547|consen  270 DNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDF  349 (606)
T ss_pred             cCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhH
Confidence                               01   1222333222221101111     11      122222233344578888999999


Q ss_pred             HHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCH
Q 048394          274 KKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDM  353 (485)
Q Consensus       274 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  353 (485)
                      +......|.+...|..+..+|....+.++....|....+.++.++.+|..-.....-.+++++|..=|++..+..+. ++
T Consensus       350 ~~~I~l~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe-~~  428 (606)
T KOG0547|consen  350 DAAIKLDPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPE-NA  428 (606)
T ss_pred             HHHHhcCcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChh-hh
Confidence            99998877777778888889999999999999999999999988999988888888899999999999999887655 66


Q ss_pred             HhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhc-C--CCccHH
Q 048394          354 RLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQF-H--WRPMQV  430 (485)
Q Consensus       354 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~--~~~~~~  430 (485)
                      ..|-.+..+..+.+++++++..|++.+++-   +-.+..|+.....+...+++++|.+.|+..+...+.. .  ..+.+.
T Consensus       429 ~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkF---P~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~pl  505 (606)
T KOG0547|consen  429 YAYIQLCCALYRQHKIAESMKTFEEAKKKF---PNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPL  505 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhC---CCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhh
Confidence            777777777778899999999999998873   3445778888899999999999999999998864110 0  011122


Q ss_pred             HHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          431 TVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       431 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      +...++. +.-.+|+..|..+++++.+.+|....+|..|+....+.|+.++|+.
T Consensus       506 V~Ka~l~-~qwk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAie  558 (606)
T KOG0547|consen  506 VHKALLV-LQWKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIE  558 (606)
T ss_pred             hhhhHhh-hchhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHH
Confidence            2222322 2344899999999999999999999999999999999999999874

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.75  E-value=1e-14  Score=135.40  Aligned_cols=283  Identities=12%  Similarity=0.054  Sum_probs=127.5

Q ss_pred             cCChHHHHHHHHHHHhCCCCCChhh-HHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHH--HHHHHHHhcCcHHHHHH
Q 048394           89 FGRYRHALEVIEWMESRKMHFSYTD-FAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYG--ALLNCYCKELMTERALA  165 (485)
Q Consensus        89 ~~~~~~A~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~--~li~~~~~~~~~~~A~~  165 (485)
                      .|+++.|.+.+....+..  +++.. |.....+..+.|+++.|.+++.++.+..|+...+.  .....+...|+++.|.+
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            355555555555443322  11111 22222233455555555555555555444433222  22344555555555555


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHH-------HHHHHHHHHHhcCCHhHHHHHHH
Q 048394          166 LFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNL-------TYIVWMQSYSHLNDIDGVERVFY  238 (485)
Q Consensus       166 ~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~-------~~~~l~~~~~~~~~~~~a~~~~~  238 (485)
                      .++++.+.++. +......+...|.+.|++++|.+++..+.+.+..++..       +|..++.......+.+...++++
T Consensus       175 ~l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~  253 (398)
T PRK10747        175 GVDKLLEVAPR-HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWK  253 (398)
T ss_pred             HHHHHHhcCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            55555554433 34455555555555555555555555555544322111       11122222222223333333333


Q ss_pred             HHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCCh
Q 048394          239 EMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTN  318 (485)
Q Consensus       239 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  318 (485)
                      .+.+                                    ..+.++.....+...+...|+.++|..++++..+. +++.
T Consensus       254 ~lp~------------------------------------~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~-~~~~  296 (398)
T PRK10747        254 NQSR------------------------------------KTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR-QYDE  296 (398)
T ss_pred             hCCH------------------------------------HHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-CCCH
Confidence            3333                                    22334444444445555555555555555444442 1122


Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHH
Q 048394          319 TSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMI  398 (485)
Q Consensus       319 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~  398 (485)
                      ..  .++.+....++.+++.+..+...+..+. |+..+..+...+.+.+++++|.+.|+...+.    .|+..++..+..
T Consensus       297 ~l--~~l~~~l~~~~~~~al~~~e~~lk~~P~-~~~l~l~lgrl~~~~~~~~~A~~~le~al~~----~P~~~~~~~La~  369 (398)
T PRK10747        297 RL--VLLIPRLKTNNPEQLEKVLRQQIKQHGD-TPLLWSTLGQLLMKHGEWQEASLAFRAALKQ----RPDAYDYAWLAD  369 (398)
T ss_pred             HH--HHHHhhccCCChHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc----CCCHHHHHHHHH
Confidence            11  1122222334555555555555444333 4444444555555555555555555555544    445555455555


Q ss_pred             HHHhcccHHHHHHHHHHHHH
Q 048394          399 YYLRSRQLDLALNEMEAALS  418 (485)
Q Consensus       399 ~~~~~g~~~~A~~~~~~~~~  418 (485)
                      .+.+.|+.++|.+++++...
T Consensus       370 ~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        370 ALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHcCCHHHHHHHHHHHHh
Confidence            55555555555555555443

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

Probab=99.75  E-value=7.1e-14  Score=131.92  Aligned_cols=373  Identities=13%  Similarity=0.097  Sum_probs=282.5

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhc
Q 048394           79 LEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKE  157 (485)
Q Consensus        79 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~  157 (485)
                      +......+.-.|++++|.+++.++.+.. +-....|-.|...|-..|+.+++...+-.... .+.|...|-.+.....+.
T Consensus       142 ll~eAN~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~  220 (895)
T KOG2076|consen  142 LLGEANNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQL  220 (895)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhc
Confidence            3334444555699999999999998886 46778899999999999999999998877777 566778999999999999


Q ss_pred             CcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHH----HHHHHHHHhcCCHhHH
Q 048394          158 LMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTY----IVWMQSYSHLNDIDGV  233 (485)
Q Consensus       158 ~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~----~~l~~~~~~~~~~~~a  233 (485)
                      |+++.|.-.|.+.++..+. +...+-.-+..|-+.|+...|...|.++.....+.|..-+    -.+++.+...++-+.|
T Consensus       221 ~~i~qA~~cy~rAI~~~p~-n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a  299 (895)
T KOG2076|consen  221 GNINQARYCYSRAIQANPS-NWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERA  299 (895)
T ss_pred             ccHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHH
Confidence            9999999999999998644 5555556677899999999999999999986322222222    3345667778888999


Q ss_pred             HHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHh-cCC---------------------------CChH
Q 048394          234 ERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEE-MKP---------------------------RDRK  285 (485)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~---------------------------~~~~  285 (485)
                      .+.++......+...+...++.++..|.+...++.|......... ...                           ++..
T Consensus       300 ~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~  379 (895)
T KOG2076|consen  300 AKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLR  379 (895)
T ss_pred             HHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccch
Confidence            999998887667777888888899999999999999888777655 111                           1111


Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHhhhcC--CC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHH
Q 048394          286 AYHFLISLYCNTSNLDAVNRVWGILKSTF--PP-TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRA  362 (485)
Q Consensus       286 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  362 (485)
                      + .-+.-++...+..+....+........  +. +...|.-+..++...|++.+|+.+|..+......-+...|-.+..+
T Consensus       380 v-~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c  458 (895)
T KOG2076|consen  380 V-IRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARC  458 (895)
T ss_pred             h-HhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHH
Confidence            2 122223344444444444555555444  44 7888999999999999999999999999887665578899999999


Q ss_pred             HHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHh----hhcCCCccHHHHHHHHHH
Q 048394          363 YLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEA----KQFHWRPMQVTVDTFFRF  438 (485)
Q Consensus       363 ~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~~~~~~~~~~~~~~l~~~  438 (485)
                      |...|.+++|.+.|+..+...   +.+...-..|...+-+.|+.++|.+.++.+..-+    ....+.|+..........
T Consensus       459 ~~~l~e~e~A~e~y~kvl~~~---p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~  535 (895)
T KOG2076|consen  459 YMELGEYEEAIEFYEKVLILA---PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDI  535 (895)
T ss_pred             HHHHhhHHHHHHHHHHHHhcC---CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHH
Confidence            999999999999999998773   3344455567777889999999999999965332    112366666666666677


Q ss_pred             HhhcCChhhHHHHHHHHhh
Q 048394          439 FEEEKDVDGAEEFCKVLKS  457 (485)
Q Consensus       439 ~~~~~~~~~A~~~~~~~~~  457 (485)
                      +...|+.++-......++.
T Consensus       536 l~~~gk~E~fi~t~~~Lv~  554 (895)
T KOG2076|consen  536 LFQVGKREEFINTASTLVD  554 (895)
T ss_pred             HHHhhhHHHHHHHHHHHHH
Confidence            8888888775554444433

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

Probab=99.74  E-value=1.1e-14  Score=126.98  Aligned_cols=345  Identities=11%  Similarity=0.061  Sum_probs=244.8

Q ss_pred             HHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc--c------------CCCHhHHHHH
Q 048394           85 SLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE--Y------------AKNRYTYGAL  150 (485)
Q Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~------------~~~~~~~~~l  150 (485)
                      .+.+.|+++.|+..|+...+..  |+..+-..|+-++..-|+.++..+.|.++..  .            .|+....+--
T Consensus       285 tfiq~gqy~dainsfdh~m~~~--pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~ea  362 (840)
T KOG2003|consen  285 TFIQAGQYDDAINSFDHCMEEA--PNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEA  362 (840)
T ss_pred             eEEecccchhhHhhHHHHHHhC--ccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHH
Confidence            3467788888888888877764  6766544455555567888998888888765  1            2222222221


Q ss_pred             H-----HHHHhcC--cHHHHHHHHHHHHhCCCCCChhh---H------------------HHHHHHHHhCCCcccHHHHH
Q 048394          151 L-----NCYCKEL--MTERALALFEKMDELKFLGNTVA---F------------------NNLSTMYLRLGQPEKVRPLV  202 (485)
Q Consensus       151 i-----~~~~~~~--~~~~A~~~~~~m~~~~~~p~~~~---~------------------~~l~~~~~~~g~~~~a~~~~  202 (485)
                      |     .-.-+.+  +.++++-.--++..--+.||-..   |                  -.-...+.+.|+++.|++++
T Consensus       363 i~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieil  442 (840)
T KOG2003|consen  363 IKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEIL  442 (840)
T ss_pred             HhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHH
Confidence            1     2121111  11222222222222222222110   1                  11123567888888888887


Q ss_pred             HHHHHcCCCccHHHHHHH------------------------------------HHHHHhcCCHhHHHHHHHHHHhccCC
Q 048394          203 NQMKQRNISLDNLTYIVW------------------------------------MQSYSHLNDIDGVERVFYEMCNECED  246 (485)
Q Consensus       203 ~~~~~~~~~p~~~~~~~l------------------------------------~~~~~~~~~~~~a~~~~~~~~~~~~~  246 (485)
                      .-+.+..-+.-...-+.|                                    .+.....|++++|.+.+++...  +.
T Consensus       443 kv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~--nd  520 (840)
T KOG2003|consen  443 KVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALN--ND  520 (840)
T ss_pred             HHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHHc--Cc
Confidence            776654221111111111                                    0111235789999999999987  44


Q ss_pred             CCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHH
Q 048394          247 KCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQ  326 (485)
Q Consensus       247 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  326 (485)
                      ..-......+.-.+-..|+.++|++.|-++..+...+..+...+...|-...+...|++++.+....-|.++.....|..
T Consensus       521 asc~ealfniglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~slip~dp~ilskl~d  600 (840)
T KOG2003|consen  521 ASCTEALFNIGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSLIPNDPAILSKLAD  600 (840)
T ss_pred             hHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCCHHHHHHHHH
Confidence            44445544566677889999999999999988666788999999999999999999999999998887779999999999


Q ss_pred             HHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHH-hccc
Q 048394          327 ALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYL-RSRQ  405 (485)
Q Consensus       327 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~-~~g~  405 (485)
                      .|-+.|+-.+|.+.+-+--+.- .-+..+..-|...|....-+++|..+|++..-.    .|+..-|..++..|. +.|+
T Consensus       601 lydqegdksqafq~~ydsyryf-p~nie~iewl~ayyidtqf~ekai~y~ekaali----qp~~~kwqlmiasc~rrsgn  675 (840)
T KOG2003|consen  601 LYDQEGDKSQAFQCHYDSYRYF-PCNIETIEWLAAYYIDTQFSEKAINYFEKAALI----QPNQSKWQLMIASCFRRSGN  675 (840)
T ss_pred             Hhhcccchhhhhhhhhhccccc-CcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhc----CccHHHHHHHHHHHHHhccc
Confidence            9999999999998877665553 348888888999999999999999999987654    999999999988775 5899


Q ss_pred             HHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcC
Q 048394          406 LDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEK  443 (485)
Q Consensus       406 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  443 (485)
                      +.+|+++|+.....     ++.|...+..|++.|...|
T Consensus       676 yqka~d~yk~~hrk-----fpedldclkflvri~~dlg  708 (840)
T KOG2003|consen  676 YQKAFDLYKDIHRK-----FPEDLDCLKFLVRIAGDLG  708 (840)
T ss_pred             HHHHHHHHHHHHHh-----CccchHHHHHHHHHhcccc
Confidence            99999999999888     8889999999999887776

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

Probab=99.74  E-value=8.9e-16  Score=140.06  Aligned_cols=278  Identities=14%  Similarity=0.022  Sum_probs=223.4

Q ss_pred             CcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccC-CCCcHHHHHHHHHHHHhcccHHHHHHH
Q 048394          194 QPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECE-DKCRWTTYSNLASIYVKAELFEKAELA  272 (485)
Q Consensus       194 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~  272 (485)
                      +..+|+..|..+..+ +.-+..+...+..+|...+++++|.++|+.+.+... ...+..+|.+.+-.+   .+.-+--.+
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHL---q~~v~Ls~L  409 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHL---QDEVALSYL  409 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHH---HhhHHHHHH
Confidence            457889999995554 333445566778899999999999999999987222 223566666666544   222222234


Q ss_pred             HHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCC
Q 048394          273 LKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYD  352 (485)
Q Consensus       273 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  352 (485)
                      -+.+.+..|..+.+|-++..+|.-+++.+.|++.|++..+..+....+|+.+..-+.....+|.|...|+..+...+. +
T Consensus       410 aq~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~r-h  488 (638)
T KOG1126|consen  410 AQDLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPR-H  488 (638)
T ss_pred             HHHHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCch-h
Confidence            445555778889999999999999999999999999999999889999999999999999999999999998876444 4


Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHH
Q 048394          353 MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTV  432 (485)
Q Consensus       353 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  432 (485)
                      -..|-.+...|.+.++++.|+-.|+++.+.+   +-+.+....+...+.+.|+.++|+++++++...     .+.|+..-
T Consensus       489 YnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN---P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~l-----d~kn~l~~  560 (638)
T KOG1126|consen  489 YNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN---PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHL-----DPKNPLCK  560 (638)
T ss_pred             hHHHHhhhhheeccchhhHHHHHHHhhhcCC---ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhc-----CCCCchhH
Confidence            5566668888999999999999999999875   445566667777888999999999999999987     34455555


Q ss_pred             HHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          433 DTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       433 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      ..-+..+...+++++|...++++++.-|.+..++..++..|.+.|+.+.|++
T Consensus       561 ~~~~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~  612 (638)
T KOG1126|consen  561 YHRASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALL  612 (638)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHH
Confidence            5556677788999999999999999999999999999999999999999875

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

Probab=99.74  E-value=3.2e-17  Score=145.51  Aligned_cols=252  Identities=14%  Similarity=0.038  Sum_probs=60.8

Q ss_pred             HHHHHhcCCHhHHHHHHHHHHhccC-CCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCC
Q 048394          221 MQSYSHLNDIDGVERVFYEMCNECE-DKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSN  299 (485)
Q Consensus       221 ~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  299 (485)
                      ...+.+.|++++|.++++.... .. .+.+...+..+...+...++++.|...++++...++.++..+..++.. ...++
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~-~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~~   92 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQ-KIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLIQL-LQDGD   92 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccc-ccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccc
Confidence            3344444444444444433222 11 122223333333344444444444444444444333333344444443 34444


Q ss_pred             hhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHcc-CCCCHHhHHHHHHHHHhcCcHHHHHHHHHH
Q 048394          300 LDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRC-SSYDMRLADVIIRAYLQKDMYEEAALIFNN  378 (485)
Q Consensus       300 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  378 (485)
                      +++|..++...-+.. ++...+..++..+...++++++.++++.+.... ...+...|..+...+.+.|+.++|...+++
T Consensus        93 ~~~A~~~~~~~~~~~-~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~  171 (280)
T PF13429_consen   93 PEEALKLAEKAYERD-GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRK  171 (280)
T ss_dssp             --------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             ccccccccccccccc-cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            444444444332221 123333334444444444444444444443221 122344444444444455555555555555


Q ss_pred             HHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhc
Q 048394          379 AKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSL  458 (485)
Q Consensus       379 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  458 (485)
                      ..+..   +.|......++..+...|+.+++.++++.....     .+.|+..+..+..++...|+.++|..++++..+.
T Consensus       172 al~~~---P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~-----~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~  243 (280)
T PF13429_consen  172 ALELD---PDDPDARNALAWLLIDMGDYDEAREALKRLLKA-----APDDPDLWDALAAAYLQLGRYEEALEYLEKALKL  243 (280)
T ss_dssp             HHHH----TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH------HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH
T ss_pred             HHHcC---CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHH-----CcCHHHHHHHHHHHhccccccccccccccccccc
Confidence            44442   112333444444444445555444444444443     2233334444444455555555555555555554


Q ss_pred             CCCCHHHHHHHHHHHHHhCCCcchh
Q 048394          459 NCLDFSAYSLLIKTYIAAGKLASDM  483 (485)
Q Consensus       459 ~~~~~~~~~~l~~~~~~~g~~~~A~  483 (485)
                      .|.|+.....++.++...|+.++|.
T Consensus       244 ~p~d~~~~~~~a~~l~~~g~~~~A~  268 (280)
T PF13429_consen  244 NPDDPLWLLAYADALEQAGRKDEAL  268 (280)
T ss_dssp             STT-HHHHHHHHHHHT---------
T ss_pred             ccccccccccccccccccccccccc
Confidence            4555555555555555555554443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.74  E-value=3.1e-14  Score=132.10  Aligned_cols=284  Identities=11%  Similarity=0.055  Sum_probs=216.4

Q ss_pred             cCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHH--HHHHHHHhcCCHhHHH
Q 048394          157 ELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYI--VWMQSYSHLNDIDGVE  234 (485)
Q Consensus       157 ~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~--~l~~~~~~~~~~~~a~  234 (485)
                      .|+++.|.+.+....+..-.| ...|.....+..+.|+++.|.+.+.++.+.  .|+.....  .....+...|+++.|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p-~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQP-VVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccch-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            589999998888766543222 222333344557889999999999998774  45544332  3356788889999999


Q ss_pred             HHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChH--------HHHHHHHHHHhcCChhhHHHH
Q 048394          235 RVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRK--------AYHFLISLYCNTSNLDAVNRV  306 (485)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~--------~~~~l~~~~~~~~~~~~a~~~  306 (485)
                      ..++.+.+  ..|-+...+..+...|.+.|++++|.+++..+.+....+..        +|..++.......+.+...++
T Consensus       174 ~~l~~~~~--~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~  251 (398)
T PRK10747        174 HGVDKLLE--VAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRW  251 (398)
T ss_pred             HHHHHHHh--cCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            99999987  56777888888999999999999999999998884333322        333444444455566777778


Q ss_pred             HHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhccccc
Q 048394          307 WGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANAS  386 (485)
Q Consensus       307 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  386 (485)
                      |+.+....+.++.....+...+...|+.++|.+++.+..+..  |+....  ++.+....++.+++.+..+...+..   
T Consensus       252 w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~--~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~---  324 (398)
T PRK10747        252 WKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKRQ--YDERLV--LLIPRLKTNNPEQLEKVLRQQIKQH---  324 (398)
T ss_pred             HHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCHHHH--HHHhhccCCChHHHHHHHHHHHhhC---
Confidence            888766666688889999999999999999999999998853  344322  3344456699999999999998873   


Q ss_pred             CCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhc
Q 048394          387 ARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSL  458 (485)
Q Consensus       387 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  458 (485)
                      +-|...+..+...|.+.|++++|.+.|+.+.+..      |+..++..+...+.+.|+.++|.+++++....
T Consensus       325 P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~------P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~  390 (398)
T PRK10747        325 GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQR------PDAYDYAWLADALDRLHKPEEAAAMRRDGLML  390 (398)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            3344557788889999999999999999999864      99999999999999999999999999988764

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

Probab=99.74  E-value=4e-13  Score=117.90  Aligned_cols=391  Identities=13%  Similarity=0.089  Sum_probs=235.0

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCH-hHHHHHHHHHH
Q 048394           77 DMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNR-YTYGALLNCYC  155 (485)
Q Consensus        77 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~li~~~~  155 (485)
                      ..+......=..++++..|..+|+...... .-+...|...+.+=.++..+..|..++++....-|.+ ..|-..+.+=-
T Consensus        74 ~~WikYaqwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE  152 (677)
T KOG1915|consen   74 QVWIKYAQWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYMEE  152 (677)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHHHH
Confidence            333333444455677888999999987766 3567778888888888899999999999888844443 46666666666


Q ss_pred             hcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHH
Q 048394          156 KELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVER  235 (485)
Q Consensus       156 ~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  235 (485)
                      ..|++..|.++|++-.+  ..|+..+|++.+..-.+.+.++.|..+|+...-  +.|++.+|--....-.+.|....|.+
T Consensus       153 ~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~  228 (677)
T KOG1915|consen  153 MLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARS  228 (677)
T ss_pred             HhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHH
Confidence            77999999999998877  458899999999988888999999999988876  45888888888888888888888888


Q ss_pred             HHHHHHhccCC-CCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCC---------------------------------
Q 048394          236 VFYEMCNECED-KCRWTTYSNLASIYVKAELFEKAELALKKLEEMKP---------------------------------  281 (485)
Q Consensus       236 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~---------------------------------  281 (485)
                      +|+...+.-+. ..+...+.+....-.++..++.|..+|+-..+.-|                                 
T Consensus       229 VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk  308 (677)
T KOG1915|consen  229 VYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRK  308 (677)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhh
Confidence            88877762222 12233344444444455566666666655555333                                 


Q ss_pred             -----------CChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC-Chh-hHHH-----HHHHH---HhcCChhHHHHH
Q 048394          282 -----------RDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-TNT-SYLV-----LLQAL---AKLNAIDILKQC  340 (485)
Q Consensus       282 -----------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~-~~~~-----l~~~~---~~~~~~~~a~~~  340 (485)
                                 .|-.+|-..++.-...|+.+...++|+++....|+ ... .|.-     +=-++   ....+++.+.++
T Consensus       309 ~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~v  388 (677)
T KOG1915|consen  309 FQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQV  388 (677)
T ss_pred             hHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence                       33444444444444555555555555555555554 211 1111     11111   124555555555


Q ss_pred             HHHHHHccCCCCHHhHHHHHHHH----HhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHH
Q 048394          341 FEEWESRCSSYDMRLADVIIRAY----LQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAA  416 (485)
Q Consensus       341 ~~~~~~~~~~~~~~~~~~l~~~~----~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  416 (485)
                      |+...+. ++....||..+--.|    .++.++..|.+++...+..    .|...+|...|..-.+.+++|.+..+|++.
T Consensus       389 yq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~----cPK~KlFk~YIelElqL~efDRcRkLYEkf  463 (677)
T KOG1915|consen  389 YQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGK----CPKDKLFKGYIELELQLREFDRCRKLYEKF  463 (677)
T ss_pred             HHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhcc----CCchhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            5555553 222333333332222    2445555555555544433    555555555555555555666666666665


Q ss_pred             HHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCC--CHHHHHHHHHHHHHhCCCcch
Q 048394          417 LSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL--DFSAYSLLIKTYIAAGKLASD  482 (485)
Q Consensus       417 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A  482 (485)
                      +.-     .+-+..+|..+...-...|+.+.|..+|+-+++....  ....|-..+..-...|.++.|
T Consensus       464 le~-----~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~eka  526 (677)
T KOG1915|consen  464 LEF-----SPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKA  526 (677)
T ss_pred             Hhc-----ChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHH
Confidence            554     2224445555555555556666666666555553322  223455555555555554443

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

Probab=99.74  E-value=7.9e-13  Score=115.80  Aligned_cols=362  Identities=15%  Similarity=0.090  Sum_probs=264.7

Q ss_pred             HHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHH--HHHHHHHhcCcH
Q 048394           83 VRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYG--ALLNCYCKELMT  160 (485)
Q Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~--~li~~~~~~~~~  160 (485)
                      .-.+.+.|..+.|++.|......-    +..|.+.+....-..+.+.+..+......   |.....  -+..++-...+.
T Consensus       171 Gvv~k~~~~~s~A~~sfv~~v~~~----P~~W~AWleL~~lit~~e~~~~l~~~l~~---~~h~M~~~F~~~a~~el~q~  243 (559)
T KOG1155|consen  171 GVVLKELGLLSLAIDSFVEVVNRY----PWFWSAWLELSELITDIEILSILVVGLPS---DMHWMKKFFLKKAYQELHQH  243 (559)
T ss_pred             HHHHHhhchHHHHHHHHHHHHhcC----CcchHHHHHHHHhhchHHHHHHHHhcCcc---cchHHHHHHHHHHHHHHHHH
Confidence            334456677777777777665442    22333333333333344444333333321   211111  233555566788


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCC--CccHHHHHHHHHHHHhcCCHhHHHHHHH
Q 048394          161 ERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNI--SLDNLTYIVWMQSYSHLNDIDGVERVFY  238 (485)
Q Consensus       161 ~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~  238 (485)
                      +++.+-.+.....|..-+...-+....+.-...++++|+.+|+++.+...  --|..+|..++-.  +..+-.  +.++.
T Consensus       244 ~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv--~~~~sk--Ls~LA  319 (559)
T KOG1155|consen  244 EEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYV--KNDKSK--LSYLA  319 (559)
T ss_pred             HHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHH--HhhhHH--HHHHH
Confidence            89998888888888765544445555566678899999999999998731  1256677776643  332222  22222


Q ss_pred             HHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCCh
Q 048394          239 EMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTN  318 (485)
Q Consensus       239 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  318 (485)
                      +-.. .-...-+.|...+.+-|.-.++.++|...|++..+..|....+|+.+..-|....+...|.+-++.+.+..|.|-
T Consensus       320 ~~v~-~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~Dy  398 (559)
T KOG1155|consen  320 QNVS-NIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPRDY  398 (559)
T ss_pred             HHHH-HhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCchhH
Confidence            2222 245556677778999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHH
Q 048394          319 TSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMI  398 (485)
Q Consensus       319 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~  398 (485)
                      ..|-.+..+|.-.+...-|+-.|++..+..+. |...|.+|..+|.+.++.++|.+.|.+....|   .-+...+..|.+
T Consensus       399 RAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPn-DsRlw~aLG~CY~kl~~~~eAiKCykrai~~~---dte~~~l~~Lak  474 (559)
T KOG1155|consen  399 RAWYGLGQAYEIMKMHFYALYYFQKALELKPN-DSRLWVALGECYEKLNRLEEAIKCYKRAILLG---DTEGSALVRLAK  474 (559)
T ss_pred             HHHhhhhHHHHHhcchHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHhccHHHHHHHHHHHHhcc---ccchHHHHHHHH
Confidence            99999999999999999999999999988665 89999999999999999999999999999887   446678899999


Q ss_pred             HHHhcccHHHHHHHHHHHHHHhhhcCCCcc--HHHHHHHHHHHhhcCChhhHHHHHHHHhhcCC
Q 048394          399 YYLRSRQLDLALNEMEAALSEAKQFHWRPM--QVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNC  460 (485)
Q Consensus       399 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  460 (485)
                      .|-+.++..+|...|++.++.....+...+  .....-|..-+.+.+++++|..........++
T Consensus       475 Lye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~~~  538 (559)
T KOG1155|consen  475 LYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKGET  538 (559)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcCCc
Confidence            999999999999999998874311112222  22233345677889999999988877776543

>TIGR00540 hemY_coli hemY protein

Probab=99.73  E-value=4.7e-14  Score=131.69  Aligned_cols=120  Identities=14%  Similarity=0.079  Sum_probs=65.2

Q ss_pred             HcCChHHHHHHHHHHHhCCCCCChhh-HHHHHHHHHhhCCHHHHHHHHHhhcccCCCHh--HHHHHHHHHHhcCcHHHHH
Q 048394           88 KFGRYRHALEVIEWMESRKMHFSYTD-FAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRY--TYGALLNCYCKELMTERAL  164 (485)
Q Consensus        88 ~~~~~~~A~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~li~~~~~~~~~~~A~  164 (485)
                      ..|+++.|.+.+....+..  |+... +-....+..+.|+.+.|.+++.+..+..|+..  ........+...|+++.|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~~--~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHA--AEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            4566666666665554443  33222 22333445555666666666666555334432  2222355555666666666


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCC
Q 048394          165 ALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNI  210 (485)
Q Consensus       165 ~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  210 (485)
                      ..++++.+..+. +..++..+...+...|++++|.+++..+.+.++
T Consensus       174 ~~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~  218 (409)
T TIGR00540       174 HGVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGL  218 (409)
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCC
Confidence            666666665433 444555666666666666666666666666543

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.

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

Probab=99.73  E-value=4.4e-14  Score=133.30  Aligned_cols=341  Identities=13%  Similarity=0.072  Sum_probs=142.2

Q ss_pred             CCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHH
Q 048394          125 NGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVN  203 (485)
Q Consensus       125 g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  203 (485)
                      |++++|.+++.++.+ .+.+...|-+|...|-+.|+.+++...+-.....+.. |..-|..+.....+.|+++.|.-.|.
T Consensus       153 g~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~-d~e~W~~ladls~~~~~i~qA~~cy~  231 (895)
T KOG2076|consen  153 GDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPK-DYELWKRLADLSEQLGNINQARYCYS  231 (895)
T ss_pred             CCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHHhcccHHHHHHHHH
Confidence            555555555555544 3334445555555555555555555544444443333 34445555555555555555555555


Q ss_pred             HHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHH----HHHHHHHHhcccHHHHHHHHHHHHh-
Q 048394          204 QMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTY----SNLASIYVKAELFEKAELALKKLEE-  278 (485)
Q Consensus       204 ~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~A~~~~~~~~~-  278 (485)
                      +.++.. +++...+---...|-+.|+...|...|.++.. ...+.|..-+    -..+..+...++.+.|.+.++.... 
T Consensus       232 rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~-~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~  309 (895)
T KOG2076|consen  232 RAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQ-LDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSK  309 (895)
T ss_pred             HHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHh-hCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhh
Confidence            555442 22333333334444555555555555555544 1111121111    1122333334444444444444443 


Q ss_pred             -cCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHH--HccCCCCHH
Q 048394          279 -MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-TNTSYLVLLQALAKLNAIDILKQCFEEWE--SRCSSYDMR  354 (485)
Q Consensus       279 -~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~  354 (485)
                       ....+...++.++..+.+...++.|......+...... |..-+..-    . .++     ..+....  ..+..++..
T Consensus       310 ~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~----~-~~~-----~~~~~~~~~~~~~s~~l~  379 (895)
T KOG2076|consen  310 EKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTD----E-RRR-----EEPNALCEVGKELSYDLR  379 (895)
T ss_pred             ccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhh----h-hcc-----ccccccccCCCCCCccch
Confidence             22233344445555555555555544444443330000 00000000    0 000     0000000  000111111


Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHH
Q 048394          355 LADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDT  434 (485)
Q Consensus       355 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  434 (485)
                      ++ .+.-++.+.+..+....+.....+.+....-+...|.-+..+|...|++++|+.+|..+....    ..-+...|-.
T Consensus       380 v~-rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~----~~~~~~vw~~  454 (895)
T KOG2076|consen  380 VI-RLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNRE----GYQNAFVWYK  454 (895)
T ss_pred             hH-hHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCc----cccchhhhHH
Confidence            10 111122222222233333333333332002233344455555555555555555555555442    1122345555


Q ss_pred             HHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchh
Q 048394          435 FFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDM  483 (485)
Q Consensus       435 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  483 (485)
                      +..+|...|.+++|.+.|++++...|.+..+-..|...|.+.|++++|+
T Consensus       455 ~a~c~~~l~e~e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~Ekal  503 (895)
T KOG2076|consen  455 LARCYMELGEYEEAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKAL  503 (895)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHH
Confidence            5555555555555555555555555555555555555555555555554

>TIGR00540 hemY_coli hemY protein

Probab=99.71  E-value=1.5e-13  Score=128.25  Aligned_cols=288  Identities=11%  Similarity=0.019  Sum_probs=143.7

Q ss_pred             hhCCHHHHHHHHHhhcccCCCHh-HHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChh--hHHHHHHHHHhCCCcccHH
Q 048394          123 KTNGIAAAEKYFNGLSEYAKNRY-TYGALLNCYCKELMTERALALFEKMDELKFLGNTV--AFNNLSTMYLRLGQPEKVR  199 (485)
Q Consensus       123 ~~g~~~~a~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~--~~~~l~~~~~~~g~~~~a~  199 (485)
                      ..|+++.|++.+.+..+..|+.. .+-....++.+.|+++.|.+.|++..+..  |+..  ........+...|+++.|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHHHH
Confidence            35666666666666655444432 23333455556666666666666665433  3322  2233355566666666666


Q ss_pred             HHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHH-HHHHHH---HhcccHHHHHHHHHH
Q 048394          200 PLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYS-NLASIY---VKAELFEKAELALKK  275 (485)
Q Consensus       200 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~l~~~~---~~~~~~~~A~~~~~~  275 (485)
                      +.++.+.+.. +-+......+...+.+.|++++|.+.+..+.+ .+. .+...+. .-..++   ...+..+++.+.+..
T Consensus       174 ~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k-~~~-~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~  250 (409)
T TIGR00540       174 HGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAK-AGL-FDDEEFADLEQKAEIGLLDEAMADEGIDGLLN  250 (409)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHH-cCC-CCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            6666666653 22444555666666666666666666666666 222 2222221 111111   222222222233333


Q ss_pred             HHhcCC----CChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHH--HHhcCChhHHHHHHHHHHHccC
Q 048394          276 LEEMKP----RDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQA--LAKLNAIDILKQCFEEWESRCS  349 (485)
Q Consensus       276 ~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~  349 (485)
                      +....|    .++..+..++..+...|+.++|.+++++..+..+.+......++..  ....++.+.+.+.++...+..+
T Consensus       251 ~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p  330 (409)
T TIGR00540       251 WWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVD  330 (409)
T ss_pred             HHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCC
Confidence            333222    3555666666666666666666666666666555532211001111  1223445555555555554433


Q ss_pred             CCCH--HhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHH
Q 048394          350 SYDM--RLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALS  418 (485)
Q Consensus       350 ~~~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  418 (485)
                      . |+  ....++...+.+.|++++|.+.|+.......  .|+...+..+...+.+.|+.++|.++|++...
T Consensus       331 ~-~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~--~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       331 D-KPKCCINRALGQLLMKHGEFIEAADAFKNVAACKE--QLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             C-ChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2 33  4444555555566666666666553322222  55555555555555556666666555555433

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.

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

Probab=99.70  E-value=6e-13  Score=119.42  Aligned_cols=404  Identities=13%  Similarity=0.021  Sum_probs=286.8

Q ss_pred             CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhh----cc---cCCC
Q 048394           71 GKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGL----SE---YAKN  143 (485)
Q Consensus        71 g~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~----~~---~~~~  143 (485)
                      |...++....-+.+.+.-.|+++.|..+...-.-.+  .|.........++.+..++++|..++...    ..   .+.|
T Consensus        44 ~l~~dp~d~~~~aq~l~~~~~y~ra~~lit~~~le~--~d~~cryL~~~~l~~lk~~~~al~vl~~~~~~~~~f~yy~~~  121 (611)
T KOG1173|consen   44 GLTNDPADIYWLAQVLYLGRQYERAAHLITTYKLEK--RDIACRYLAAKCLVKLKEWDQALLVLGRGHVETNPFSYYEKD  121 (611)
T ss_pred             hccCChHHHHHHHHHHHhhhHHHHHHHHHHHhhhhh--hhHHHHHHHHHHHHHHHHHHHHHHHhcccchhhcchhhcchh
Confidence            556788888889999999999999999888764433  46777777788889999999999999832    11   1111


Q ss_pred             --------HhH----HHHHH-------HHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCC-----------
Q 048394          144 --------RYT----YGALL-------NCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLG-----------  193 (485)
Q Consensus       144 --------~~~----~~~li-------~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g-----------  193 (485)
                              ..-    -+.-.       ..|....+.++|...|.+....++. +...+..++....-..           
T Consensus       122 ~~~~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~~D~~-c~Ea~~~lvs~~mlt~~Ee~~ll~~l~  200 (611)
T KOG1173|consen  122 AANTLELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEALLADAK-CFEAFEKLVSAHMLTAQEEFELLESLD  200 (611)
T ss_pred             hhceeccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHHhcchh-hHHHHHHHHHHHhcchhHHHHHHhccc
Confidence                    111    01111       2234455778888888887765443 2333333333221110           


Q ss_pred             ------Cc-ccHHHHHHHHHH----------------cCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcH
Q 048394          194 ------QP-EKVRPLVNQMKQ----------------RNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRW  250 (485)
Q Consensus       194 ------~~-~~a~~~~~~~~~----------------~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  250 (485)
                            .. +....+|+--..                .+..-+.........-+...+++.+..++.+.+.+  ..|+..
T Consensus       201 ~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle--~dpfh~  278 (611)
T KOG1173|consen  201 LAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLDLLAEKADRLYYGCRFKECLKITEELLE--KDPFHL  278 (611)
T ss_pred             HHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHh--hCCCCc
Confidence                  01 111111211000                11223444445555667778999999999999988  677777


Q ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHh
Q 048394          251 TTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAK  330 (485)
Q Consensus       251 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  330 (485)
                      ..+..-+.++...|+..+-..+-.++.+..|..+.+|-++.--|...|+..+|.+.|.+.....+.-...|..+...|+.
T Consensus       279 ~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~  358 (611)
T KOG1173|consen  279 PCLPLHIACLYELGKSNKLFLLSHKLVDLYPSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAG  358 (611)
T ss_pred             chHHHHHHHHHHhcccchHHHHHHHHHHhCCCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhh
Confidence            77777788999999998888888888888888999999999999999999999999999888777777888899999999


Q ss_pred             cCChhHHHHHHHHHHHccCCC-CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHH
Q 048394          331 LNAIDILKQCFEEWESRCSSY-DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLA  409 (485)
Q Consensus       331 ~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  409 (485)
                      .|.-|+|...+....+.-+.- -+..|  +.--|.+.++++-|.++|.+.....   +-|+...+-+.-.....+.+.+|
T Consensus       359 e~EhdQAmaaY~tAarl~~G~hlP~LY--lgmey~~t~n~kLAe~Ff~~A~ai~---P~Dplv~~Elgvvay~~~~y~~A  433 (611)
T KOG1173|consen  359 EGEHDQAMAAYFTAARLMPGCHLPSLY--LGMEYMRTNNLKLAEKFFKQALAIA---PSDPLVLHELGVVAYTYEEYPEA  433 (611)
T ss_pred             cchHHHHHHHHHHHHHhccCCcchHHH--HHHHHHHhccHHHHHHHHHHHHhcC---CCcchhhhhhhheeehHhhhHHH
Confidence            999999998888877653221 12233  4445777888999999998887663   44566666666666778888899


Q ss_pred             HHHHHHHHHHhhhcC--CCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          410 LNEMEAALSEAKQFH--WRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       410 ~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      ..+|+..+..-++..  ..-...+++.|..+|.+.+.+++|+..+++.+.+.|.+..++.+++-+|...|+++.|+.
T Consensus       434 ~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid  510 (611)
T KOG1173|consen  434 LKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAID  510 (611)
T ss_pred             HHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHH
Confidence            988888774322110  112345678888889999999999999999999989999999999999999999888864

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

Probab=99.68  E-value=1.4e-11  Score=108.38  Aligned_cols=384  Identities=9%  Similarity=0.086  Sum_probs=261.4

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHh
Q 048394           77 DMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCK  156 (485)
Q Consensus        77 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~  156 (485)
                      ..+...+..=.+.+....|..+++.....-...| ..|-..+.+=-..|++..|.++|++..+..|+...|++.|..=.+
T Consensus       108 tLWlkYae~Emknk~vNhARNv~dRAvt~lPRVd-qlWyKY~ymEE~LgNi~gaRqiferW~~w~P~eqaW~sfI~fElR  186 (677)
T KOG1915|consen  108 TLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVD-QLWYKYIYMEEMLGNIAGARQIFERWMEWEPDEQAWLSFIKFELR  186 (677)
T ss_pred             hHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHH-HHHHHHHHHHHHhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHH
Confidence            3344445555667777777777777655431122 223334444445677777777777777767777777777777777


Q ss_pred             cCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHc-CC-CccHHHHHHHHHHHHhcCCHhHHH
Q 048394          157 ELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQR-NI-SLDNLTYIVWMQSYSHLNDIDGVE  234 (485)
Q Consensus       157 ~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~-~p~~~~~~~l~~~~~~~~~~~~a~  234 (485)
                      .+.++.|..++++..-.  .|++.+|--....-.+.|+...+..+|+...+. |- .-+...+.+....-.++..++.|.
T Consensus       187 ykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar  264 (677)
T KOG1915|consen  187 YKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERAR  264 (677)
T ss_pred             hhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777777653  367777766666666677766666666665542 10 001112222222112222233222


Q ss_pred             HHH--------------------------------------------HHHHhccCCCCcHHHHHHHHHHHHhcccHHHHH
Q 048394          235 RVF--------------------------------------------YEMCNECEDKCRWTTYSNLASIYVKAELFEKAE  270 (485)
Q Consensus       235 ~~~--------------------------------------------~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  270 (485)
                      -+|                                            +.+.+  ..+.|-.++--.+..-...|+.+...
T Consensus       265 ~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~--~np~nYDsWfdylrL~e~~g~~~~Ir  342 (677)
T KOG1915|consen  265 FIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVS--KNPYNYDSWFDYLRLEESVGDKDRIR  342 (677)
T ss_pred             HHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHH--hCCCCchHHHHHHHHHHhcCCHHHHH
Confidence            222                                            22222  45666677777777777889999999


Q ss_pred             HHHHHHHhcCCCCh--HHHHHHHHHHH--------hcCChhhHHHHHHHhhhcCCCChhhHHHHHHHH----HhcCChhH
Q 048394          271 LALKKLEEMKPRDR--KAYHFLISLYC--------NTSNLDAVNRVWGILKSTFPPTNTSYLVLLQAL----AKLNAIDI  336 (485)
Q Consensus       271 ~~~~~~~~~~~~~~--~~~~~l~~~~~--------~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~----~~~~~~~~  336 (485)
                      ++++++....||-.  ..|.-.|-...        ...+.+.+.+++....+.-|....|+..+--.|    .+..++..
T Consensus       343 e~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~  422 (677)
T KOG1915|consen  343 ETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTG  422 (677)
T ss_pred             HHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHH
Confidence            99999998666532  22333332221        467889999999999886666666665544444    46789999


Q ss_pred             HHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHH
Q 048394          337 LKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAA  416 (485)
Q Consensus       337 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  416 (485)
                      |.+++.....  .-|...+|...|..-.+.++++.+..++++.++.+   +-+..+|......-...|+.+.|..+|+-+
T Consensus       423 ARkiLG~AIG--~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~---Pe~c~~W~kyaElE~~LgdtdRaRaifelA  497 (677)
T KOG1915|consen  423 ARKILGNAIG--KCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS---PENCYAWSKYAELETSLGDTDRARAIFELA  497 (677)
T ss_pred             HHHHHHHHhc--cCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC---hHhhHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            9999998775  46678889999999999999999999999999986   556678888777778899999999999999


Q ss_pred             HHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHH
Q 048394          417 LSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYI  474 (485)
Q Consensus       417 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  474 (485)
                      +++.   ........|.+.|.--...|.++.|..+++++++..+.-. +|.+++..-.
T Consensus       498 i~qp---~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~k-vWisFA~fe~  551 (677)
T KOG1915|consen  498 ISQP---ALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVK-VWISFAKFEA  551 (677)
T ss_pred             hcCc---ccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccch-HHHhHHHHhc
Confidence            9872   1223345677778777889999999999999999766444 8888776655

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

Probab=99.68  E-value=4.5e-13  Score=112.00  Aligned_cols=286  Identities=13%  Similarity=0.101  Sum_probs=160.3

Q ss_pred             hCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChh------hHHHHHHHHHhCCCcc
Q 048394          124 TNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTV------AFNNLSTMYLRLGQPE  196 (485)
Q Consensus       124 ~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~------~~~~l~~~~~~~g~~~  196 (485)
                      .++.++|...|-+|.+ .+-+..+--+|.+.|-+.|.++.|+.+.+.+.+.   ||..      +...|..-|...|-+|
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl~D  124 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGLLD  124 (389)
T ss_pred             hcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhhhh
Confidence            3566666666666666 3233345556666666667777777666666554   3321      2233445566666666


Q ss_pred             cHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcH---HHHHHHHHHHHhcccHHHHHHHH
Q 048394          197 KVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRW---TTYSNLASIYVKAELFEKAELAL  273 (485)
Q Consensus       197 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~A~~~~  273 (485)
                      .|+++|..+.+.|. --......|+..|....+|++|+.+-+++.+..+.+...   ..|..+...+....+++.|...+
T Consensus       125 RAE~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l  203 (389)
T COG2956         125 RAEDIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELL  203 (389)
T ss_pred             HHHHHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            66666666665431 223344556666666666666666666665522222222   22444444555556666666666


Q ss_pred             HHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCC
Q 048394          274 KKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYD  352 (485)
Q Consensus       274 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  352 (485)
                      .+..+.+|..+.+-..+.+.....|++..|.+.|+.+.+.++. -..+...|..+|...|+.++....+..+.+....++
T Consensus       204 ~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~  283 (389)
T COG2956         204 KKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGAD  283 (389)
T ss_pred             HHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCcc
Confidence            6666666656666666666666666666666666666666666 556666666666666666666666666655433222


Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHH---hcccHHHHHHHHHHHHHH
Q 048394          353 MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYL---RSRQLDLALNEMEAALSE  419 (485)
Q Consensus       353 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~---~~g~~~~A~~~~~~~~~~  419 (485)
                        .-..+.+.-......+.|..++.+-+.+    .|+...+..+|..-.   ..|...+.+..++.|+..
T Consensus       284 --~~l~l~~lie~~~G~~~Aq~~l~~Ql~r----~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge  347 (389)
T COG2956         284 --AELMLADLIELQEGIDAAQAYLTRQLRR----KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGE  347 (389)
T ss_pred             --HHHHHHHHHHHhhChHHHHHHHHHHHhh----CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHH
Confidence              2233333333444455555555544444    566666666665543   233455555555555544

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

Probab=99.68  E-value=4.4e-13  Score=112.02  Aligned_cols=288  Identities=13%  Similarity=0.126  Sum_probs=188.9

Q ss_pred             cCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcC-CCcc--HHHHHHHHHHHHhcCCHhHH
Q 048394          157 ELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRN-ISLD--NLTYIVWMQSYSHLNDIDGV  233 (485)
Q Consensus       157 ~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~p~--~~~~~~l~~~~~~~~~~~~a  233 (485)
                      .++.++|.++|-+|.+.+.. +..+--+|.+.|-+.|..|+|+++-+.+.++- ..-+  ......|.+-|...|-+|.|
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            46777888888887775433 44455667777777788888888777776641 1111  12233455667777888888


Q ss_pred             HHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCC-----hHHHHHHHHHHHhcCChhhHHHHHH
Q 048394          234 ERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRD-----RKAYHFLISLYCNTSNLDAVNRVWG  308 (485)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~  308 (485)
                      +.+|..+.+  ...--.....-|+..|-...+|++|+++-+++.+..+.+     ...|.-+...+....+.+.|...+.
T Consensus       127 E~~f~~L~d--e~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~  204 (389)
T COG2956         127 EDIFNQLVD--EGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLK  204 (389)
T ss_pred             HHHHHHHhc--chhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence            888877776  233334455557777877788888888777777733322     3446667777777777778888888


Q ss_pred             HhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCC
Q 048394          309 ILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASAR  388 (485)
Q Consensus       309 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p  388 (485)
                      +..+.++....+-..+.+.....|+++.|.+.++.+.+.++..-..+...|..+|.+.|+.++....+.++.+.    .+
T Consensus       205 kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~----~~  280 (389)
T COG2956         205 KALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMET----NT  280 (389)
T ss_pred             HHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc----cC
Confidence            77777777666666777777777888888888887777766555667777777788888888887777777765    23


Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHH---hhcCChhhHHHHHHHHhh
Q 048394          389 FFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFF---EEEKDVDGAEEFCKVLKS  457 (485)
Q Consensus       389 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~A~~~~~~~~~  457 (485)
                      ....-..+...-....-.+.|...+.+-+...      |+...+..++...   ...|...+....++.|..
T Consensus       281 g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~------Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvg  346 (389)
T COG2956         281 GADAELMLADLIELQEGIDAAQAYLTRQLRRK------PTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVG  346 (389)
T ss_pred             CccHHHHHHHHHHHhhChHHHHHHHHHHHhhC------CcHHHHHHHHHhhhccccccchhhhHHHHHHHHH
Confidence            33333333333333444555555555555554      7777777777543   456666666666666654

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

Probab=99.67  E-value=1.6e-12  Score=116.77  Aligned_cols=286  Identities=10%  Similarity=0.041  Sum_probs=241.2

Q ss_pred             hHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHH
Q 048394          181 AFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIY  260 (485)
Q Consensus       181 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  260 (485)
                      ....-..-+...+++.+..++.+...+. .++....+..-|.++...|+..+-..+=..+.+  ..|....+|-+++--|
T Consensus       246 ll~~~ad~~y~~c~f~~c~kit~~lle~-dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~--~yP~~a~sW~aVg~YY  322 (611)
T KOG1173|consen  246 LLAEKADRLYYGCRFKECLKITEELLEK-DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVD--LYPSKALSWFAVGCYY  322 (611)
T ss_pred             HHHHHHHHHHHcChHHHHHHHhHHHHhh-CCCCcchHHHHHHHHHHhcccchHHHHHHHHHH--hCCCCCcchhhHHHHH
Confidence            3344455667789999999999999887 356667777778889999998888888888887  6777788888899999


Q ss_pred             HhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHH
Q 048394          261 VKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQC  340 (485)
Q Consensus       261 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  340 (485)
                      ...|+..+|.+.|.+...+++.-...|..+...|...|..|.|...+..+-+..+.....+.-+.--|.+.++.+.|.++
T Consensus       323 l~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~F  402 (611)
T KOG1173|consen  323 LMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKF  402 (611)
T ss_pred             HHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHH
Confidence            99999999999999999999988999999999999999999999999998887777555555577788899999999999


Q ss_pred             HHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhc--cc-ccC-CchhHHHHHHHHHHhcccHHHHHHHHHHH
Q 048394          341 FEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKR--AN-ASA-RFFKSRESFMIYYLRSRQLDLALNEMEAA  416 (485)
Q Consensus       341 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~-~~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  416 (485)
                      |.+.....+. |+...+-+.-+....+.+.+|..+|+..+..  .+ ... --..+++.|..+|.+.+.+++|+..+++.
T Consensus       403 f~~A~ai~P~-Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~a  481 (611)
T KOG1173|consen  403 FKQALAIAPS-DPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKA  481 (611)
T ss_pred             HHHHHhcCCC-cchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHH
Confidence            9999887655 8888898888888889999999999987732  11 001 12345788899999999999999999999


Q ss_pred             HHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHH
Q 048394          417 LSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIA  475 (485)
Q Consensus       417 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  475 (485)
                      +..     .+.+..++.++.-.+...|+++.|...|.+.+-+.|.|..+-..|..+...
T Consensus       482 L~l-----~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~aie~  535 (611)
T KOG1173|consen  482 LLL-----SPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLAIED  535 (611)
T ss_pred             HHc-----CCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHHHHh
Confidence            998     678899999999999999999999999999999999998877777665544

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

Probab=99.62  E-value=7.6e-12  Score=107.98  Aligned_cols=285  Identities=10%  Similarity=0.008  Sum_probs=193.9

Q ss_pred             HcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhccc--CCCHhHHHHHHHHHHhcCcHHHHHH
Q 048394           88 KFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEY--AKNRYTYGALLNCYCKELMTERALA  165 (485)
Q Consensus        88 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~A~~  165 (485)
                      -.|+|.+|.++..+-.+.+- -....|..-..+.-+.|+.+.+-.++.+..+.  .++...+-+........|+++.|..
T Consensus        96 ~eG~~~qAEkl~~rnae~~e-~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          96 FEGDFQQAEKLLRRNAEHGE-QPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcCc-chHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            36889999998888777763 23445555666777788999999999888884  4555667777788888899999988


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccH-------HHHHHHHHHHHhcCCHhHHHHHHH
Q 048394          166 LFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDN-------LTYIVWMQSYSHLNDIDGVERVFY  238 (485)
Q Consensus       166 ~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~-------~~~~~l~~~~~~~~~~~~a~~~~~  238 (485)
                      -++++.+.+.. ++........+|.+.|++..+..++.++.+.|.-.+.       .+|..+++-....+..+.-...++
T Consensus       175 ~v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~  253 (400)
T COG3071         175 NVDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWK  253 (400)
T ss_pred             HHHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHH
Confidence            88888887755 5667888888999999999999999999888765443       345666666656666666666666


Q ss_pred             HHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCCh
Q 048394          239 EMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTN  318 (485)
Q Consensus       239 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  318 (485)
                      ....  ...-++..-.+++.-+.++|+.++|.++.++..+..- |..  ....-.+.+.++.+.-.+..++-.+..+.++
T Consensus       254 ~~pr--~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~-D~~--L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p  328 (400)
T COG3071         254 NQPR--KLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQW-DPR--LCRLIPRLRPGDPEPLIKAAEKWLKQHPEDP  328 (400)
T ss_pred             hccH--HhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhcc-Chh--HHHHHhhcCCCCchHHHHHHHHHHHhCCCCh
Confidence            6665  3334444444577777777888888777777665222 111  1222234455666666666666655555566


Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHh
Q 048394          319 TSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKK  381 (485)
Q Consensus       319 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  381 (485)
                      ..+.+|...|.+.+.+.+|.+.|+...+.  .|+..+|+.+.++|.+.|+.++|.++.++...
T Consensus       329 ~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         329 LLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            66666666666667777776666655443  45666666666666666766666666666553

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

Probab=99.61  E-value=1.3e-11  Score=106.59  Aligned_cols=287  Identities=11%  Similarity=0.033  Sum_probs=224.4

Q ss_pred             hcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHH
Q 048394          156 KELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVER  235 (485)
Q Consensus       156 ~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  235 (485)
                      -.|++.+|++...+-.+.+..| ...|..-+.+.-..|+.+.+-.++.+..+.--.++....-+........|+++.|..
T Consensus        96 ~eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          96 FEGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            3689999999999888877553 345666667778889999999999988876335566667777788888999999999


Q ss_pred             HHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCC-C-------ChHHHHHHHHHHHhcCChhhHHHHH
Q 048394          236 VFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKP-R-------DRKAYHFLISLYCNTSNLDAVNRVW  307 (485)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~-------~~~~~~~l~~~~~~~~~~~~a~~~~  307 (485)
                      -++++.+  ..+-.+.+......+|.+.|++.....++.++.+..- .       ...+|..+++-....+..+.-...|
T Consensus       175 ~v~~ll~--~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W  252 (400)
T COG3071         175 NVDQLLE--MTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWW  252 (400)
T ss_pred             HHHHHHH--hCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHH
Confidence            9998887  5666778888889999999999999999999888222 1       2456777777777777777777778


Q ss_pred             HHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccC
Q 048394          308 GILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASA  387 (485)
Q Consensus       308 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~  387 (485)
                      +.....-..++..-.+++.-+...|+.++|.++..+..+.+..|...    ..-.+.+-++.+.-.+..++-.+..   +
T Consensus       253 ~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~----~~~~~l~~~d~~~l~k~~e~~l~~h---~  325 (400)
T COG3071         253 KNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLC----RLIPRLRPGDPEPLIKAAEKWLKQH---P  325 (400)
T ss_pred             HhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHH----HHHhhcCCCCchHHHHHHHHHHHhC---C
Confidence            77766555577778888888999999999999999999887766521    2223556677777777777666553   3


Q ss_pred             CchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhc
Q 048394          388 RFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSL  458 (485)
Q Consensus       388 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  458 (485)
                      .++..+..|...|.+.+.|.+|.+.|+..++.      .|+..+|..+..++.+.|+..+|.++.++..-.
T Consensus       326 ~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~------~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~  390 (400)
T COG3071         326 EDPLLLSTLGRLALKNKLWGKASEALEAALKL------RPSASDYAELADALDQLGEPEEAEQVRREALLL  390 (400)
T ss_pred             CChhHHHHHHHHHHHhhHHHHHHHHHHHHHhc------CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            33467778888999999999999999988875      499999999999999999999999998887643

>PRK12370 invasion protein regulator; Provisional

Probab=99.57  E-value=1.6e-12  Score=126.17  Aligned_cols=149  Identities=11%  Similarity=-0.037  Sum_probs=74.7

Q ss_pred             HhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHH
Q 048394          230 IDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGI  309 (485)
Q Consensus       230 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  309 (485)
                      +++|...+++..+  ..+.+...+..+...+...|++++|...|+++.+..|.+...+..+..++...|++++|...+++
T Consensus       320 ~~~A~~~~~~Al~--ldP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~  397 (553)
T PRK12370        320 MIKAKEHAIKATE--LDHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINE  397 (553)
T ss_pred             HHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            4555555555554  34444555555555555555555555555555555555555555555555555555555555555


Q ss_pred             hhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHH
Q 048394          310 LKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAK  380 (485)
Q Consensus       310 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  380 (485)
                      ..+..|.+...+..++..+...|++++|...++++.+....-++..+..+..++...|++++|...+.++.
T Consensus       398 Al~l~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~  468 (553)
T PRK12370        398 CLKLDPTRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEIS  468 (553)
T ss_pred             HHhcCCCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhh
Confidence            55555443333323333344445555555555554443211123334444455555555555555555543

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.57  E-value=4.1e-12  Score=110.10  Aligned_cols=201  Identities=17%  Similarity=0.072  Sum_probs=122.6

Q ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHH
Q 048394          250 WTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALA  329 (485)
Q Consensus       250 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  329 (485)
                      ...+..+...+...|++++|...++++.+..|.+...+..+...+...|++++|...+++.....+.+...+..+...+.
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  110 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLC  110 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHH
Confidence            34455556666666666666666666655555555666666666666666666666666666555555555566666666


Q ss_pred             hcCChhHHHHHHHHHHHccCC-CCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHH
Q 048394          330 KLNAIDILKQCFEEWESRCSS-YDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDL  408 (485)
Q Consensus       330 ~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  408 (485)
                      ..|++++|.+.++...+.... .....+..+...+...|++++|...+++..+..   +.+...+..+...+...|++++
T Consensus       111 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       111 QQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID---PQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---cCChHHHHHHHHHHHHcCCHHH
Confidence            666666666666666543211 123445556666677777777777777766553   2234456666666677777777


Q ss_pred             HHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhc
Q 048394          409 ALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSL  458 (485)
Q Consensus       409 A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  458 (485)
                      |...+++....     .+.+...+..+...+...|+.+.|..+.+.+...
T Consensus       188 A~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       188 ARAYLERYQQT-----YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHHh-----CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            77777776665     2334555555566666677777777766665543

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

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

Probab=99.56  E-value=6e-13  Score=111.37  Aligned_cols=230  Identities=16%  Similarity=0.086  Sum_probs=133.3

Q ss_pred             HHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHh
Q 048394          183 NNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVK  262 (485)
Q Consensus       183 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  262 (485)
                      +.+..+|.+.|.+.+|.+.++..+..  .|-+.||..|-+.|.+..++..|+.++.+-.+  ..|.++....-+...+-.
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld--~fP~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLD--SFPFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhh--cCCchhhhhhhhHHHHHH
Confidence            44556666666666666666665554  34455555566666666666666666666655  455555555555555556


Q ss_pred             cccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHH
Q 048394          263 AELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFE  342 (485)
Q Consensus       263 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  342 (485)
                      .++.++|.++++...+..+.+..+...+...|.-.++++-|+..++++.+.|..++..|+.+.-+|...+++|-++.-|+
T Consensus       303 m~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             HHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            66666666666666665555666666666666666666666666666666666666666666666666666666666666


Q ss_pred             HHHHccCCCC--HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          343 EWESRCSSYD--MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       343 ~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      .....--.|+  ..+|-.+.......|++.-|.+.|+-....+   ..+...++.|.-.-.+.|++++|..+++...+.
T Consensus       383 RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d---~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  383 RALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD---AQHGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC---cchHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            5554332222  3345445555555566666666665555443   334455555555555566666666666555543

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

Probab=99.56  E-value=1.1e-09  Score=102.43  Aligned_cols=366  Identities=13%  Similarity=0.019  Sum_probs=213.9

Q ss_pred             CCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhh-HHHH
Q 048394          108 HFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVA-FNNL  185 (485)
Q Consensus       108 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~-~~~l  185 (485)
                      .-+...|..+.-++..+|+++.+-+.|++... .......|+.+...|...|.-..|..++++-......|+..+ +-..
T Consensus       320 qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lma  399 (799)
T KOG4162|consen  320 QNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLMA  399 (799)
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHHH
Confidence            34556666666666666777777777766555 333455666666666666776667766666544332233222 2222


Q ss_pred             HHHHH-hCCCcccHHHHHHHHHHc--CC--CccHHHHHHHHHHHHhc-----------CCHhHHHHHHHHHHhccCCCCc
Q 048394          186 STMYL-RLGQPEKVRPLVNQMKQR--NI--SLDNLTYIVWMQSYSHL-----------NDIDGVERVFYEMCNECEDKCR  249 (485)
Q Consensus       186 ~~~~~-~~g~~~~a~~~~~~~~~~--~~--~p~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~  249 (485)
                      ...|. +.+..++++.+..+....  +.  ......|..+.-+|...           ....++++.+++..+.....|+
T Consensus       400 sklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~dp~  479 (799)
T KOG4162|consen  400 SKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTDPL  479 (799)
T ss_pred             HHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCCch
Confidence            22222 345555555555555441  10  01122232232232221           1134566666666652333333


Q ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhc-CCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHH
Q 048394          250 WTTYSNLASIYVKAELFEKAELALKKLEEM-KPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQAL  328 (485)
Q Consensus       250 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  328 (485)
                      ...|  +.--|+..++.+.|.+...+..+. ...+...|..+.-.+...+++.+|+.+.+......+.|......-+..-
T Consensus       480 ~if~--lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~~i~  557 (799)
T KOG4162|consen  480 VIFY--LALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKIHIE  557 (799)
T ss_pred             HHHH--HHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhhhhh
Confidence            3333  444555666777777777776664 4456666777766666777777777666655444333111111111111


Q ss_pred             HhcCChhHH-------------------------------------------HHHHHHHH--------Hcc---------
Q 048394          329 AKLNAIDIL-------------------------------------------KQCFEEWE--------SRC---------  348 (485)
Q Consensus       329 ~~~~~~~~a-------------------------------------------~~~~~~~~--------~~~---------  348 (485)
                      ...++.+++                                           .+....+.        ..+         
T Consensus       558 ~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~  637 (799)
T KOG4162|consen  558 LTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSST  637 (799)
T ss_pred             hhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCccc
Confidence            111111111                                           11111110        000         


Q ss_pred             --CCCC------HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHh
Q 048394          349 --SSYD------MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEA  420 (485)
Q Consensus       349 --~~~~------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  420 (485)
                        ..|+      ...|......+.+.+..++|...+.+.....   +-....|......+...|++.+|.+.|.......
T Consensus       638 ~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~---~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ld  714 (799)
T KOG4162|consen  638 VLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID---PLSASVYYLRGLLLEVKGQLEEAKEAFLVALALD  714 (799)
T ss_pred             ccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc---hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcC
Confidence              0111      2244556667778888888888888777653   3334455555566778999999999999999873


Q ss_pred             hhcCCCccHHHHHHHHHHHhhcCChhhHHH--HHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchh
Q 048394          421 KQFHWRPMQVTVDTFFRFFEEEKDVDGAEE--FCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDM  483 (485)
Q Consensus       421 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~--~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  483 (485)
                           +.++....++...+.+.|+..-|..  ++..+.+.+|.++.+|..|+..+.+.|+.++|.
T Consensus       715 -----P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aa  774 (799)
T KOG4162|consen  715 -----PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAA  774 (799)
T ss_pred             -----CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHH
Confidence                 4456688889999999999888888  999999999999999999999999999998874

>PRK12370 invasion protein regulator; Provisional

Probab=99.55  E-value=5.1e-12  Score=122.63  Aligned_cols=215  Identities=10%  Similarity=0.024  Sum_probs=116.5

Q ss_pred             CHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHh---------cccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCC
Q 048394          229 DIDGVERVFYEMCNECEDKCRWTTYSNLASIYVK---------AELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSN  299 (485)
Q Consensus       229 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---------~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  299 (485)
                      .+++|...|++..+  ..|.+...|..+..+|..         .+++++|...++++.+..|.+..++..+...+...|+
T Consensus       276 ~~~~A~~~~~~Al~--ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        276 SLQQALKLLTQCVN--MSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHh--cCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccC
Confidence            34566666666655  344444444444444332         2335666666666666666666666666666666666


Q ss_pred             hhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHH
Q 048394          300 LDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNA  379 (485)
Q Consensus       300 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  379 (485)
                      +++|...++++.+..|.+...+..+...+...|++++|...+++..+..+. +...+..++..+...|++++|...++++
T Consensus       354 ~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~~~  432 (553)
T PRK12370        354 YIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGDEL  432 (553)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHHHH
Confidence            666666666666666666666666666666666666666666666665443 2222222333344456666666666665


Q ss_pred             HhcccccCC-chhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccH-HHHHHHHHHHhhcCChhhHHHHHHHHhh
Q 048394          380 KKRANASAR-FFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQ-VTVDTFFRFFEEEKDVDGAEEFCKVLKS  457 (485)
Q Consensus       380 ~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~  457 (485)
                      .+..   .| +...+..+...+...|+.++|...+.++...      .|+. ...+.+...+...|  +.|...++.+.+
T Consensus       433 l~~~---~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~------~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~  501 (553)
T PRK12370        433 RSQH---LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ------EITGLIAVNLLYAEYCQNS--ERALPTIREFLE  501 (553)
T ss_pred             HHhc---cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc------cchhHHHHHHHHHHHhccH--HHHHHHHHHHHH
Confidence            5442   22 2233444555556666666666666665443      1332 22333334444444  355555555444

>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=99.55  E-value=1.7e-10  Score=108.36  Aligned_cols=283  Identities=14%  Similarity=0.091  Sum_probs=136.8

Q ss_pred             CCcHHHHHHHHHHh-CCCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHH-h-----hCCHH
Q 048394           57 GGSVTGALNAYIME-GKTVR-KDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTA-K-----TNGIA  128 (485)
Q Consensus        57 ~~~~~~~~~~~~~~-g~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~-~-----~g~~~  128 (485)
                      .+....+++.+.+. +..+| ...+......+.+.|+.++|..+|..+.+.+  |+...|-..+..+. -     ..+.+
T Consensus        17 ~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~~~~~~~   94 (517)
T PF12569_consen   17 AGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQLSDEDVE   94 (517)
T ss_pred             CCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcccccccHH
Confidence            34555555555432 22233 3334444555556666666666666666655  44444333333222 1     11345


Q ss_pred             HHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHH-HHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHH
Q 048394          129 AAEKYFNGLSEYAKNRYTYGALLNCYCKELMTE-RALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQ  207 (485)
Q Consensus       129 ~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~-~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  207 (485)
                      ...++++++....|.......+.-.+.....+. .+...+..+...|+++   +|+.+-..|......+-..+++.....
T Consensus        95 ~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l~~~~~~  171 (517)
T PF12569_consen   95 KLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESLVEEYVN  171 (517)
T ss_pred             HHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHHHHHHHH
Confidence            555555555553344333333332233222232 3344455555555432   455555555444443334444444332


Q ss_pred             c----C----------CCccHH--HHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHH
Q 048394          208 R----N----------ISLDNL--TYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAEL  271 (485)
Q Consensus       208 ~----~----------~~p~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  271 (485)
                      .    +          -.|+..  ++..+...|...|++++|+++++..+.  ..|..+..|..-+..+-+.|++.+|.+
T Consensus       172 ~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~--htPt~~ely~~KarilKh~G~~~~Aa~  249 (517)
T PF12569_consen  172 SLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIE--HTPTLVELYMTKARILKHAGDLKEAAE  249 (517)
T ss_pred             hhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHh--cCCCcHHHHHHHHHHHHHCCCHHHHHH
Confidence            1    0          112221  223344555556666666666666555  334445555555666666666666666


Q ss_pred             HHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC---Chh----h--HHHHHHHHHhcCChhHHHHHHH
Q 048394          272 ALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP---TNT----S--YLVLLQALAKLNAIDILKQCFE  342 (485)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~----~--~~~l~~~~~~~~~~~~a~~~~~  342 (485)
                      .++.....+..|...-+..+..+.+.|+.++|..++......+..   +..    .  ......+|.+.|++..|++.|.
T Consensus       250 ~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~  329 (517)
T PF12569_consen  250 AMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFH  329 (517)
T ss_pred             HHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            666666655555555555566666666666666665555443321   111    1  1334455555666666666555


Q ss_pred             HHHH
Q 048394          343 EWES  346 (485)
Q Consensus       343 ~~~~  346 (485)
                      .+.+
T Consensus       330 ~v~k  333 (517)
T PF12569_consen  330 AVLK  333 (517)
T ss_pred             HHHH
Confidence            5544

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 [], [].

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

Probab=99.55  E-value=2.3e-10  Score=101.40  Aligned_cols=385  Identities=13%  Similarity=0.064  Sum_probs=258.3

Q ss_pred             CCCcHHHHHHHHHHh-CCCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHhhCCHHHHHH
Q 048394           56 TGGSVTGALNAYIME-GKTVR-KDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFS-YTDFAVYLDLTAKTNGIAAAEK  132 (485)
Q Consensus        56 ~~~~~~~~~~~~~~~-g~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~  132 (485)
                      +.+...++++.+... ...|+ +..|.....+|...|+|+.+.+--....+.+  |+ ...+..-..++-..|++++|+.
T Consensus       127 ~~kkY~eAIkyY~~AI~l~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~--P~Y~KAl~RRA~A~E~lg~~~eal~  204 (606)
T KOG0547|consen  127 RNKKYDEAIKYYTQAIELCPDEPIFYSNRAACYESLGDWEKVIEDCTKALELN--PDYVKALLRRASAHEQLGKFDEALF  204 (606)
T ss_pred             hcccHHHHHHHHHHHHhcCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcC--cHHHHHHHHHHHHHHhhccHHHHHH
Confidence            678888999888754 56677 7888889999999999999999888877765  44 3345555667777888887764


Q ss_pred             HHHhhc--ccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHh-CC--CCCChhhHHHHHHHHHh----------------
Q 048394          133 YFNGLS--EYAKNRYTYGALLNCYCKELMTERALALFEKMDE-LK--FLGNTVAFNNLSTMYLR----------------  191 (485)
Q Consensus       133 ~~~~~~--~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~-~~--~~p~~~~~~~l~~~~~~----------------  191 (485)
                      =..-..  ..-.|..+ ..++.-..+    ..|....++-.. .+  +.|+.....+....+..                
T Consensus       205 D~tv~ci~~~F~n~s~-~~~~eR~Lk----k~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~~~ksDa~  279 (606)
T KOG0547|consen  205 DVTVLCILEGFQNASI-EPMAERVLK----KQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNKSDKSDAA  279 (606)
T ss_pred             hhhHHHHhhhcccchh-HHHHHHHHH----HHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCCCccchhh
Confidence            221110  00001100 111111111    111111111111 11  12222222222211110                


Q ss_pred             ---------CC---CcccHHHHHHHHHH-cCCCccH-----------HHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCC
Q 048394          192 ---------LG---QPEKVRPLVNQMKQ-RNISLDN-----------LTYIVWMQSYSHLNDIDGVERVFYEMCNECEDK  247 (485)
Q Consensus       192 ---------~g---~~~~a~~~~~~~~~-~~~~p~~-----------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  247 (485)
                               .+   .+..|.+.+.+-.. .-..++.           .+.......+.-.|+.-.|..-|+..+.  ..+
T Consensus       280 l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I~--l~~  357 (606)
T KOG0547|consen  280 LAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAIK--LDP  357 (606)
T ss_pred             HHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHHh--cCc
Confidence                     01   12222222211110 0011111           1111112223456888899999999988  444


Q ss_pred             CcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHH
Q 048394          248 CRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQA  327 (485)
Q Consensus       248 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  327 (485)
                      .+...|-.+..+|....+.++....|....+.+|.++.+|..-.+.+.-.+++++|..=|++.....|.+...|..+.-+
T Consensus       358 ~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe~~~~~iQl~~a  437 (606)
T KOG0547|consen  358 AFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPENAYAYIQLCCA  437 (606)
T ss_pred             ccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChhhhHHHHHHHHH
Confidence            44455778899999999999999999999999999999999999999999999999999999999999899999999999


Q ss_pred             HHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCc-------hhHH--HHHHH
Q 048394          328 LAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARF-------FKSR--ESFMI  398 (485)
Q Consensus       328 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~-------~~~~--~~l~~  398 (485)
                      ..+.+++++++..|++..+.-+. -+..|+.....+..++++++|.+.|+..++.    .|.       ...+  -.++.
T Consensus       438 ~Yr~~k~~~~m~~Fee~kkkFP~-~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L----E~~~~~~~v~~~plV~Ka~l~  512 (606)
T KOG0547|consen  438 LYRQHKIAESMKTFEEAKKKFPN-CPEVYNLFAEILTDQQQFDKAVKQYDKAIEL----EPREHLIIVNAAPLVHKALLV  512 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCC-CchHHHHHHHHHhhHHhHHHHHHHHHHHHhh----ccccccccccchhhhhhhHhh
Confidence            99999999999999999988555 7889999999999999999999999998875    232       1111  11111


Q ss_pred             HHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCC
Q 048394          399 YYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNC  460 (485)
Q Consensus       399 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  460 (485)
                      . -=.+++..|..++++.++..     +.....+..|...-.+.|+.++|+++|++...+..
T Consensus       513 ~-qwk~d~~~a~~Ll~KA~e~D-----pkce~A~~tlaq~~lQ~~~i~eAielFEksa~lAr  568 (606)
T KOG0547|consen  513 L-QWKEDINQAENLLRKAIELD-----PKCEQAYETLAQFELQRGKIDEAIELFEKSAQLAR  568 (606)
T ss_pred             h-chhhhHHHHHHHHHHHHccC-----chHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            1 12489999999999999873     34556788899999999999999999999877543

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.55  E-value=2.9e-10  Score=104.15  Aligned_cols=429  Identities=12%  Similarity=0.064  Sum_probs=270.4

Q ss_pred             CchhHHHHHHhhcC--CCCcHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 048394           42 NEDKLYKRLSALGA--TGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLD  119 (485)
Q Consensus        42 ~~~~l~~~l~~~~~--~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  119 (485)
                      ....+|+++.+...  .-..-..+++...+ +.+-...++....-.+...|+-++|.+......+..+ -+.+.|..+.-
T Consensus         6 KE~~lF~~~lk~yE~kQYkkgLK~~~~iL~-k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~-~S~vCwHv~gl   83 (700)
T KOG1156|consen    6 KENALFRRALKCYETKQYKKGLKLIKQILK-KFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDL-KSHVCWHVLGL   83 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHH-hCCccchhHHhccchhhcccchHHHHHHHHHHhccCc-ccchhHHHHHH
Confidence            45567777766543  11222223333333 5555566666655566777888888888777766553 45667777666


Q ss_pred             HHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccH
Q 048394          120 LTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKV  198 (485)
Q Consensus       120 ~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a  198 (485)
                      .+....++++|++.|..... .+-|...|..+...-++.|+++.....-.+..+..+. ....|..+..++.-.|+...|
T Consensus        84 ~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~-~ra~w~~~Avs~~L~g~y~~A  162 (700)
T KOG1156|consen   84 LQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPS-QRASWIGFAVAQHLLGEYKMA  162 (700)
T ss_pred             HHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhh-hHHHHHHHHHHHHHHHHHHHH
Confidence            66777888888888888877 4445667777777777888888888877777775433 455677777778888888888


Q ss_pred             HHHHHHHHHcC-CCccHHHHHHHHH------HHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHH
Q 048394          199 RPLVNQMKQRN-ISLDNLTYIVWMQ------SYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAEL  271 (485)
Q Consensus       199 ~~~~~~~~~~~-~~p~~~~~~~l~~------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  271 (485)
                      ..++++..+.. -.|+...+.-...      .....|..+.|.+.+..-..  .+......-..-...+.+.+++++|..
T Consensus       163 ~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~--~i~Dkla~~e~ka~l~~kl~~lEeA~~  240 (700)
T KOG1156|consen  163 LEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEK--QIVDKLAFEETKADLLMKLGQLEEAVK  240 (700)
T ss_pred             HHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhh--HHHHHHHHhhhHHHHHHHHhhHHhHHH
Confidence            88888887654 2456555543322      33456777777777766554  333333333456677888888888888


Q ss_pred             HHHHHHhcCCCChHHHHHHHHHHHhcCChhhHH-HHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCC
Q 048394          272 ALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVN-RVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSS  350 (485)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  350 (485)
                      ++..+....|.+...|-.+..++.+-.+.-++. .+|....+..+........=++......-.+...+++....+.|+.
T Consensus       241 ~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p  320 (700)
T KOG1156|consen  241 VYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVP  320 (700)
T ss_pred             HHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCC
Confidence            888888877767777777777775333333333 6666665554442211111112211122233444555566666654


Q ss_pred             CCHHhHHHHHHHHHhcCcHHHHHHHHHHHH----hccc--------ccCCchhHH--HHHHHHHHhcccHHHHHHHHHHH
Q 048394          351 YDMRLADVIIRAYLQKDMYEEAALIFNNAK----KRAN--------ASARFFKSR--ESFMIYYLRSRQLDLALNEMEAA  416 (485)
Q Consensus       351 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~--------~~~p~~~~~--~~l~~~~~~~g~~~~A~~~~~~~  416 (485)
                      +   ++..+...|-.-...+-..++.-.+.    ..|.        ..+|....|  -.++..|-+.|+++.|..+++.+
T Consensus       321 ~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~A  397 (700)
T KOG1156|consen  321 S---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLA  397 (700)
T ss_pred             c---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            3   34444444433222221111111111    1111        013444444  34567788999999999999999


Q ss_pred             HHHhhhcCCCcc-HHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          417 LSEAKQFHWRPM-QVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       417 ~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      ++..      |+ ...|..-.+.+...|++++|..+++++.+.+.+|...-.--++-..++++.++|.+
T Consensus       398 IdHT------PTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYmLrAn~i~eA~~  460 (700)
T KOG1156|consen  398 IDHT------PTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYMLRANEIEEAEE  460 (700)
T ss_pred             hccC------chHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHHHHccccHHHHH
Confidence            9863      55 44565666888899999999999999999998888777777888888888888753

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

Probab=99.54  E-value=2e-09  Score=93.57  Aligned_cols=318  Identities=10%  Similarity=-0.007  Sum_probs=230.9

Q ss_pred             CCCHhHHHHHHHHHHh--cCcHHHHHHHHHHHHhCC-CCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHH-
Q 048394          141 AKNRYTYGALLNCYCK--ELMTERALALFEKMDELK-FLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLT-  216 (485)
Q Consensus       141 ~~~~~~~~~li~~~~~--~~~~~~A~~~~~~m~~~~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~-  216 (485)
                      +|+.......+.+++.  .++...|...+-.+.... +.-|+.....+...+...|+.++|+..|++..-.  .|+..+ 
T Consensus       191 ~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~  268 (564)
T KOG1174|consen  191 PDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEA  268 (564)
T ss_pred             CCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--Chhhhhh
Confidence            3444444444544443  344444544443333222 3446667788889999999999999999988764  343322 


Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHh
Q 048394          217 YIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCN  296 (485)
Q Consensus       217 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  296 (485)
                      .....-.+.+.|+++....+...+..  ........|..-+......++++.|+.+-++..+..+.+...+..-...+..
T Consensus       269 MD~Ya~LL~~eg~~e~~~~L~~~Lf~--~~~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~  346 (564)
T KOG1174|consen  269 MDLYAVLLGQEGGCEQDSALMDYLFA--KVKYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIA  346 (564)
T ss_pred             HHHHHHHHHhccCHhhHHHHHHHHHh--hhhcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHh
Confidence            12223344677888888888877766  2323333443345556678899999999999988888888999888899999


Q ss_pred             cCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHH-HHHHh-cCcHHHHHH
Q 048394          297 TSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVII-RAYLQ-KDMYEEAAL  374 (485)
Q Consensus       297 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~~~-~~~~~~A~~  374 (485)
                      .|++++|.-.|+......|.+...|..|+.+|...|++.+|.-.-+...+.- ..+..+.+.+. .++.- -..-++|..
T Consensus       347 ~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~-~~sA~~LtL~g~~V~~~dp~~rEKAKk  425 (564)
T KOG1174|consen  347 LERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRLF-QNSARSLTLFGTLVLFPDPRMREKAKK  425 (564)
T ss_pred             ccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHh-hcchhhhhhhcceeeccCchhHHHHHH
Confidence            9999999999999988888899999999999999999999887777665542 22566665442 33332 233578888


Q ss_pred             HHHHHHhcccccCCch-hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHH
Q 048394          375 IFNNAKKRANASARFF-KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCK  453 (485)
Q Consensus       375 ~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  453 (485)
                      ++++....    .|+. ...+.+...+...|..++++.++++.+...      ||....+.|...+...+.+++|...|.
T Consensus       426 f~ek~L~~----~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~------~D~~LH~~Lgd~~~A~Ne~Q~am~~y~  495 (564)
T KOG1174|consen  426 FAEKSLKI----NPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIF------PDVNLHNHLGDIMRAQNEPQKAMEYYY  495 (564)
T ss_pred             HHHhhhcc----CCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhc------cccHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            88887766    5543 345566777889999999999999998854      899999999999999999999999999


Q ss_pred             HHhhcCCCCHHHHHHHHHHH
Q 048394          454 VLKSLNCLDFSAYSLLIKTY  473 (485)
Q Consensus       454 ~~~~~~~~~~~~~~~l~~~~  473 (485)
                      .++..+|.+..+...|-..-
T Consensus       496 ~ALr~dP~~~~sl~Gl~~lE  515 (564)
T KOG1174|consen  496 KALRQDPKSKRTLRGLRLLE  515 (564)
T ss_pred             HHHhcCccchHHHHHHHHHH
Confidence            99999999988887775443

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

Probab=99.54  E-value=1.2e-12  Score=109.63  Aligned_cols=233  Identities=12%  Similarity=0.012  Sum_probs=162.9

Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhc
Q 048394          218 IVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNT  297 (485)
Q Consensus       218 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  297 (485)
                      +.+.++|.+.|.+.+|.+.++...+   ..|-+.||..|...|.+..+++.|+.++.+-.+..|.++....-+.+.+-..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~---q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLT---QFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhh---cCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHH
Confidence            4566777777777777777777666   4455566666777777777777777777777776666666666677777777


Q ss_pred             CChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHH
Q 048394          298 SNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFN  377 (485)
Q Consensus       298 ~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  377 (485)
                      ++.++|.++++...+..+.+..+..++...|.-.++.+.|+.+|+.+.+.|.. ++..|+.+.-+|.-.++++-++.-|+
T Consensus       304 ~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             HhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            77777777777777776667777777777777777777777777777777776 67777777777777777777777777


Q ss_pred             HHHhcccccCCc--hhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHH
Q 048394          378 NAKKRANASARF--FKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVL  455 (485)
Q Consensus       378 ~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  455 (485)
                      +....-.  .|+  ...|-.+.......|++.-|.+.|+-.+..     .......++.|.-.-.+.|++++|..+++.+
T Consensus       383 RAlstat--~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~-----d~~h~ealnNLavL~~r~G~i~~Arsll~~A  455 (478)
T KOG1129|consen  383 RALSTAT--QPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTS-----DAQHGEALNNLAVLAARSGDILGARSLLNAA  455 (478)
T ss_pred             HHHhhcc--CcchhhhhhhccceeEEeccchHHHHHHHHHHhcc-----CcchHHHHHhHHHHHhhcCchHHHHHHHHHh
Confidence            7665432  333  234555555556677777777777777765     3344566777776667777777777777777


Q ss_pred             hhcCCC
Q 048394          456 KSLNCL  461 (485)
Q Consensus       456 ~~~~~~  461 (485)
                      ....|.
T Consensus       456 ~s~~P~  461 (478)
T KOG1129|consen  456 KSVMPD  461 (478)
T ss_pred             hhhCcc
Confidence            666554

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.54  E-value=1.3e-11  Score=106.95  Aligned_cols=201  Identities=10%  Similarity=0.024  Sum_probs=151.8

Q ss_pred             cHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHH
Q 048394          213 DNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLIS  292 (485)
Q Consensus       213 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  292 (485)
                      ....+..+...+...|++++|...+++..+  ..+.+...+..+...+...|++++|.+.+++..+..|.+...+..+..
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~--~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  107 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALE--HDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGT  107 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHH
Confidence            345566677777788888888888888776  445566777778888888888888888888887776767777888888


Q ss_pred             HHHhcCChhhHHHHHHHhhhcCCC--ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHH
Q 048394          293 LYCNTSNLDAVNRVWGILKSTFPP--TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYE  370 (485)
Q Consensus       293 ~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  370 (485)
                      .+...|++++|...+++.......  ....+..+...+...|++++|.+.+.+..+..+. +...+..+...+...|+++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~  186 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ-RPESLLELAELYYLRGQYK  186 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-ChHHHHHHHHHHHHcCCHH
Confidence            888888888888888887764322  4556677778888888888888888888776543 5667777888888888888


Q ss_pred             HHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          371 EAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       371 ~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      +|...+++..+..   ..+...+..+...+...|+.++|..+.+.+...
T Consensus       187 ~A~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       187 DARAYLERYQQTY---NQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHHHhC---CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            8888888887762   445566666777777888888888887776553

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.

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.53  E-value=8.9e-10  Score=93.77  Aligned_cols=359  Identities=11%  Similarity=0.078  Sum_probs=229.5

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccC-------------CCH--
Q 048394           80 EYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYA-------------KNR--  144 (485)
Q Consensus        80 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-------------~~~--  144 (485)
                      .-+...+.+.|++++|+.++..+.... .++...+..+..++.-.|.+.+|..+-....+.+             .|.  
T Consensus        61 lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k~pL~~RLlfhlahklndEk~  139 (557)
T KOG3785|consen   61 LWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQYIEAKSIAEKAPKTPLCIRLLFHLAHKLNDEKR  139 (557)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCcHHH
Confidence            345566778999999999999987765 4666666666666666788888888776654400             011  


Q ss_pred             ------------hHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHH-HHHHhCCCcccHHHHHHHHHHcCCC
Q 048394          145 ------------YTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLS-TMYLRLGQPEKVRPLVNQMKQRNIS  211 (485)
Q Consensus       145 ------------~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~-~~~~~~g~~~~a~~~~~~~~~~~~~  211 (485)
                                  .---+|.+.....-.+++|++++.+....+  |+-...|.-+ -+|.+..-++-+.+++.-.... ++
T Consensus       140 ~~~fh~~LqD~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn--~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~p  216 (557)
T KOG3785|consen  140 ILTFHSSLQDTLEDQLSLASVHYMRMHYQEAIDVYKRVLQDN--PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FP  216 (557)
T ss_pred             HHHHHHHHhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhcC--hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CC
Confidence                        111223333333456788888888887654  4555555444 4566777778888888777765 32


Q ss_pred             ccHHHHHHHHHHHHh--cCCH---------------------------------hHHHHHHHHHHhccCCCCcHHHHHHH
Q 048394          212 LDNLTYIVWMQSYSH--LNDI---------------------------------DGVERVFYEMCNECEDKCRWTTYSNL  256 (485)
Q Consensus       212 p~~~~~~~l~~~~~~--~~~~---------------------------------~~a~~~~~~~~~~~~~~~~~~~~~~l  256 (485)
                      -+....|.......+  .|+.                                 +.|++++-.+.+   ..|  ..-..|
T Consensus       217 dStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~---~IP--EARlNL  291 (557)
T KOG3785|consen  217 DSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMK---HIP--EARLNL  291 (557)
T ss_pred             CcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHh---hCh--Hhhhhh
Confidence            233333333322222  1221                                 112222222221   112  222346


Q ss_pred             HHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCC-------hhhHHHHHHHhhhcCCC--ChhhHHHHHHH
Q 048394          257 ASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSN-------LDAVNRVWGILKSTFPP--TNTSYLVLLQA  327 (485)
Q Consensus       257 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-------~~~a~~~~~~~~~~~~~--~~~~~~~l~~~  327 (485)
                      +--|.+.+++.+|..+.+.   ..|.++.-|..-.-.....|+       ..-|.+.|.-.-..+..  +...-.++..+
T Consensus       292 ~iYyL~q~dVqeA~~L~Kd---l~PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~  368 (557)
T KOG3785|consen  292 IIYYLNQNDVQEAISLCKD---LDPTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASY  368 (557)
T ss_pred             eeeecccccHHHHHHHHhh---cCCCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHH
Confidence            6677888999999988877   556555555444444444443       34566666655555554  44455677788


Q ss_pred             HHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHH
Q 048394          328 LAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLD  407 (485)
Q Consensus       328 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  407 (485)
                      +.-..++++.+-.++.+..--..-|...+| +.++++..|++.+|+++|-++....+  +.+..-...|.+.|.+.++++
T Consensus       369 fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~i--kn~~~Y~s~LArCyi~nkkP~  445 (557)
T KOG3785|consen  369 FFLSFQFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEI--KNKILYKSMLARCYIRNKKPQ  445 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhh--hhhHHHHHHHHHHHHhcCCch
Confidence            888889999999999888876666677777 88999999999999999988776654  444333455677889999999


Q ss_pred             HHHHHHHHHHHHhhhcCCCccHHHHHHHH-HHHhhcCChhhHHHHHHHHhhcCC
Q 048394          408 LALNEMEAALSEAKQFHWRPMQVTVDTFF-RFFEEEKDVDGAEEFCKVLKSLNC  460 (485)
Q Consensus       408 ~A~~~~~~~~~~~~~~~~~~~~~~~~~l~-~~~~~~~~~~~A~~~~~~~~~~~~  460 (485)
                      .|++++-++-.       +.+..+...+| ..|.+.+.+--|-+.|+.+...+|
T Consensus       446 lAW~~~lk~~t-------~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP  492 (557)
T KOG3785|consen  446 LAWDMMLKTNT-------PSERFSLLQLIANDCYKANEFYYAAKAFDELEILDP  492 (557)
T ss_pred             HHHHHHHhcCC-------chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCC
Confidence            99887766532       23344444444 788889998888899998888776

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.51  E-value=7.6e-10  Score=101.50  Aligned_cols=394  Identities=12%  Similarity=0.074  Sum_probs=258.9

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCC-CHhHHHHHHHHH
Q 048394           76 KDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAK-NRYTYGALLNCY  154 (485)
Q Consensus        76 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~li~~~  154 (485)
                      ...+..+.-.+...+++++|++.|......+ +-|...+.-+.-.-++.|+++.....-....+..| ....|..+..++
T Consensus        75 ~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs~  153 (700)
T KOG1156|consen   75 HVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFAVAQ  153 (700)
T ss_pred             chhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            3334444444455689999999999998887 45666776666666788899988888888877334 456788999899


Q ss_pred             HhcCcHHHHHHHHHHHHhCC-CCCChhhHHHHHHH------HHhCCCcccHHHHHHHHHHcCCCccHHHH-HHHHHHHHh
Q 048394          155 CKELMTERALALFEKMDELK-FLGNTVAFNNLSTM------YLRLGQPEKVRPLVNQMKQRNISLDNLTY-IVWMQSYSH  226 (485)
Q Consensus       155 ~~~~~~~~A~~~~~~m~~~~-~~p~~~~~~~l~~~------~~~~g~~~~a~~~~~~~~~~~~~p~~~~~-~~l~~~~~~  226 (485)
                      .-.|+...|..++++..+.. ..|+...|......      ..+.|.++.|.+.+..-... + .|...+ .+-...+.+
T Consensus       154 ~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i-~Dkla~~e~ka~l~~k  231 (700)
T KOG1156|consen  154 HLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-I-VDKLAFEETKADLLMK  231 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-H-HHHHHHhhhHHHHHHH
Confidence            99999999999999987654 34566666544432      34577778887777665543 2 243333 344567889


Q ss_pred             cCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHH-HHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHH
Q 048394          227 LNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAE-LALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNR  305 (485)
Q Consensus       227 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  305 (485)
                      .+++++|..++..+..  .+|.+...|..+..++.+..+.-++. .+|....+..|.....-..=+.......-.+..-.
T Consensus       232 l~~lEeA~~~y~~Ll~--rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdk  309 (700)
T KOG1156|consen  232 LGQLEEAVKVYRRLLE--RNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDK  309 (700)
T ss_pred             HhhHHhHHHHHHHHHh--hCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHH
Confidence            9999999999999998  67777777777777776444444444 66666665444322222222222222333344555


Q ss_pred             HHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH----cc----------CCCCHHhH--HHHHHHHHhcCcH
Q 048394          306 VWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWES----RC----------SSYDMRLA--DVIIRAYLQKDMY  369 (485)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~----------~~~~~~~~--~~l~~~~~~~~~~  369 (485)
                      ++..+.+.|.+  .++..+...|-.....+-.+++...+..    .|          -.|....|  -.++..|-..|++
T Consensus       310 yL~~~l~Kg~p--~vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~  387 (700)
T KOG1156|consen  310 YLRPLLSKGVP--SVFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDY  387 (700)
T ss_pred             HHHHHhhcCCC--chhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccH
Confidence            66666666665  3333444444332222222222222221    11          13444444  4567788899999


Q ss_pred             HHHHHHHHHHHhcccccCCchh-HHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhH
Q 048394          370 EEAALIFNNAKKRANASARFFK-SRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGA  448 (485)
Q Consensus       370 ~~A~~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  448 (485)
                      +.|..+++..+..    .|+.. .|..-.+.+...|++++|..++++..+.     ..+|...=..-.....+.+..++|
T Consensus       388 ~~A~~yId~AIdH----TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~el-----D~aDR~INsKcAKYmLrAn~i~eA  458 (700)
T KOG1156|consen  388 EVALEYIDLAIDH----TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQEL-----DTADRAINSKCAKYMLRANEIEEA  458 (700)
T ss_pred             HHHHHHHHHHhcc----CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhc-----cchhHHHHHHHHHHHHHccccHHH
Confidence            9999999998876    55543 3444457788999999999999999987     446665555666777889999999


Q ss_pred             HHHHHHHhhcCCC---C----HHHHHHH--HHHHHHhCCCcchhcC
Q 048394          449 EEFCKVLKSLNCL---D----FSAYSLL--IKTYIAAGKLASDMRQ  485 (485)
Q Consensus       449 ~~~~~~~~~~~~~---~----~~~~~~l--~~~~~~~g~~~~A~~~  485 (485)
                      .++....-+.+..   +    .-.|..+  +.+|.+.|++-.|+|+
T Consensus       459 ~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKk  504 (700)
T KOG1156|consen  459 EEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKK  504 (700)
T ss_pred             HHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHH
Confidence            9999888775531   1    1234333  5678888888888764

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.49  E-value=1.4e-09  Score=98.81  Aligned_cols=413  Identities=13%  Similarity=0.089  Sum_probs=244.9

Q ss_pred             hhHHHHHHhhcCCCCcHHHHHHHHHH--hCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 048394           44 DKLYKRLSALGATGGSVTGALNAYIM--EGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLT  121 (485)
Q Consensus        44 ~~l~~~l~~~~~~~~~~~~~~~~~~~--~g~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  121 (485)
                      ..++..+.+.+. .+.+++++....+  .+.+.+...+..-+-++.+.++|++|+.+.+.-...  ..+..-+---.-+.
T Consensus        13 ~~l~t~ln~~~~-~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~   89 (652)
T KOG2376|consen   13 EALLTDLNRHGK-NGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCE   89 (652)
T ss_pred             HHHHHHHHHhcc-chHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHH
Confidence            567777777554 5666666655433  244677788888888899999999999665542111  11111111113344


Q ss_pred             HhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH-hCCCcccHHH
Q 048394          122 AKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYL-RLGQPEKVRP  200 (485)
Q Consensus       122 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~-~~g~~~~a~~  200 (485)
                      .+.+..++|+..++....  -+..+...-...+.+.|++++|+++|+.+.+.+..    .+...+.+-+ ..+---.+  
T Consensus        90 Yrlnk~Dealk~~~~~~~--~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~d----d~d~~~r~nl~a~~a~l~~--  161 (652)
T KOG2376|consen   90 YRLNKLDEALKTLKGLDR--LDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSD----DQDEERRANLLAVAAALQV--  161 (652)
T ss_pred             HHcccHHHHHHHHhcccc--cchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCc----hHHHHHHHHHHHHHHhhhH--
Confidence            578999999999985543  23445555566778899999999999999877544    2322222111 11111111  


Q ss_pred             HHHHHHHcCCCccHHHHHHHHH---HHHhcCCHhHHHHHHHHHHhc------cCCCC--cHH-----HHHHHHHHHHhcc
Q 048394          201 LVNQMKQRNISLDNLTYIVWMQ---SYSHLNDIDGVERVFYEMCNE------CEDKC--RWT-----TYSNLASIYVKAE  264 (485)
Q Consensus       201 ~~~~~~~~~~~p~~~~~~~l~~---~~~~~~~~~~a~~~~~~~~~~------~~~~~--~~~-----~~~~l~~~~~~~~  264 (485)
                        +.+......| ..+|..+.+   .+...|++.+|+++++...+.      .+..-  +..     .-.-+...+...|
T Consensus       162 --~~~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~G  238 (652)
T KOG2376|consen  162 --QLLQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQG  238 (652)
T ss_pred             --HHHHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhc
Confidence              1222222333 334544443   456789999999999988220      01111  111     1123455667889


Q ss_pred             cHHHHHHHHHHHHhcCCCChHHH----HHHHHHHHhcCChh-hHHHHH--------------------------------
Q 048394          265 LFEKAELALKKLEEMKPRDRKAY----HFLISLYCNTSNLD-AVNRVW--------------------------------  307 (485)
Q Consensus       265 ~~~~A~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~-~a~~~~--------------------------------  307 (485)
                      +-++|..++....+..++|....    |.++..-....-.+ .++..+                                
T Consensus       239 qt~ea~~iy~~~i~~~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l  318 (652)
T KOG2376|consen  239 QTAEASSIYVDIIKRNPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLAL  318 (652)
T ss_pred             chHHHHHHHHHHHHhcCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999666665333    33332221111111 000000                                


Q ss_pred             --------HHhhhcCCC--ChhhHHHHHHHHHh--cCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHH
Q 048394          308 --------GILKSTFPP--TNTSYLVLLQALAK--LNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALI  375 (485)
Q Consensus       308 --------~~~~~~~~~--~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  375 (485)
                              ++.....+.  ....+..++..+.+  ......+.+++....+..+.-...+.-.++......|+++.|.++
T Consensus       319 ~tnk~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~i  398 (652)
T KOG2376|consen  319 FTNKMDQVRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEI  398 (652)
T ss_pred             HhhhHHHHHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHH
Confidence                    111111222  23333444443332  224566677777666655443455666677888899999999999


Q ss_pred             HH--------HHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHH----HHHHhhcC
Q 048394          376 FN--------NAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTF----FRFFEEEK  443 (485)
Q Consensus       376 ~~--------~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l----~~~~~~~~  443 (485)
                      +.        .+.+.+.  .|-.  ...+...+.+.++-+.|..++.+.+..-..  ..+.......+    ...-.+.|
T Consensus       399 l~~~~~~~~ss~~~~~~--~P~~--V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~--~~t~s~~l~~~~~~aa~f~lr~G  472 (652)
T KOG2376|consen  399 LSLFLESWKSSILEAKH--LPGT--VGAIVALYYKIKDNDSASAVLDSAIKWWRK--QQTGSIALLSLMREAAEFKLRHG  472 (652)
T ss_pred             HHHHhhhhhhhhhhhcc--ChhH--HHHHHHHHHhccCCccHHHHHHHHHHHHHH--hcccchHHHhHHHHHhHHHHhcC
Confidence            99        5555554  5544  345666677777777777777777654211  11222333333    33445679


Q ss_pred             ChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHh
Q 048394          444 DVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAA  476 (485)
Q Consensus       444 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  476 (485)
                      +-++|..+++++.+..|++..+...++.+|++.
T Consensus       473 ~~~ea~s~leel~k~n~~d~~~l~~lV~a~~~~  505 (652)
T KOG2376|consen  473 NEEEASSLLEELVKFNPNDTDLLVQLVTAYARL  505 (652)
T ss_pred             chHHHHHHHHHHHHhCCchHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999874

>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=99.48  E-value=7.6e-10  Score=103.98  Aligned_cols=259  Identities=17%  Similarity=0.126  Sum_probs=119.1

Q ss_pred             HHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHH-HHHHHHHHh-----
Q 048394           83 VRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTY-GALLNCYCK-----  156 (485)
Q Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~li~~~~~-----  156 (485)
                      ...+...|++++|++.++.-... +......+......+.+.|+.++|..++..+.+..|+...| ..+..+..-     
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPdn~~Yy~~L~~~~g~~~~~~   89 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPDNYDYYRGLEEALGLQLQLS   89 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHhhhcccc
Confidence            34455666666666666554333 22223334445556666666666666666666644444433 333333311     


Q ss_pred             cCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCc-ccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHH
Q 048394          157 ELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQP-EKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVER  235 (485)
Q Consensus       157 ~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  235 (485)
                      ..+.+....+++++...-  |...+...+.-.+.....+ ..+..++..+..+|++   .+|+.+-..|....+.+-..+
T Consensus        90 ~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~  164 (517)
T PF12569_consen   90 DEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIES  164 (517)
T ss_pred             cccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHH
Confidence            124555566666665543  3333332222222222222 2333444555555542   234444444444444444444


Q ss_pred             HHHHHHhcc-------------CCCCcH--HHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCCh
Q 048394          236 VFYEMCNEC-------------EDKCRW--TTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNL  300 (485)
Q Consensus       236 ~~~~~~~~~-------------~~~~~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  300 (485)
                      ++.......             ..+|+.  .++..+...|-..|++++|++.+++..+..|..+..|..-...+-+.|++
T Consensus       165 l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~  244 (517)
T PF12569_consen  165 LVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDL  244 (517)
T ss_pred             HHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCH
Confidence            444433210             012222  12233344444455555555555555444444444555555555555555


Q ss_pred             hhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048394          301 DAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESR  347 (485)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  347 (485)
                      .+|.+.++..+.....|...-+..+..+.+.|++++|.+++....+.
T Consensus       245 ~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~  291 (517)
T PF12569_consen  245 KEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTRE  291 (517)
T ss_pred             HHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCC
Confidence            55555555554444444444444444444555555555544444443

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 [], [].

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.48  E-value=4.4e-10  Score=95.56  Aligned_cols=378  Identities=12%  Similarity=0.033  Sum_probs=228.0

Q ss_pred             HHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcHH
Q 048394           83 VRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMTE  161 (485)
Q Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~  161 (485)
                      +.-+...+++..|+.+++.-...+-+-...+-..+..++.+.|++++|...+..+.+ ..++...+..|.-++.-.|.+.
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~  108 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYI  108 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHH
Confidence            444667788999999998765444222222333345567789999999999998877 7788888888888888889999


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048394          162 RALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMC  241 (485)
Q Consensus       162 ~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  241 (485)
                      +|..+-.+..+     ++..-..|.....+.++-++...+-+.+.+.     ...-..|.......-.+.+|+.++....
T Consensus       109 eA~~~~~ka~k-----~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL  178 (557)
T KOG3785|consen  109 EAKSIAEKAPK-----TPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVL  178 (557)
T ss_pred             HHHHHHhhCCC-----ChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            99988766443     3334455556666777766666665555442     1223345555555667889999999988


Q ss_pred             hccCCCCcHHHHH-HHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCC-----
Q 048394          242 NECEDKCRWTTYS-NLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFP-----  315 (485)
Q Consensus       242 ~~~~~~~~~~~~~-~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----  315 (485)
                      .   ..|.....| .+.-+|.+..-++-+.++++...+..|.++.+.|..+....+.=+-..|.+-.+.+.+.+.     
T Consensus       179 ~---dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f  255 (557)
T KOG3785|consen  179 Q---DNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPF  255 (557)
T ss_pred             h---cChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchh
Confidence            7   233333222 2566777888888888888888887777777777665554442222222221111111110     


Q ss_pred             -----------------------C----ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHH-----HH
Q 048394          316 -----------------------P----TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIR-----AY  363 (485)
Q Consensus       316 -----------------------~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-----~~  363 (485)
                                             +    -+.+-..|+--|.+.+++.+|..+.+++.-.  .|-......++.     -.
T Consensus       256 ~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKgvv~aalGQe~  333 (557)
T KOG3785|consen  256 IEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKGVVFAALGQET  333 (557)
T ss_pred             HHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcCCC--ChHHHHHHHHHHHHhhhhc
Confidence                                   0    1122333455567888999988887765321  222222222221     11


Q ss_pred             HhcCcHHHHHHHHHHHHhcccccCCch-hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhc
Q 048394          364 LQKDMYEEAALIFNNAKKRANASARFF-KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEE  442 (485)
Q Consensus       364 ~~~~~~~~A~~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  442 (485)
                      .......-|.+.|+-.-+.+.  .-|. .--.++...+.-..++++.+.+++.+..-     +..|...-..+..+....
T Consensus       334 gSreHlKiAqqffqlVG~Sa~--ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sY-----F~NdD~Fn~N~AQAk~at  406 (557)
T KOG3785|consen  334 GSREHLKIAQQFFQLVGESAL--ECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESY-----FTNDDDFNLNLAQAKLAT  406 (557)
T ss_pred             CcHHHHHHHHHHHHHhccccc--ccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-----hcCcchhhhHHHHHHHHh
Confidence            122234556666655444332  2221 11234445555566777777777776665     555555555667777777


Q ss_pred             CChhhHHHHHHHHhhcCCCCHHHH-HHHHHHHHHhCCCcch
Q 048394          443 KDVDGAEEFCKVLKSLNCLDFSAY-SLLIKTYIAAGKLASD  482 (485)
Q Consensus       443 ~~~~~A~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A  482 (485)
                      |++.+|+++|-++......|..+| ..|+++|.++|+++-|
T Consensus       407 gny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lA  447 (557)
T KOG3785|consen  407 GNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLA  447 (557)
T ss_pred             cChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHH
Confidence            888888877766665544454444 4566777777776655

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

Probab=99.46  E-value=1.8e-09  Score=93.83  Aligned_cols=296  Identities=10%  Similarity=0.023  Sum_probs=228.0

Q ss_pred             CCChhhHHHHHHHH--HhCCCcccHHHHHHHHHHcC-CCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHH
Q 048394          176 LGNTVAFNNLSTMY--LRLGQPEKVRPLVNQMKQRN-ISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTT  252 (485)
Q Consensus       176 ~p~~~~~~~l~~~~--~~~g~~~~a~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  252 (485)
                      .|+..+...-+.++  +..++...+...+-.+.... ++-|+.....+.+++...|+.++|+..|++...  -.+.+...
T Consensus       191 ~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~--~dpy~i~~  268 (564)
T KOG1174|consen  191 PDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLC--ANPDNVEA  268 (564)
T ss_pred             CCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhh--CChhhhhh
Confidence            33333434444443  44566666666655554433 555677888899999999999999999999876  45555555


Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcC
Q 048394          253 YSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLN  332 (485)
Q Consensus       253 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  332 (485)
                      .....-.+.+.|+.+....+...+..........|..-+......++++.|+.+-++..+..+.+...+..-...+...|
T Consensus       269 MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~  348 (564)
T KOG1174|consen  269 MDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALE  348 (564)
T ss_pred             HHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhcc
Confidence            55555666788999999998888887666677778777888888999999999999999988888888888888899999


Q ss_pred             ChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHH-HHHH-hcccHHHHH
Q 048394          333 AIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFM-IYYL-RSRQLDLAL  410 (485)
Q Consensus       333 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~-~~~~-~~g~~~~A~  410 (485)
                      +.++|.-.|+......+. +...|..|+.+|...|++.+|..+-....+.-   ..+..+...+. ..+. .-..-++|.
T Consensus       349 R~~~A~IaFR~Aq~Lap~-rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~---~~sA~~LtL~g~~V~~~dp~~rEKAK  424 (564)
T KOG1174|consen  349 RHTQAVIAFRTAQMLAPY-RLEIYRGLFHSYLAQKRFKEANALANWTIRLF---QNSARSLTLFGTLVLFPDPRMREKAK  424 (564)
T ss_pred             chHHHHHHHHHHHhcchh-hHHHHHHHHHHHHhhchHHHHHHHHHHHHHHh---hcchhhhhhhcceeeccCchhHHHHH
Confidence            999999999998877544 78999999999999999999998877655431   33444554442 2222 333458899


Q ss_pred             HHHHHHHHHhhhcCCCcc-HHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          411 NEMEAALSEAKQFHWRPM-QVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       411 ~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      +++++.+...      |+ ......+...|...|..+.++.++++.+... +|....+.|++.+...+.+++|+.
T Consensus       425 kf~ek~L~~~------P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~-~D~~LH~~Lgd~~~A~Ne~Q~am~  492 (564)
T KOG1174|consen  425 KFAEKSLKIN------PIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIF-PDVNLHNHLGDIMRAQNEPQKAME  492 (564)
T ss_pred             HHHHhhhccC------CccHHHHHHHHHHHHhhCccchHHHHHHHHHhhc-cccHHHHHHHHHHHHhhhHHHHHH
Confidence            9999988863      65 4466777789999999999999999999865 477788999999999999999875

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

Probab=99.44  E-value=5.5e-11  Score=112.42  Aligned_cols=365  Identities=10%  Similarity=0.052  Sum_probs=240.2

Q ss_pred             HHHHHHHHhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccC
Q 048394           62 GALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYA  141 (485)
Q Consensus        62 ~~~~~~~~~g~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  141 (485)
                      .++-.+...|+.|+..+|..++..||..|+.+.|- +|.-|.-...+.+...++.++......++.+.+.         .
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk---------e   80 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK---------E   80 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC---------C
Confidence            46667777899999999999999999999999988 8888877777778888999988888888877665         4


Q ss_pred             CCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHH-cCCCccHHHHHHH
Q 048394          142 KNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQ-RNISLDNLTYIVW  220 (485)
Q Consensus       142 ~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~p~~~~~~~l  220 (485)
                      |...+|..|..+|...||+..    |+...+        -...+...+...|.-.....++..+.- .+.-||..+   +
T Consensus        81 p~aDtyt~Ll~ayr~hGDli~----fe~veq--------dLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n---~  145 (1088)
T KOG4318|consen   81 PLADTYTNLLKAYRIHGDLIL----FEVVEQ--------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAEN---A  145 (1088)
T ss_pred             CchhHHHHHHHHHHhccchHH----HHHHHH--------HHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHH---H
Confidence            788899999999999998876    333332        223344556666666666666555332 234455543   4


Q ss_pred             HHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhc-ccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCC
Q 048394          221 MQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKA-ELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSN  299 (485)
Q Consensus       221 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  299 (485)
                      +......|-++.+++++..+.......|...    ++.-+... ..+++-....+...+  .+++.+|..+++.-...|+
T Consensus       146 illlv~eglwaqllkll~~~Pvsa~~~p~~v----fLrqnv~~ntpvekLl~~cksl~e--~~~s~~l~a~l~~alaag~  219 (1088)
T KOG4318|consen  146 ILLLVLEGLWAQLLKLLAKVPVSAWNAPFQV----FLRQNVVDNTPVEKLLNMCKSLVE--APTSETLHAVLKRALAAGD  219 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHhhCCcccccchHHH----HHHHhccCCchHHHHHHHHHHhhc--CCChHHHHHHHHHHHhcCc
Confidence            4455667888888888877765333333222    23322222 233443333333322  5799999999999999999


Q ss_pred             hhhHHHHHHHhhhcCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHH
Q 048394          300 LDAVNRVWGILKSTFPP-TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNN  378 (485)
Q Consensus       300 ~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  378 (485)
                      .+.|..++..|++.|.+ +..-|-.|+-+   .++...++.++.-|.+.|+.|+..|+..-+..+..+|....+.     
T Consensus       220 ~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~-----  291 (1088)
T KOG4318|consen  220 VDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGE-----  291 (1088)
T ss_pred             hhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcc-----
Confidence            99999999999999999 66655555544   7888899999999999999999999988877777755522221     


Q ss_pred             HHhcccccCCchhHHHHHHHHHHhcc----------cHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhH
Q 048394          379 AKKRANASARFFKSRESFMIYYLRSR----------QLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGA  448 (485)
Q Consensus       379 ~~~~~~~~~p~~~~~~~l~~~~~~~g----------~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  448 (485)
                         .|   .|....+..-..+-.-.|          ...-....+.+..-.|    +.-...+|..... ...+|.-++.
T Consensus       292 ---e~---sq~~hg~tAavrsaa~rg~~a~k~l~~nl~~~v~~s~k~~fLlg----~d~~~aiws~c~~-l~hQgk~e~v  360 (1088)
T KOG4318|consen  292 ---EG---SQLAHGFTAAVRSAACRGLLANKRLRQNLRKSVIGSTKKLFLLG----TDILEAIWSMCEK-LRHQGKGEEV  360 (1088)
T ss_pred             ---cc---cchhhhhhHHHHHHHhcccHhHHHHHHHHHHHHHHHhhHHHHhc----cccchHHHHHHHH-HHHcCCCchH
Confidence               12   233222222222222223          1111222222222233    3333344443333 3347888888


Q ss_pred             HHHHHHHhh----cCCCCHHHHHHHHHHHHHh
Q 048394          449 EEFCKVLKS----LNCLDFSAYSLLIKTYIAA  476 (485)
Q Consensus       449 ~~~~~~~~~----~~~~~~~~~~~l~~~~~~~  476 (485)
                      +++-..+..    ..+.+...|..+..-|.+.
T Consensus       361 eqlvg~l~npt~r~s~~~V~a~~~~lrqyFrr  392 (1088)
T KOG4318|consen  361 EQLVGQLLNPTLRDSGQNVDAFGALLRQYFRR  392 (1088)
T ss_pred             HHHHhhhcCCccccCcchHHHHHHHHHHHHHH
Confidence            888777755    2345778888888777764

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.44  E-value=1.9e-10  Score=102.39  Aligned_cols=242  Identities=12%  Similarity=0.027  Sum_probs=152.0

Q ss_pred             CCHhHHHHHHHHHHhccCCCCc--HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHH
Q 048394          228 NDIDGVERVFYEMCNECEDKCR--WTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNR  305 (485)
Q Consensus       228 ~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  305 (485)
                      +..+.++.-+.++.......|+  ...|..+...|...|+.++|...|++..+..|.+...|+.+...+...|++++|..
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            4556666666666652222222  34566677778888888888888888888777788888888888888888888888


Q ss_pred             HHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccc
Q 048394          306 VWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANA  385 (485)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  385 (485)
                      .|++..+..|.+..++..+..++...|++++|.+.|+...+..+. +. ........+...++.++|...|.+.....  
T Consensus       120 ~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~-~~-~~~~~~~l~~~~~~~~~A~~~l~~~~~~~--  195 (296)
T PRK11189        120 AFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPN-DP-YRALWLYLAESKLDPKQAKENLKQRYEKL--  195 (296)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CH-HHHHHHHHHHccCCHHHHHHHHHHHHhhC--
Confidence            888888777777777777888888888888888888888776443 22 11111222345667888888886655332  


Q ss_pred             cCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhh-cC-CCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCC-C
Q 048394          386 SARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQ-FH-WRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL-D  462 (485)
Q Consensus       386 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~  462 (485)
                       .|+...+ .+  .....|+...+ +.++.+.+.... +. .+.....|..+...+.+.|++++|...|+++.+..|+ .
T Consensus       196 -~~~~~~~-~~--~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~  270 (296)
T PRK11189        196 -DKEQWGW-NI--VEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNF  270 (296)
T ss_pred             -CccccHH-HH--HHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchH
Confidence             2322222 22  22334554443 244444322100 00 1123457778888888888888888888888888865 4


Q ss_pred             HHHHHHHHHHHHHhCC
Q 048394          463 FSAYSLLIKTYIAAGK  478 (485)
Q Consensus       463 ~~~~~~l~~~~~~~g~  478 (485)
                      +..-..+++.....++
T Consensus       271 ~e~~~~~~e~~~~~~~  286 (296)
T PRK11189        271 VEHRYALLELALLGQD  286 (296)
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            4444445555444333

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

Probab=99.44  E-value=2.8e-10  Score=91.15  Aligned_cols=204  Identities=14%  Similarity=0.021  Sum_probs=152.5

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcC
Q 048394          253 YSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLN  332 (485)
Q Consensus       253 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  332 (485)
                      ..-|.-.|...|+...|..-+++..+.+|.+..+|..+...|.+.|..+.|.+.|++.....+.+..+.|.....+|..|
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg  117 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQG  117 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCC
Confidence            34467778888888888888888888888788888888888888888888888888888887777788888888888888


Q ss_pred             ChhHHHHHHHHHHHccC-CCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHH
Q 048394          333 AIDILKQCFEEWESRCS-SYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALN  411 (485)
Q Consensus       333 ~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  411 (485)
                      .+++|...|+.....-. .--..+|..+.-+..+.|+.+.|...|++.++.+   +....+...+.....+.|++..|..
T Consensus       118 ~~~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         118 RPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD---PQFPPALLELARLHYKAGDYAPARL  194 (250)
T ss_pred             ChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC---cCCChHHHHHHHHHHhcccchHHHH
Confidence            88888888887766421 1134567777777778888888888888887764   3334455566777778888888888


Q ss_pred             HHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHH
Q 048394          412 EMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFS  464 (485)
Q Consensus       412 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  464 (485)
                      +++.....+     .++...+-..|+.-...||.+.+.++=..+....|....
T Consensus       195 ~~~~~~~~~-----~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~s~e  242 (250)
T COG3063         195 YLERYQQRG-----GAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPYSEE  242 (250)
T ss_pred             HHHHHHhcc-----cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHH
Confidence            888777763     477777777777777788888887777777777765544

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

Probab=99.43  E-value=2.8e-10  Score=107.82  Aligned_cols=277  Identities=11%  Similarity=0.038  Sum_probs=206.3

Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc--cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCC
Q 048394           97 EVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE--YAKNRYTYGALLNCYCKELMTERALALFEKMDELK  174 (485)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~  174 (485)
                      .++-.+...|+.|+..||..+|.-|+..|+++.|- +|.-|.-  .+-+...|+.++.+....++.+.+.          
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            45667788999999999999999999999999998 7777655  6667789999999999999988877          


Q ss_pred             CCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHH
Q 048394          175 FLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYS  254 (485)
Q Consensus       175 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  254 (485)
                       .|...||..|..+|...||...    |+...+        ....+...+...|--.....++..+.-..+..||...  
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--------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAEN--  144 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHH----HHHHHH--------HHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHH--
Confidence             5788899999999999999766    333322        1223444555666666666666655443567777776  


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcC-CCChhhHHHHHHHHHhcCC
Q 048394          255 NLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTF-PPTNTSYLVLLQALAKLNA  333 (485)
Q Consensus       255 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~  333 (485)
                       .+......|-++.+++++..+-......+...  +++-+...  +....++........ .++..+|..++.+-...|+
T Consensus       145 -~illlv~eglwaqllkll~~~Pvsa~~~p~~v--fLrqnv~~--ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~  219 (1088)
T KOG4318|consen  145 -AILLLVLEGLWAQLLKLLAKVPVSAWNAPFQV--FLRQNVVD--NTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGD  219 (1088)
T ss_pred             -HHHHHHHHHHHHHHHHHHhhCCcccccchHHH--HHHHhccC--CchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCc
Confidence             77777788889999888876543111121212  24433332  233444444433322 2489999999999999999


Q ss_pred             hhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHH
Q 048394          334 IDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLA  409 (485)
Q Consensus       334 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  409 (485)
                      .+.|..++.+|.+.|...+.+-|-.|+-+   .++..-+..++..|.+.|+  .|+..|+...+..+..+|....+
T Consensus       220 ~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv--~p~seT~adyvip~l~N~~t~~~  290 (1088)
T KOG4318|consen  220 VDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGV--QPGSETQADYVIPQLSNGQTKYG  290 (1088)
T ss_pred             hhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcC--CCCcchhHHHHHhhhcchhhhhc
Confidence            99999999999999999898888888766   7888999999999999999  99999998888777776554433

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.43  E-value=3.8e-10  Score=104.66  Aligned_cols=244  Identities=13%  Similarity=0.085  Sum_probs=178.4

Q ss_pred             HHHHHHHHHHHHhcCCHhHHHHHHHHHHhc-----cCCCCcHHH-HHHHHHHHHhcccHHHHHHHHHHHHhc-----CC-
Q 048394          214 NLTYIVWMQSYSHLNDIDGVERVFYEMCNE-----CEDKCRWTT-YSNLASIYVKAELFEKAELALKKLEEM-----KP-  281 (485)
Q Consensus       214 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~-~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~-  281 (485)
                      ..++..+...|...|+++.|+.+++...+.     +...|...+ .+.+...|...+++++|..+|+++..+     ++ 
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            455666888888899999998888877662     012333333 345778888899999999999988771     22 


Q ss_pred             --CChHHHHHHHHHHHhcCChhhHHHHHHHhhhc-------CCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHc---c
Q 048394          282 --RDRKAYHFLISLYCNTSNLDAVNRVWGILKST-------FPP-TNTSYLVLLQALAKLNAIDILKQCFEEWESR---C  348 (485)
Q Consensus       282 --~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~  348 (485)
                        .-..+++.|..+|.+.|++++|...++++.+.       ..+ -...++.++..+...+++++|..+++...+.   -
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              22456777888899999998888777765431       122 3345677888888999999999999876542   1


Q ss_pred             CCC----CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcc----c-ccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          349 SSY----DMRLADVIIRAYLQKDMYEEAALIFNNAKKRA----N-ASARFFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       349 ~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~----~-~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      +.+    -..+++.|...|...|++++|..++++++...    - ...-....++.+...|.+.+++.+|.++|.+....
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            222    25688999999999999999999999887541    1 00222445778888999999999999999987766


Q ss_pred             hhhc--CCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhh
Q 048394          420 AKQF--HWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKS  457 (485)
Q Consensus       420 ~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  457 (485)
                      ....  +.+....+|..|...|...|+++.|.++.+.+..
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            5321  1222346889999999999999999999988874

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

Probab=99.42  E-value=5.4e-10  Score=89.58  Aligned_cols=198  Identities=11%  Similarity=-0.004  Sum_probs=171.4

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Q 048394          216 TYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYC  295 (485)
Q Consensus       216 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  295 (485)
                      +...|.-.|.+.|+...|.+-+++..+  ..|.+..++..+...|.+.|+.+.|.+.|++..+..|.+..+.|.....+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~--~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALE--HDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHH
Confidence            445577789999999999999999998  778888899999999999999999999999999999999999999999999


Q ss_pred             hcCChhhHHHHHHHhhhcCCC--ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHH
Q 048394          296 NTSNLDAVNRVWGILKSTFPP--TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAA  373 (485)
Q Consensus       296 ~~~~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  373 (485)
                      ..|++++|...|++......-  ...+|..+.-+..+.|+.+.|...|+...+..+. ...+...+.....+.|++-.|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHH
Confidence            999999999999988775433  6788999999999999999999999999988665 5566777889999999999999


Q ss_pred             HHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          374 LIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       374 ~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      .+++.....+   .++..+....|..--..|+.+.+-++=..+...
T Consensus       194 ~~~~~~~~~~---~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~  236 (250)
T COG3063         194 LYLERYQQRG---GAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL  236 (250)
T ss_pred             HHHHHHHhcc---cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            9999988877   577777777777778899988887776666665

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.40  E-value=1.1e-07  Score=87.61  Aligned_cols=281  Identities=11%  Similarity=0.097  Sum_probs=165.9

Q ss_pred             CCcccHHHHHHHHHHcCCCcc------HHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCc---HHHHHHHHHHHHhc
Q 048394          193 GQPEKVRPLVNQMKQRNISLD------NLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCR---WTTYSNLASIYVKA  263 (485)
Q Consensus       193 g~~~~a~~~~~~~~~~~~~p~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~  263 (485)
                      |+..+....|.+..+. +.|.      ...|..+.+.|-..|+++.|..+|++..+ ...+.-   ..+|......-.+.
T Consensus       361 ~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~-V~y~~v~dLa~vw~~waemElrh  438 (835)
T KOG2047|consen  361 GNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATK-VPYKTVEDLAEVWCAWAEMELRH  438 (835)
T ss_pred             CChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhc-CCccchHHHHHHHHHHHHHHHhh
Confidence            4455556666666543 2232      23466677778888888888888888877 222222   34555555666667


Q ss_pred             ccHHHHHHHHHHHHhcCCC------------------ChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHH
Q 048394          264 ELFEKAELALKKLEEMKPR------------------DRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLL  325 (485)
Q Consensus       264 ~~~~~A~~~~~~~~~~~~~------------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  325 (485)
                      .+++.|+.+++.....+.+                  +...|...++.--..|-++....+++++.+....++.......
T Consensus       439 ~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLriaTPqii~NyA  518 (835)
T KOG2047|consen  439 ENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATPQIIINYA  518 (835)
T ss_pred             hhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHHHHHHHH
Confidence            7788888877776542221                  2445666666666677778888888888777666555555555


Q ss_pred             HHHHhcCChhHHHHHHHHHHHccCCCCH-HhHHHHHHHHHh---cCcHHHHHHHHHHHHhcccccCCchhHHHHHHHH--
Q 048394          326 QALAKLNAIDILKQCFEEWESRCSSYDM-RLADVIIRAYLQ---KDMYEEAALIFNNAKKRANASARFFKSRESFMIY--  399 (485)
Q Consensus       326 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~---~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~--  399 (485)
                      ..+-...-++++.++|++-...-.-|++ ..|+..+.-+.+   ...++.|..+|++.++ |+  +|...-+--|+-+  
T Consensus       519 mfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~C--pp~~aKtiyLlYA~l  595 (835)
T KOG2047|consen  519 MFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GC--PPEHAKTIYLLYAKL  595 (835)
T ss_pred             HHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cC--CHHHHHHHHHHHHHH
Confidence            5555666677777777765554444443 456665555443   3467888888888888 65  5443322222211  


Q ss_pred             HHhcccHHHHHHHHHHHHHHhhh-----------------cCCC-------------ccHHHHHHHH---HHHhhcCChh
Q 048394          400 YLRSRQLDLALNEMEAALSEAKQ-----------------FHWR-------------PMQVTVDTFF---RFFEEEKDVD  446 (485)
Q Consensus       400 ~~~~g~~~~A~~~~~~~~~~~~~-----------------~~~~-------------~~~~~~~~l~---~~~~~~~~~~  446 (485)
                      --+-|-...|+.+++++...-..                 .|.+             |+...-...+   ..-.+.|..+
T Consensus       596 EEe~GLar~amsiyerat~~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~Lp~~~~r~mclrFAdlEtklGEid  675 (835)
T KOG2047|consen  596 EEEHGLARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIESLPDSKAREMCLRFADLETKLGEID  675 (835)
T ss_pred             HHHhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHhCChHHHHHHHHHHHHHhhhhhhHH
Confidence            12346666777777765443100                 0111             2221111111   2224557777


Q ss_pred             hHHHHHHHHhhcCCC--CHHHHHHHHHHHHHhCC
Q 048394          447 GAEEFCKVLKSLNCL--DFSAYSLLIKTYIAAGK  478 (485)
Q Consensus       447 ~A~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~  478 (485)
                      .|..++....+..+|  +...|...-..-.+.|+
T Consensus       676 RARaIya~~sq~~dPr~~~~fW~twk~FEvrHGn  709 (835)
T KOG2047|consen  676 RARAIYAHGSQICDPRVTTEFWDTWKEFEVRHGN  709 (835)
T ss_pred             HHHHHHHhhhhcCCCcCChHHHHHHHHHHHhcCC
Confidence            777777777765544  66777777777777777

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.39  E-value=4.6e-10  Score=104.09  Aligned_cols=239  Identities=18%  Similarity=0.106  Sum_probs=180.2

Q ss_pred             CCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhc-------CCCChH-HHHHHHHHHHhcCChhhHHHHHHHhhhc---
Q 048394          245 EDKCRWTTYSNLASIYVKAELFEKAELALKKLEEM-------KPRDRK-AYHFLISLYCNTSNLDAVNRVWGILKST---  313 (485)
Q Consensus       245 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-------~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~---  313 (485)
                      ..|.-..+...+...|...|+++.|+.+++...+.       ..+... ..+.+...|...+++++|..+|+++...   
T Consensus       194 ~~P~~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~  273 (508)
T KOG1840|consen  194 EDPERLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREE  273 (508)
T ss_pred             CCchHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHH
Confidence            44555667777999999999999999999998874       223333 3445788899999999999999988653   


Q ss_pred             --CCC---ChhhHHHHHHHHHhcCChhHHHHHHHHHHHc-----cC-CCC-HHhHHHHHHHHHhcCcHHHHHHHHHHHHh
Q 048394          314 --FPP---TNTSYLVLLQALAKLNAIDILKQCFEEWESR-----CS-SYD-MRLADVIIRAYLQKDMYEEAALIFNNAKK  381 (485)
Q Consensus       314 --~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  381 (485)
                        |..   -..+++.|..+|.+.|++++|...++...+-     +. .|. ...++.+...+...+++++|..++++..+
T Consensus       274 ~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~  353 (508)
T KOG1840|consen  274 VFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALK  353 (508)
T ss_pred             hcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence              222   3466788888999999999999888876432     11 122 23456677888999999999999987765


Q ss_pred             cc--cccCCc----hhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCcc---HHHHHHHHHHHhhcCChhhHHHHH
Q 048394          382 RA--NASARF----FKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPM---QVTVDTFFRFFEEEKDVDGAEEFC  452 (485)
Q Consensus       382 ~~--~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~  452 (485)
                      .-  .+ .++    ..+++.|...|...|++++|.+++++++....+.....+   ...++.+...|.+.+++.+|.++|
T Consensus       354 i~~~~~-g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~  432 (508)
T KOG1840|consen  354 IYLDAP-GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLF  432 (508)
T ss_pred             HHHhhc-cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHH
Confidence            31  10 222    356889999999999999999999999987644433222   446677888999999999999988


Q ss_pred             HHHhh----cCCC---CHHHHHHHHHHHHHhCCCcchhc
Q 048394          453 KVLKS----LNCL---DFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       453 ~~~~~----~~~~---~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      .+...    .+|.   -..+|..|+.+|.+.|++++|++
T Consensus       433 ~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~  471 (508)
T KOG1840|consen  433 EEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEE  471 (508)
T ss_pred             HHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHH
Confidence            77655    3343   45779999999999999999974

>PF13041 PPR_2: PPR repeat family

Probab=99.39  E-value=1.1e-12  Score=81.61  Aligned_cols=49  Identities=29%  Similarity=0.412  Sum_probs=32.1

Q ss_pred             CCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 048394          142 KNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYL  190 (485)
Q Consensus       142 ~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~  190 (485)
                      ||..+||++|++|++.|++++|.++|++|.+.|+.||..||+.++++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            5666666666666666666666666666666666666666666666655

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.38  E-value=3.5e-08  Score=90.78  Aligned_cols=389  Identities=10%  Similarity=0.112  Sum_probs=229.3

Q ss_pred             HHHHHHcCChHHHHHHHHHHHhC-CCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHH
Q 048394           83 VRSLRKFGRYRHALEVIEWMESR-KMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTE  161 (485)
Q Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  161 (485)
                      +..+.++|+......+|+..... .+......|...+......+-++.+..++++..+..|.  .-+-.|..+++.++++
T Consensus       109 lq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~--~~eeyie~L~~~d~~~  186 (835)
T KOG2047|consen  109 LQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPE--AREEYIEYLAKSDRLD  186 (835)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHH--HHHHHHHHHHhccchH
Confidence            33444555555555555554322 22222334444455555555555555555555543222  2344444445555555


Q ss_pred             HHHHHHHHHHhC----------------------------------------C--CCCCh--hhHHHHHHHHHhCCCccc
Q 048394          162 RALALFEKMDEL----------------------------------------K--FLGNT--VAFNNLSTMYLRLGQPEK  197 (485)
Q Consensus       162 ~A~~~~~~m~~~----------------------------------------~--~~p~~--~~~~~l~~~~~~~g~~~~  197 (485)
                      +|.+.+......                                        |  .-+|.  ..|.+|...|.+.|.+++
T Consensus       187 eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ek  266 (835)
T KOG2047|consen  187 EAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEK  266 (835)
T ss_pred             HHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHH
Confidence            554444443321                                        1  11222  246888899999999999


Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHHhcC----------------------CHhHHHHHHHHHHhcc----------C
Q 048394          198 VRPLVNQMKQRNISLDNLTYIVWMQSYSHLN----------------------DIDGVERVFYEMCNEC----------E  245 (485)
Q Consensus       198 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~----------------------~~~~a~~~~~~~~~~~----------~  245 (485)
                      |..+|++..+.  ..+..-|+.+.++|++..                      +++-....|+.+....          .
T Consensus       267 arDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQ  344 (835)
T KOG2047|consen  267 ARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQ  344 (835)
T ss_pred             HHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhc
Confidence            99999988775  234455555555554421                      1223333444443311          2


Q ss_pred             CCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHh-cCC-----CChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCC--
Q 048394          246 DKCRWTTYSNLASIYVKAELFEKAELALKKLEE-MKP-----RDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPT--  317 (485)
Q Consensus       246 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--  317 (485)
                      .+-++..|..-+..  ..|+..+-...+.++.+ ..|     .-...|..+...|-..|+++.|..+|++..+...+.  
T Consensus       345 n~~nV~eW~kRV~l--~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~  422 (835)
T KOG2047|consen  345 NPHNVEEWHKRVKL--YEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVE  422 (835)
T ss_pred             CCccHHHHHhhhhh--hcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchH
Confidence            33344444333333  35677777778888777 333     234678889999999999999999999988766652  


Q ss_pred             --hhhHHHHHHHHHhcCChhHHHHHHHHHHHccCC-----------------CCHHhHHHHHHHHHhcCcHHHHHHHHHH
Q 048394          318 --NTSYLVLLQALAKLNAIDILKQCFEEWESRCSS-----------------YDMRLADVIIRAYLQKDMYEEAALIFNN  378 (485)
Q Consensus       318 --~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----------------~~~~~~~~l~~~~~~~~~~~~A~~~~~~  378 (485)
                        ..+|..-...=.+..+++.|.++.+......-.                 -+...|...++..-..|-++....++++
T Consensus       423 dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdr  502 (835)
T KOG2047|consen  423 DLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDR  502 (835)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence              345555566666788899999988876432111                 1234566666666677889999999999


Q ss_pred             HHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhh---cCChhhHHHHHHHH
Q 048394          379 AKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEE---EKDVDGAEEFCKVL  455 (485)
Q Consensus       379 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~A~~~~~~~  455 (485)
                      +++..+. .|...  ......+-...-++++.+.|++-+..-   .++.-...|+..+..+.+   ..+.+.|..+|+++
T Consensus       503 iidLria-TPqii--~NyAmfLEeh~yfeesFk~YErgI~LF---k~p~v~diW~tYLtkfi~rygg~klEraRdLFEqa  576 (835)
T KOG2047|consen  503 IIDLRIA-TPQII--INYAMFLEEHKYFEESFKAYERGISLF---KWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQA  576 (835)
T ss_pred             HHHHhcC-CHHHH--HHHHHHHHhhHHHHHHHHHHHcCCccC---CCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            9987652 23221  122223345667888999998877762   122234578777755543   23578999999999


Q ss_pred             hhcCCCC--HHHHHHHHHHHHHhCCCcchh
Q 048394          456 KSLNCLD--FSAYSLLIKTYIAAGKLASDM  483 (485)
Q Consensus       456 ~~~~~~~--~~~~~~l~~~~~~~g~~~~A~  483 (485)
                      ++..|+.  ...|...+..-.+.|--..||
T Consensus       577 L~~Cpp~~aKtiyLlYA~lEEe~GLar~am  606 (835)
T KOG2047|consen  577 LDGCPPEHAKTIYLLYAKLEEEHGLARHAM  606 (835)
T ss_pred             HhcCCHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            9977762  234555555555555444443

>PF13041 PPR_2: PPR repeat family

Probab=99.36  E-value=1.5e-12  Score=81.05  Aligned_cols=50  Identities=28%  Similarity=0.472  Sum_probs=45.2

Q ss_pred             CChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHh
Q 048394          177 GNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSH  226 (485)
Q Consensus       177 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  226 (485)
                      ||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++++|++
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            78889999999999999999999999999999999999999999998864

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

Probab=99.36  E-value=2.2e-08  Score=93.97  Aligned_cols=383  Identities=12%  Similarity=-0.011  Sum_probs=261.4

Q ss_pred             HHhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhccc---CCCH
Q 048394           68 IMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEY---AKNR  144 (485)
Q Consensus        68 ~~~g~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~  144 (485)
                      ....+..++..|..+.-++...|+++.+.+.|++....-+ .....|..+...+...|.-..|..+++.....   ++|.
T Consensus       315 r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~-~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~  393 (799)
T KOG4162|consen  315 RLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSF-GEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDI  393 (799)
T ss_pred             HHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh-hhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcc
Confidence            3345667899999999999999999999999999866543 45677888888888999999999999887663   3344


Q ss_pred             hHHHHHHHHHH-hcCcHHHHHHHHHHHHhC--CCC--CChhhHHHHHHHHHhC-----------CCcccHHHHHHHHHHc
Q 048394          145 YTYGALLNCYC-KELMTERALALFEKMDEL--KFL--GNTVAFNNLSTMYLRL-----------GQPEKVRPLVNQMKQR  208 (485)
Q Consensus       145 ~~~~~li~~~~-~~~~~~~A~~~~~~m~~~--~~~--p~~~~~~~l~~~~~~~-----------g~~~~a~~~~~~~~~~  208 (485)
                      ..+-..-..|. +.+.+++++.+-.+....  +..  .....|..+.-+|...           ....++++.+++..+.
T Consensus       394 s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~  473 (799)
T KOG4162|consen  394 SVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQF  473 (799)
T ss_pred             hHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhc
Confidence            44444444444 357778877777776651  111  1233454444444332           1235788888888775


Q ss_pred             C-CCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCh---
Q 048394          209 N-ISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDR---  284 (485)
Q Consensus       209 ~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---  284 (485)
                      + -.|+...|  +.--|+..++++.|....++..+ -+...+...|..++-.+.-.+++.+|+.+.+......+.|.   
T Consensus       474 d~~dp~~if~--lalq~A~~R~l~sAl~~~~eaL~-l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~  550 (799)
T KOG4162|consen  474 DPTDPLVIFY--LALQYAEQRQLTSALDYAREALA-LNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLM  550 (799)
T ss_pred             CCCCchHHHH--HHHHHHHHHhHHHHHHHHHHHHH-hcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhc
Confidence            4 33444433  33346778889999999998888 44566777777788888888999999998888776333221   


Q ss_pred             -----------------HHHHHHHHHHH------h---cC--------------ChhhHHHHHHHh--------hhcC--
Q 048394          285 -----------------KAYHFLISLYC------N---TS--------------NLDAVNRVWGIL--------KSTF--  314 (485)
Q Consensus       285 -----------------~~~~~l~~~~~------~---~~--------------~~~~a~~~~~~~--------~~~~--  314 (485)
                                       .|...++..+-      .   .|              +..++.+...++        ...+  
T Consensus       551 ~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se  630 (799)
T KOG4162|consen  551 DGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSE  630 (799)
T ss_pred             hhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccc
Confidence                             11111111111      0   00              111111111110        0111  


Q ss_pred             ---C-----C-C-------hhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHH
Q 048394          315 ---P-----P-T-------NTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNN  378 (485)
Q Consensus       315 ---~-----~-~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  378 (485)
                         +     + .       ...|......+.+.+..++|...+.+..+..+. ....|......+...|.+++|.+.|..
T Consensus       631 ~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~~l-~~~~~~~~G~~~~~~~~~~EA~~af~~  709 (799)
T KOG4162|consen  631 LKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKIDPL-SASVYYLRGLLLEVKGQLEEAKEAFLV  709 (799)
T ss_pred             cccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcchh-hHHHHHHhhHHHHHHHhhHHHHHHHHH
Confidence               0     0 0       122345566677788888888888877766433 667777777888899999999999998


Q ss_pred             HHhcccccCCchhHHHHHHHHHHhcccHHHHHH--HHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHh
Q 048394          379 AKKRANASARFFKSRESFMIYYLRSRQLDLALN--EMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLK  456 (485)
Q Consensus       379 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~--~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  456 (485)
                      ....+   +.++.....+...+.+.|+..-|..  ++..+.+.     .+.++..|..+...+.+.|+.+.|...|..+.
T Consensus       710 Al~ld---P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~-----dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~  781 (799)
T KOG4162|consen  710 ALALD---PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRL-----DPLNHEAWYYLGEVFKKLGDSKQAAECFQAAL  781 (799)
T ss_pred             HHhcC---CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhh-----CCCCHHHHHHHHHHHHHccchHHHHHHHHHHH
Confidence            88774   3445667788889999998888887  99999998     45678999999999999999999999999999


Q ss_pred             hcCCCCH
Q 048394          457 SLNCLDF  463 (485)
Q Consensus       457 ~~~~~~~  463 (485)
                      ++.+.+|
T Consensus       782 qLe~S~P  788 (799)
T KOG4162|consen  782 QLEESNP  788 (799)
T ss_pred             hhccCCC
Confidence            9876544

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.35  E-value=4e-10  Score=100.28  Aligned_cols=207  Identities=13%  Similarity=-0.049  Sum_probs=155.4

Q ss_pred             ccHHHHHHHHHHHHhcCC----CChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHH
Q 048394          264 ELFEKAELALKKLEEMKP----RDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQ  339 (485)
Q Consensus       264 ~~~~~A~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  339 (485)
                      +..+.++..+.++....+    .....|..+...|...|+.++|...|++..+..|.+...|+.+...+...|++++|.+
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            456677777777765222    2256688889999999999999999999999998899999999999999999999999


Q ss_pred             HHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          340 CFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       340 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      .|+...+..+. +..+|..+..++...|++++|.+.|++..+.    .|+..........+...++.++|...+++....
T Consensus       120 ~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~----~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        120 AFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQD----DPNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh----CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            99999987655 5777888999999999999999999999987    444332222222334577899999999876654


Q ss_pred             hhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHh-------hcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          420 AKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLK-------SLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       420 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                           ..|+...+ .  ......|+...+ ..++.+.       +..|....+|..++.++.+.|++++|+.
T Consensus       195 -----~~~~~~~~-~--~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~  257 (296)
T PRK11189        195 -----LDKEQWGW-N--IVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAA  257 (296)
T ss_pred             -----CCccccHH-H--HHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Confidence                 23332222 2  222335665544 3444444       3345567899999999999999999974

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.34  E-value=1.3e-07  Score=86.29  Aligned_cols=376  Identities=9%  Similarity=0.028  Sum_probs=210.0

Q ss_pred             CCCcHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC-ChhhHHHHHHHHHhhCCHHHHHHH
Q 048394           56 TGGSVTGALNAYIMEGK-TVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHF-SYTDFAVYLDLTAKTNGIAAAEKY  133 (485)
Q Consensus        56 ~~~~~~~~~~~~~~~g~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~  133 (485)
                      ..+.+.+++......+. ..+...+..-..+..+.++.++|+..++-     ..+ +..+...-...+.+.|++++|..+
T Consensus        58 q~~ky~~ALk~ikk~~~~~~~~~~~fEKAYc~Yrlnk~Dealk~~~~-----~~~~~~~ll~L~AQvlYrl~~ydealdi  132 (652)
T KOG2376|consen   58 QLDKYEDALKLIKKNGALLVINSFFFEKAYCEYRLNKLDEALKTLKG-----LDRLDDKLLELRAQVLYRLERYDEALDI  132 (652)
T ss_pred             hhhHHHHHHHHHHhcchhhhcchhhHHHHHHHHHcccHHHHHHHHhc-----ccccchHHHHHHHHHHHHHhhHHHHHHH
Confidence            36778888844444332 22222223445555688999999999982     223 333666667788999999999999


Q ss_pred             HHhhcccCCCHhHHHHHHHHHH-hcCcHHHHHHHHHHHHhCCCCCChhhHHHH---HHHHHhCCCcccHHHHHHHHHHc-
Q 048394          134 FNGLSEYAKNRYTYGALLNCYC-KELMTERALALFEKMDELKFLGNTVAFNNL---STMYLRLGQPEKVRPLVNQMKQR-  208 (485)
Q Consensus       134 ~~~~~~~~~~~~~~~~li~~~~-~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l---~~~~~~~g~~~~a~~~~~~~~~~-  208 (485)
                      |+.+.+.  +...+...+.+-+ ..+--..+ ++.   ......| ..+|..+   .-.+...|++.+|+++++..... 
T Consensus       133 Y~~L~kn--~~dd~d~~~r~nl~a~~a~l~~-~~~---q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~  205 (652)
T KOG2376|consen  133 YQHLAKN--NSDDQDEERRANLLAVAAALQV-QLL---QSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRIC  205 (652)
T ss_pred             HHHHHhc--CCchHHHHHHHHHHHHHHhhhH-HHH---HhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            9998651  1111111111110 00000011 011   1212222 2233222   22345566777777766666221 


Q ss_pred             ------C------CCccHHH-HHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHH---------------
Q 048394          209 ------N------ISLDNLT-YIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIY---------------  260 (485)
Q Consensus       209 ------~------~~p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~---------------  260 (485)
                            +      +.-...+ -..+.-.+...|+.++|.+++...++  ..++|........+-+               
T Consensus       206 ~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~--~~~~D~~~~Av~~NNLva~~~d~~~~d~~~l  283 (652)
T KOG2376|consen  206 REKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIK--RNPADEPSLAVAVNNLVALSKDQNYFDGDLL  283 (652)
T ss_pred             HHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHH--hcCCCchHHHHHhcchhhhccccccCchHHH
Confidence                  0      0000011 11233345556777777776666665  3333332211111100               


Q ss_pred             ----------------------------------HhcccHHHHHHHHHHHHhcCCCC-hHHHHHHHHHHH--hcCChhhH
Q 048394          261 ----------------------------------VKAELFEKAELALKKLEEMKPRD-RKAYHFLISLYC--NTSNLDAV  303 (485)
Q Consensus       261 ----------------------------------~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~l~~~~~--~~~~~~~a  303 (485)
                                                        .-.+..+.+.++...   .++.. ...+..++..+.  +...+..+
T Consensus       284 ~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~r~~~a~---lp~~~p~~~~~~ll~~~t~~~~~~~~ka  360 (652)
T KOG2376|consen  284 KSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQVRELSAS---LPGMSPESLFPILLQEATKVREKKHKKA  360 (652)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHh---CCccCchHHHHHHHHHHHHHHHHHHhhh
Confidence                                              001112222222221   22211 223333333332  22356778


Q ss_pred             HHHHHHhhhcCCC-ChhhHHHHHHHHHhcCChhHHHHHHH--------HHHHccCCCCHHhHHHHHHHHHhcCcHHHHHH
Q 048394          304 NRVWGILKSTFPP-TNTSYLVLLQALAKLNAIDILKQCFE--------EWESRCSSYDMRLADVIIRAYLQKDMYEEAAL  374 (485)
Q Consensus       304 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~--------~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  374 (485)
                      ..++...-+..+. ...+...++......|+++.|.+++.        .+.+.+..|  .+...+...+.+.++-+.|..
T Consensus       361 ~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P--~~V~aiv~l~~~~~~~~~a~~  438 (652)
T KOG2376|consen  361 IELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLP--GTVGAIVALYYKIKDNDSASA  438 (652)
T ss_pred             HHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccCh--hHHHHHHHHHHhccCCccHHH
Confidence            8888888777777 56677788888899999999999999        555555544  445567777888888888888


Q ss_pred             HHHHHHhcccccCCchhHHHH----HHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHH
Q 048394          375 IFNNAKKRANASARFFKSRES----FMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEE  450 (485)
Q Consensus       375 ~~~~~~~~~~~~~p~~~~~~~----l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  450 (485)
                      ++.+....-....+.......    +...-.+.|+-++|..+++++.+.     .++|..+...++.+|.+. |.+.|+.
T Consensus       439 vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~-----n~~d~~~l~~lV~a~~~~-d~eka~~  512 (652)
T KOG2376|consen  439 VLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKF-----NPNDTDLLVQLVTAYARL-DPEKAES  512 (652)
T ss_pred             HHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHh-----CCchHHHHHHHHHHHHhc-CHHHHHH
Confidence            888776531100222233333    333335789999999999999997     678999999999999876 5788877


Q ss_pred             HHHHHh
Q 048394          451 FCKVLK  456 (485)
Q Consensus       451 ~~~~~~  456 (485)
                      +-+.+.
T Consensus       513 l~k~L~  518 (652)
T KOG2376|consen  513 LSKKLP  518 (652)
T ss_pred             HhhcCC
Confidence            765553

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

Probab=99.33  E-value=2.5e-08  Score=84.83  Aligned_cols=216  Identities=11%  Similarity=-0.001  Sum_probs=142.2

Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHH---HHHHHhhCCHHHHHHHHHhhcccCCCHhHHH-H
Q 048394           74 VRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVY---LDLTAKTNGIAAAEKYFNGLSEYAKNRYTYG-A  149 (485)
Q Consensus        74 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l---~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~  149 (485)
                      .+..-...+-+.+.-.|++.+|+.-|....+-    |+..|.++   ...|...|+-..|+.=|++..+.+||...-. -
T Consensus        36 advekhlElGk~lla~~Q~sDALt~yHaAve~----dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQ  111 (504)
T KOG0624|consen   36 ADVEKHLELGKELLARGQLSDALTHYHAAVEG----DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQ  111 (504)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcC----CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHH
Confidence            44555666777788888888888888776654    33334433   3456677888888888888877777754322 2


Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCC
Q 048394          150 LLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLND  229 (485)
Q Consensus       150 li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  229 (485)
                      -...+.+.|.++.|..=|+..+...  |+..+   ...++.+.-.       .+++.         .....+..+.-.|+
T Consensus       112 Rg~vllK~Gele~A~~DF~~vl~~~--~s~~~---~~eaqskl~~-------~~e~~---------~l~~ql~s~~~~GD  170 (504)
T KOG0624|consen  112 RGVVLLKQGELEQAEADFDQVLQHE--PSNGL---VLEAQSKLAL-------IQEHW---------VLVQQLKSASGSGD  170 (504)
T ss_pred             hchhhhhcccHHHHHHHHHHHHhcC--CCcch---hHHHHHHHHh-------HHHHH---------HHHHHHHHHhcCCc
Confidence            2345677888888888888887754  32211   1222222111       11111         11223334456778


Q ss_pred             HhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHH
Q 048394          230 IDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGI  309 (485)
Q Consensus       230 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  309 (485)
                      ...|+..+..+.+  -.+-+...|..-..+|...|++..|+.-++...+....+..++..+...+...|+.+.++...++
T Consensus       171 ~~~ai~~i~~llE--i~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRE  248 (504)
T KOG0624|consen  171 CQNAIEMITHLLE--IQPWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRE  248 (504)
T ss_pred             hhhHHHHHHHHHh--cCcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            8888888888877  55667777777788888888888888877777777777777777778888888888888877777


Q ss_pred             hhhcCCC
Q 048394          310 LKSTFPP  316 (485)
Q Consensus       310 ~~~~~~~  316 (485)
                      ..+.+|.
T Consensus       249 CLKldpd  255 (504)
T KOG0624|consen  249 CLKLDPD  255 (504)
T ss_pred             HHccCcc
Confidence            7776665

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.32  E-value=1.3e-08  Score=91.74  Aligned_cols=381  Identities=13%  Similarity=0.007  Sum_probs=223.8

Q ss_pred             HHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCC-HhHHHHHHHHHHhcCcHHH
Q 048394           84 RSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKN-RYTYGALLNCYCKELMTER  162 (485)
Q Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~  162 (485)
                      .+.+..|+++.|+..|.+..... +++...|+.-..+|++.|++++|++=-.+..+..|+ ...|.-...++.-.|++++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~~e   88 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDYEE   88 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccHHH
Confidence            34567788888888888887776 457778888888888888888888777777766666 4578888888888888888


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHhCC---CcccHHHHHHHHHHc---CCCccHHHHHHHHHHHHh----------
Q 048394          163 ALALFEKMDELKFLGNTVAFNNLSTMYLRLG---QPEKVRPLVNQMKQR---NISLDNLTYIVWMQSYSH----------  226 (485)
Q Consensus       163 A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~---~~~p~~~~~~~l~~~~~~----------  226 (485)
                      |+.-|.+-++.... +...++.+..++....   +.-.--.++..+...   ........|..++..+-+          
T Consensus        89 A~~ay~~GL~~d~~-n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l~  167 (539)
T KOG0548|consen   89 AILAYSEGLEKDPS-NKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYLN  167 (539)
T ss_pred             HHHHHHHHhhcCCc-hHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcccc
Confidence            88888888776533 4555666665551110   000000001110000   000001112222211111          


Q ss_pred             cCCHhHHHHHHHHH-----------HhccCCCC----------------------cHHHHHHHHHHHHhcccHHHHHHHH
Q 048394          227 LNDIDGVERVFYEM-----------CNECEDKC----------------------RWTTYSNLASIYVKAELFEKAELAL  273 (485)
Q Consensus       227 ~~~~~~a~~~~~~~-----------~~~~~~~~----------------------~~~~~~~l~~~~~~~~~~~~A~~~~  273 (485)
                      ...+..+.-.+...           .......|                      -..-...+++...+..+++.|.+.+
T Consensus       168 d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q~y  247 (539)
T KOG0548|consen  168 DPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQHY  247 (539)
T ss_pred             cHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHH
Confidence            00011111111000           00000111                      1112455777777888888888888


Q ss_pred             HHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHH-------HHHHHHhcCChhHHHHHHHHHHH
Q 048394          274 KKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLV-------LLQALAKLNAIDILKQCFEEWES  346 (485)
Q Consensus       274 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-------l~~~~~~~~~~~~a~~~~~~~~~  346 (485)
                      ....... .+..-++....+|...|.+..+...-....+.|.....-|+.       +..++.+.++++.+...|++...
T Consensus       248 ~~a~el~-~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLt  326 (539)
T KOG0548|consen  248 AKALELA-TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGNAYTKREDYEGAIKYYQKALT  326 (539)
T ss_pred             HHHHhHh-hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhh
Confidence            8888766 566677777788888888887777776666655553333333       33455566778888888887665


Q ss_pred             ccCCCCHHhH-------------------------HHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHH
Q 048394          347 RCSSYDMRLA-------------------------DVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYL  401 (485)
Q Consensus       347 ~~~~~~~~~~-------------------------~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~  401 (485)
                      ....|+...-                         ..-...+.+.|++.+|...|.+++.++   +-|...|..-.-+|.
T Consensus       327 e~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~---P~Da~lYsNRAac~~  403 (539)
T KOG0548|consen  327 EHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD---PEDARLYSNRAACYL  403 (539)
T ss_pred             hhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC---CchhHHHHHHHHHHH
Confidence            5444332211                         111334456677777777777777664   445566666666777


Q ss_pred             hcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHH
Q 048394          402 RSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIA  475 (485)
Q Consensus       402 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  475 (485)
                      +.|.+..|+.-.+..++.     .++....|..=..++.-..+++.|.+.|++.++.+|.+......+.+++..
T Consensus       404 kL~~~~~aL~Da~~~ieL-----~p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp~~~e~~~~~~rc~~a  472 (539)
T KOG0548|consen  404 KLGEYPEALKDAKKCIEL-----DPNFIKAYLRKGAALRAMKEYDKALEAYQEALELDPSNAEAIDGYRRCVEA  472 (539)
T ss_pred             HHhhHHHHHHHHHHHHhc-----CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHH
Confidence            777777777776666665     233334444444555556677777777777777777766666666665553

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

Probab=99.31  E-value=2.5e-08  Score=92.36  Aligned_cols=310  Identities=12%  Similarity=-0.061  Sum_probs=158.7

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHhCCCC-CCh-hhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHH---H
Q 048394          146 TYGALLNCYCKELMTERALALFEKMDELKFL-GNT-VAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIV---W  220 (485)
Q Consensus       146 ~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~-p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~---l  220 (485)
                      .|..+...+...|+.+.+.+.+.+....... ++. .........+...|++++|.+++++..+.. +.+...+..   .
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~   86 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLGA   86 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHH
Confidence            4444445555555565555555444332211 111 111122233455666666666666666542 222223221   1


Q ss_pred             HHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCCh
Q 048394          221 MQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNL  300 (485)
Q Consensus       221 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  300 (485)
                      .......+..+.+.+.++...  ...+........+...+...|++++|...+++..+..|.+...+..+..++...|++
T Consensus        87 ~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~  164 (355)
T cd05804          87 FGLGDFSGMRDHVARVLPLWA--PENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRF  164 (355)
T ss_pred             HHhcccccCchhHHHHHhccC--cCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCH
Confidence            111112344444444444411  233334445455666777777777777777777777776777777777777777777


Q ss_pred             hhHHHHHHHhhhcCCC----ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCC-CCHHhH-H--HHHHHHHhcCcHHHH
Q 048394          301 DAVNRVWGILKSTFPP----TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSS-YDMRLA-D--VIIRAYLQKDMYEEA  372 (485)
Q Consensus       301 ~~a~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~-~--~l~~~~~~~~~~~~A  372 (485)
                      ++|...+++.....+.    ....|..+...+...|+.++|..++++....... +..... +  .++.-+...|....+
T Consensus       165 ~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~  244 (355)
T cd05804         165 KEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVG  244 (355)
T ss_pred             HHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChH
Confidence            7777777776665442    1233456677777778888888888776543221 111111 1  222223333332222


Q ss_pred             HHHHHHHHhcccccCCc-hhHH--HHHHHHHHhcccHHHHHHHHHHHHHHhhh---cCCCc-cHHHHHHHHHHHhhcCCh
Q 048394          373 ALIFNNAKKRANASARF-FKSR--ESFMIYYLRSRQLDLALNEMEAALSEAKQ---FHWRP-MQVTVDTFFRFFEEEKDV  445 (485)
Q Consensus       373 ~~~~~~~~~~~~~~~p~-~~~~--~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~~-~~~~~~~l~~~~~~~~~~  445 (485)
                      .+. +.+........|. ...+  .....++...|+.++|...++.+......   .+... ..........++...|++
T Consensus       245 ~~w-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~  323 (355)
T cd05804         245 DRW-EDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNY  323 (355)
T ss_pred             HHH-HHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCH
Confidence            222 1111110000011 1112  24455667888888899888888775422   00100 111112222455688899


Q ss_pred             hhHHHHHHHHhhcC
Q 048394          446 DGAEEFCKVLKSLN  459 (485)
Q Consensus       446 ~~A~~~~~~~~~~~  459 (485)
                      ++|.+.+..+....
T Consensus       324 ~~A~~~L~~al~~a  337 (355)
T cd05804         324 ATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99998888877643

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.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.30  E-value=2.5e-08  Score=83.13  Aligned_cols=23  Identities=9%  Similarity=0.081  Sum_probs=15.8

Q ss_pred             HHHHhhcCChhhHHHHHHHHhhc
Q 048394          436 FRFFEEEKDVDGAEEFCKVLKSL  458 (485)
Q Consensus       436 ~~~~~~~~~~~~A~~~~~~~~~~  458 (485)
                      .+.+++..|+..++++|+.-.+-
T Consensus       421 AkiyW~~~Dy~~vEk~Fr~Svef  443 (459)
T KOG4340|consen  421 AKIYWNLEDYPMVEKIFRKSVEF  443 (459)
T ss_pred             HHhhccccccHHHHHHHHHHHhh
Confidence            35566777788888887766653

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.28  E-value=3.3e-09  Score=95.49  Aligned_cols=351  Identities=11%  Similarity=-0.009  Sum_probs=240.6

Q ss_pred             HHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHhCCCcc
Q 048394          119 DLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGN-TVAFNNLSTMYLRLGQPE  196 (485)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g~~~  196 (485)
                      .+....|+++.|...|.+... .++|-..|..-..+|++.|++++|++=-.+-.+..  |+ ...|+-...++.-.|+++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~--p~w~kgy~r~Gaa~~~lg~~~   87 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRRLN--PDWAKGYSRKGAALFGLGDYE   87 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHhcC--CchhhHHHHhHHHHHhcccHH
Confidence            345678999999999999888 66788889999999999999999998777766654  44 567899999999999999


Q ss_pred             cHHHHHHHHHHcCCCccHHHHHHHHHHHHhc---CC---------------------HhH-HHHHHHHHHhccCCCCcHH
Q 048394          197 KVRPLVNQMKQRNISLDNLTYIVWMQSYSHL---ND---------------------IDG-VERVFYEMCNECEDKCRWT  251 (485)
Q Consensus       197 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---~~---------------------~~~-a~~~~~~~~~~~~~~~~~~  251 (485)
                      +|+.-|.+-++.. +.|...++.+..++...   ++                     .+. -..+++.+.+   .+.+..
T Consensus        88 eA~~ay~~GL~~d-~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~---~p~~l~  163 (539)
T KOG0548|consen   88 EAILAYSEGLEKD-PSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQK---NPTSLK  163 (539)
T ss_pred             HHHHHHHHHhhcC-CchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhc---CcHhhh
Confidence            9999999988863 44566677777666211   00                     000 1111111111   111111


Q ss_pred             HH---HHHHHHHHh-----------cc--------cH----HHHHHHHHHHHh--cCCCChHHHHHHHHHHHhcCChhhH
Q 048394          252 TY---SNLASIYVK-----------AE--------LF----EKAELALKKLEE--MKPRDRKAYHFLISLYCNTSNLDAV  303 (485)
Q Consensus       252 ~~---~~l~~~~~~-----------~~--------~~----~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a  303 (485)
                      .|   ..++.+...           .|        .+    ...........+  ....-..-...+.++..+..+++.|
T Consensus       164 ~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a  243 (539)
T KOG0548|consen  164 LYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETA  243 (539)
T ss_pred             cccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHH
Confidence            11   001111110           00        00    011111111100  0011234456778888888999999


Q ss_pred             HHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHH-------HHHHHHHhcCcHHHHHHHH
Q 048394          304 NRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLAD-------VIIRAYLQKDMYEEAALIF  376 (485)
Q Consensus       304 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-------~l~~~~~~~~~~~~A~~~~  376 (485)
                      .+.+....... .+..-++....+|...|.+..+........+.|-. ...-|+       .+..+|.+.++++.|...|
T Consensus       244 ~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  244 IQHYAKALELA-TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIKYY  321 (539)
T ss_pred             HHHHHHHHhHh-hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHH
Confidence            99999888877 66666788888899999888888777777666533 222222       2444666778899999999


Q ss_pred             HHHHhcccccCCchhHHH-------------------------HHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHH
Q 048394          377 NNAKKRANASARFFKSRE-------------------------SFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVT  431 (485)
Q Consensus       377 ~~~~~~~~~~~p~~~~~~-------------------------~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  431 (485)
                      ++......  .|+..+=.                         .-...+++.|++..|+..|.+++..     .+.|...
T Consensus       322 ~kaLte~R--t~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr-----~P~Da~l  394 (539)
T KOG0548|consen  322 QKALTEHR--TPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKR-----DPEDARL  394 (539)
T ss_pred             HHHhhhhc--CHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhc-----CCchhHH
Confidence            98876654  55443310                         1133467889999999999999988     5667888


Q ss_pred             HHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          432 VDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       432 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      |..-.-+|.+.|.+..|.+-.+..++++|+....|..=+.++....+|++|+.
T Consensus       395 YsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAle  447 (539)
T KOG0548|consen  395 YSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALE  447 (539)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988888888888888764

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

Probab=99.28  E-value=2.6e-08  Score=92.19  Aligned_cols=301  Identities=11%  Similarity=-0.022  Sum_probs=194.7

Q ss_pred             hhhHHHHHHHHHhCCCcccHHHHHHHHHHcCC-CccHHH-HHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHH
Q 048394          179 TVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNI-SLDNLT-YIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNL  256 (485)
Q Consensus       179 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  256 (485)
                      ...|..+...+...|+.+.+.+.+....+... .++... .......+...|++++|.+.+++..+  ..|.+...+.. 
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~--~~P~~~~a~~~-   82 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLD--DYPRDLLALKL-   82 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCCCcHHHHHH-
Confidence            34566677777778888888777777655321 222221 22223456778999999999999988  45556555442 


Q ss_pred             HHHHHh----cccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcC
Q 048394          257 ASIYVK----AELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLN  332 (485)
Q Consensus       257 ~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  332 (485)
                      ...+..    .+..+.+.+.+.......|........+...+...|++++|...+++..+..+.+...+..+...+...|
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g  162 (355)
T cd05804          83 HLGAFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQG  162 (355)
T ss_pred             hHHHHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcC
Confidence            223322    3455555555554222444455666677788999999999999999999998888888999999999999


Q ss_pred             ChhHHHHHHHHHHHccCC-CC--HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHH-H--HHHHHHHhcccH
Q 048394          333 AIDILKQCFEEWESRCSS-YD--MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSR-E--SFMIYYLRSRQL  406 (485)
Q Consensus       333 ~~~~a~~~~~~~~~~~~~-~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~-~--~l~~~~~~~g~~  406 (485)
                      ++++|...+++..+.... |+  ...|..+...+...|++++|..++++....... .+..... +  .++.-+...|..
T Consensus       163 ~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~g~~  241 (355)
T cd05804         163 RFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAE-SDPALDLLDAASLLWRLELAGHV  241 (355)
T ss_pred             CHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccC-CChHHHHhhHHHHHHHHHhcCCC
Confidence            999999999998876432 22  234557888899999999999999998644210 1111111 1  222223344443


Q ss_pred             HHHHHHHHHHHHHhhhc-CCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCC---------CHHHHHHHHHHHHHh
Q 048394          407 DLALNEMEAALSEAKQF-HWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL---------DFSAYSLLIKTYIAA  476 (485)
Q Consensus       407 ~~A~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~---------~~~~~~~l~~~~~~~  476 (485)
                      +.+.++ +.+....... ..............++...|+.+.|...++.+......         ........+.++.+.
T Consensus       242 ~~~~~w-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~  320 (355)
T cd05804         242 DVGDRW-EDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAE  320 (355)
T ss_pred             ChHHHH-HHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHc
Confidence            333332 2222221000 01111222235667788999999999999888663321         355566777788899


Q ss_pred             CCCcchhc
Q 048394          477 GKLASDMR  484 (485)
Q Consensus       477 g~~~~A~~  484 (485)
                      |++++|++
T Consensus       321 g~~~~A~~  328 (355)
T cd05804         321 GNYATALE  328 (355)
T ss_pred             CCHHHHHH
Confidence            99998864

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.

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

Probab=99.23  E-value=5.4e-10  Score=101.27  Aligned_cols=227  Identities=12%  Similarity=0.071  Sum_probs=168.9

Q ss_pred             CCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHH
Q 048394          246 DKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLL  325 (485)
Q Consensus       246 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  325 (485)
                      ..|++..   ...-+.+.|++.+|.-.|+...+..|.+..+|..|.......++-..|+..+.+..+..|.+..+...|.
T Consensus       284 ~~pdPf~---eG~~lm~nG~L~~A~LafEAAVkqdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLA  360 (579)
T KOG1125|consen  284 DHPDPFK---EGCNLMKNGDLSEAALAFEAAVKQDPQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALA  360 (579)
T ss_pred             CCCChHH---HHHHHHhcCCchHHHHHHHHHHhhChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHH
Confidence            3455544   5566677888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             HHHHhcCChhHHHHHHHHHHHccCCC--------CHHhHHHHHHHHHhcCcHHHHHHHHHHHHh-cccccCCchhHHHHH
Q 048394          326 QALAKLNAIDILKQCFEEWESRCSSY--------DMRLADVIIRAYLQKDMYEEAALIFNNAKK-RANASARFFKSRESF  396 (485)
Q Consensus       326 ~~~~~~~~~~~a~~~~~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~~~~p~~~~~~~l  396 (485)
                      -.|...|.-..|...+.......++-        +...-+.  ..+.....+.+..++|-++.. .+.  .+|+.....|
T Consensus       361 VSytNeg~q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~--~~DpdvQ~~L  436 (579)
T KOG1125|consen  361 VSYTNEGLQNQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPT--KIDPDVQSGL  436 (579)
T ss_pred             HHHhhhhhHHHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCC--CCChhHHhhh
Confidence            88888888888888888876653220        0000000  112222334455555555543 333  4677777777


Q ss_pred             HHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHh
Q 048394          397 MIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAA  476 (485)
Q Consensus       397 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  476 (485)
                      .-.|--.|++++|+++|+.++..     .+-|...|+.|.-.+....+.++|+..|++++++.|.-+.++..|+-.|...
T Consensus       437 GVLy~ls~efdraiDcf~~AL~v-----~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNl  511 (579)
T KOG1125|consen  437 GVLYNLSGEFDRAVDCFEAALQV-----KPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNL  511 (579)
T ss_pred             HHHHhcchHHHHHHHHHHHHHhc-----CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhh
Confidence            77788888889999999888886     4556778888888888888888899999999888888888888888888888


Q ss_pred             CCCcchhc
Q 048394          477 GKLASDMR  484 (485)
Q Consensus       477 g~~~~A~~  484 (485)
                      |.|++|++
T Consensus       512 G~ykEA~~  519 (579)
T KOG1125|consen  512 GAYKEAVK  519 (579)
T ss_pred             hhHHHHHH
Confidence            88888875

>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=99.22  E-value=5.2e-10  Score=97.92  Aligned_cols=81  Identities=16%  Similarity=0.081  Sum_probs=31.7

Q ss_pred             hhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcH-HHHHHHHHH
Q 048394          300 LDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMY-EEAALIFNN  378 (485)
Q Consensus       300 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~A~~~~~~  378 (485)
                      +.+|..+|+++.+..+++..+.+.+..++...|++++|.+++.+..+.... ++.+...++.+....|+. +.+.+++.+
T Consensus       183 ~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~-~~d~LaNliv~~~~~gk~~~~~~~~l~q  261 (290)
T PF04733_consen  183 YQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPN-DPDTLANLIVCSLHLGKPTEAAERYLSQ  261 (290)
T ss_dssp             CCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CC-HHHHHHHHHHHHHHTT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccC-CHHHHHHHHHHHHHhCCChhHHHHHHHH
Confidence            444444444444433334444444444444444444444444444333322 333333333333333333 334444444


Q ss_pred             HHh
Q 048394          379 AKK  381 (485)
Q Consensus       379 ~~~  381 (485)
                      +..
T Consensus       262 L~~  264 (290)
T PF04733_consen  262 LKQ  264 (290)
T ss_dssp             CHH
T ss_pred             HHH
Confidence            443

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.

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

Probab=99.21  E-value=7e-08  Score=82.15  Aligned_cols=324  Identities=12%  Similarity=0.002  Sum_probs=213.3

Q ss_pred             HHHHHHHhhCCHHHHHHHHHhhcccCCCH-hHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhH-HHHHHHHHhCC
Q 048394          116 VYLDLTAKTNGIAAAEKYFNGLSEYAKNR-YTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAF-NNLSTMYLRLG  193 (485)
Q Consensus       116 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~-~~l~~~~~~~g  193 (485)
                      -+...+...|++.+|+.-|....+..|+. .++-.-...|...|+...|+.=|.+.++.  +||-..- ..-...+.+.|
T Consensus        43 ElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK~G  120 (504)
T KOG0624|consen   43 ELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLKQG  120 (504)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhhcc
Confidence            34445555566666666666665532322 12223334555566666666666666553  3443221 11223445566


Q ss_pred             CcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHH
Q 048394          194 QPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELAL  273 (485)
Q Consensus       194 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  273 (485)
                      .+++|..-|+..++..  |+..+   ...++.+.-..++-+.                 ....+..+.-.||...|+...
T Consensus       121 ele~A~~DF~~vl~~~--~s~~~---~~eaqskl~~~~e~~~-----------------l~~ql~s~~~~GD~~~ai~~i  178 (504)
T KOG0624|consen  121 ELEQAEADFDQVLQHE--PSNGL---VLEAQSKLALIQEHWV-----------------LVQQLKSASGSGDCQNAIEMI  178 (504)
T ss_pred             cHHHHHHHHHHHHhcC--CCcch---hHHHHHHHHhHHHHHH-----------------HHHHHHHHhcCCchhhHHHHH
Confidence            6666666666665542  22211   1111111111111111                 122344456689999999999


Q ss_pred             HHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCH
Q 048394          274 KKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDM  353 (485)
Q Consensus       274 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  353 (485)
                      ..+.+..|-+...+..-..+|...|++..|+.=++...+....+..++..+-..+...|+.+.++...++..+.+  ||.
T Consensus       179 ~~llEi~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKld--pdH  256 (504)
T KOG0624|consen  179 THLLEIQPWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLKLD--PDH  256 (504)
T ss_pred             HHHHhcCcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccC--cch
Confidence            999999999999999999999999999999998888887777788888888888999999999999999988864  343


Q ss_pred             H----hHHHH---HH------HHHhcCcHHHHHHHHHHHHhcccccCCchhH---HHHHHHHHHhcccHHHHHHHHHHHH
Q 048394          354 R----LADVI---IR------AYLQKDMYEEAALIFNNAKKRANASARFFKS---RESFMIYYLRSRQLDLALNEMEAAL  417 (485)
Q Consensus       354 ~----~~~~l---~~------~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~  417 (485)
                      .    .|..|   ..      .....++|.++....+...+...  .-....   +..+-.++...|++.+|++...+.+
T Consensus       257 K~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep--~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL  334 (504)
T KOG0624|consen  257 KLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEP--EETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVL  334 (504)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCC--cccceeeeeeheeeecccccCCHHHHHHHHHHHH
Confidence            2    22221   11      23456777888888887777632  212233   3444555677899999999999999


Q ss_pred             HHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHH
Q 048394          418 SEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKT  472 (485)
Q Consensus       418 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  472 (485)
                      +.     .+.|..++.--..+|.-...++.|+.-|+.+.+.++.|..+-..+-.+
T Consensus       335 ~~-----d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~~reGle~A  384 (504)
T KOG0624|consen  335 DI-----DPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTRAREGLERA  384 (504)
T ss_pred             hc-----CchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHHHHHHHHHH
Confidence            86     334588988888999999999999999999999999888776665444

>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=99.20  E-value=8.7e-10  Score=96.54  Aligned_cols=256  Identities=15%  Similarity=0.079  Sum_probs=158.3

Q ss_pred             HHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccH
Q 048394          187 TMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELF  266 (485)
Q Consensus       187 ~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  266 (485)
                      +-+.-.|++..++.-.+ .....-..+......+.+++...|+++.   ++.++..  ..+|.......+...+...++-
T Consensus         9 rn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~---vl~ei~~--~~~~~l~av~~la~y~~~~~~~   82 (290)
T PF04733_consen    9 RNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDS---VLSEIKK--SSSPELQAVRLLAEYLSSPSDK   82 (290)
T ss_dssp             HHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHH---HHHHS-T--TSSCCCHHHHHHHHHHCTSTTH
T ss_pred             HHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhH---HHHHhcc--CCChhHHHHHHHHHHHhCccch
Confidence            44556788888876555 3322222234445566778888888764   3455544  3356665555555444333444


Q ss_pred             HHHHHHHHHHHhcC-C-CChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 048394          267 EKAELALKKLEEMK-P-RDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEW  344 (485)
Q Consensus       267 ~~A~~~~~~~~~~~-~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  344 (485)
                      +.+..-++...... . .+..........+...|++++|++++...     .+.......+..+.+.++++.|.+.++.|
T Consensus        83 e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~-----~~lE~~al~Vqi~L~~~R~dlA~k~l~~~  157 (290)
T PF04733_consen   83 ESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG-----GSLELLALAVQILLKMNRPDLAEKELKNM  157 (290)
T ss_dssp             HCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT-----TCHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc-----CcccHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            55554444433211 1 23333334445566778888888877542     35666677888888899999999999888


Q ss_pred             HHccCCCCHHhHHHHHHHHH----hcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHh
Q 048394          345 ESRCSSYDMRLADVIIRAYL----QKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEA  420 (485)
Q Consensus       345 ~~~~~~~~~~~~~~l~~~~~----~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  420 (485)
                      .+..  .|.. ...+..++.    ..+.+.+|..+|+++.+. .  .++..+.+.+..++...|++++|.+++++.... 
T Consensus       158 ~~~~--eD~~-l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~--~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~-  230 (290)
T PF04733_consen  158 QQID--EDSI-LTQLAEAWVNLATGGEKYQDAFYIFEELSDK-F--GSTPKLLNGLAVCHLQLGHYEEAEELLEEALEK-  230 (290)
T ss_dssp             HCCS--CCHH-HHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S----SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-
T ss_pred             HhcC--CcHH-HHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-c--CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh-
Confidence            7653  2433 223444333    334688899999987665 3  567777888888888899999999988888765 


Q ss_pred             hhcCCCccHHHHHHHHHHHhhcCCh-hhHHHHHHHHhhcCCCCHH
Q 048394          421 KQFHWRPMQVTVDTFFRFFEEEKDV-DGAEEFCKVLKSLNCLDFS  464 (485)
Q Consensus       421 ~~~~~~~~~~~~~~l~~~~~~~~~~-~~A~~~~~~~~~~~~~~~~  464 (485)
                          .+-++.++..++-+....|+. +.+.+.+.++....|..+.
T Consensus       231 ----~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~p~h~~  271 (290)
T PF04733_consen  231 ----DPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQSNPNHPL  271 (290)
T ss_dssp             -----CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHTTTSHH
T ss_pred             ----ccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHhCCCChH
Confidence                345677777787777777777 6677888888887776554

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.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.17  E-value=1.4e-06  Score=91.39  Aligned_cols=340  Identities=10%  Similarity=-0.036  Sum_probs=219.4

Q ss_pred             HHHhhCCHHHHHHHHHhhcc--cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCC------CCCh--hhHHHHHHHH
Q 048394          120 LTAKTNGIAAAEKYFNGLSE--YAKNRYTYGALLNCYCKELMTERALALFEKMDELKF------LGNT--VAFNNLSTMY  189 (485)
Q Consensus       120 ~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~------~p~~--~~~~~l~~~~  189 (485)
                      .....|+++.+..+++.+..  ...+..........+...|++++|..++......--      .+..  .....+...+
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            34456788888888877643  112222333445555678999999999988754311      1111  1122233456


Q ss_pred             HhCCCcccHHHHHHHHHHcCCCcc----HHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCC--CC--cHHHHHHHHHHHH
Q 048394          190 LRLGQPEKVRPLVNQMKQRNISLD----NLTYIVWMQSYSHLNDIDGVERVFYEMCNECED--KC--RWTTYSNLASIYV  261 (485)
Q Consensus       190 ~~~g~~~~a~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~--~~~~~~~l~~~~~  261 (485)
                      ...|++++|...+++....-...+    ....+.+...+...|++++|...+++.......  .+  ...++..+...+.
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            689999999999999876311111    123455566778899999999999887652111  11  1234556777888


Q ss_pred             hcccHHHHHHHHHHHHhc----CCC----ChHHHHHHHHHHHhcCChhhHHHHHHHhhhc----CCC-ChhhHHHHHHHH
Q 048394          262 KAELFEKAELALKKLEEM----KPR----DRKAYHFLISLYCNTSNLDAVNRVWGILKST----FPP-TNTSYLVLLQAL  328 (485)
Q Consensus       262 ~~~~~~~A~~~~~~~~~~----~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~l~~~~  328 (485)
                      ..|+++.|...+++....    ..+    ....+..+...+...|++++|...+.+....    +.. ....+..+...+
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            999999999998887761    111    1234556667778889999999998877553    222 234455567778


Q ss_pred             HhcCChhHHHHHHHHHHHccCCCC-HHhH-----HHHHHHHHhcCcHHHHHHHHHHHHhcccccCCch---hHHHHHHHH
Q 048394          329 AKLNAIDILKQCFEEWESRCSSYD-MRLA-----DVIIRAYLQKDMYEEAALIFNNAKKRANASARFF---KSRESFMIY  399 (485)
Q Consensus       329 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~-----~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~---~~~~~l~~~  399 (485)
                      ...|+.+.|.+.+........... ...+     ...+..+...|+.+.|...+........  ....   ..+..+..+
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~--~~~~~~~~~~~~~a~~  700 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEF--ANNHFLQGQWRNIARA  700 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCC--ccchhHHHHHHHHHHH
Confidence            889999999999988755311111 1111     1122444568899999999877554221  1111   113456667


Q ss_pred             HHhcccHHHHHHHHHHHHHHhhhcCCCcc-HHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCC
Q 048394          400 YLRSRQLDLALNEMEAALSEAKQFHWRPM-QVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL  461 (485)
Q Consensus       400 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  461 (485)
                      +...|++++|...+++........+...+ ..+...+..++.+.|+.++|...+.++.+...+
T Consensus       701 ~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la~~  763 (903)
T PRK04841        701 QILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLANR  763 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCc
Confidence            88899999999999999876533333332 235566668889999999999999999987644

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

Probab=99.14  E-value=9.7e-09  Score=93.33  Aligned_cols=222  Identities=14%  Similarity=0.100  Sum_probs=132.8

Q ss_pred             HHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHH
Q 048394          121 TAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVR  199 (485)
Q Consensus       121 ~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~  199 (485)
                      +.+.|++.+|.-.|+...+ .+-+...|..|.......++-..|+..+++..+.+.. |....-.|.-.|...|.-..|+
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~~Al  373 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDPQHAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQNQAL  373 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHHHHH
Confidence            3456667777666666655 4445566777766666667777777777777665544 5555666666666666666666


Q ss_pred             HHHHHHHHcCCC--------ccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHH
Q 048394          200 PLVNQMKQRNIS--------LDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAEL  271 (485)
Q Consensus       200 ~~~~~~~~~~~~--------p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  271 (485)
                      ..++..+....+        ++..+-..  ..+.....+....++|-++....+..+|+.++..|.-.|--.|++++|.+
T Consensus       374 ~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiD  451 (579)
T KOG1125|consen  374 KMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVD  451 (579)
T ss_pred             HHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHH
Confidence            666665443210        00000000  11112222334444554444434444666666667777777777777777


Q ss_pred             HHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 048394          272 ALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWE  345 (485)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  345 (485)
                      .|+.+....|.|...||.|...++...+.++|+..|.+..+..|.-..+...|.-+|...|.+++|.+.|-..+
T Consensus       452 cf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  452 CFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHH
Confidence            77777776666777777777777777777777777777776666655555556666677777777766665543

>PLN02789 farnesyltranstransferase

Probab=99.11  E-value=2.6e-07  Score=82.17  Aligned_cols=230  Identities=8%  Similarity=-0.063  Sum_probs=105.0

Q ss_pred             CCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcc-cHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCCh--hhHH
Q 048394          228 NDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAE-LFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNL--DAVN  304 (485)
Q Consensus       228 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~a~  304 (485)
                      ++.++|+.+...+++  ..+-+..+|+....++...| ++++++..++++.+..|.+..+|+.....+.+.|+.  +++.
T Consensus        51 e~serAL~lt~~aI~--lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el  128 (320)
T PLN02789         51 ERSPRALDLTADVIR--LNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKEL  128 (320)
T ss_pred             CCCHHHHHHHHHHHH--HCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHH
Confidence            344444444444444  33333334433333343444 344555555555544444444444443333333332  3444


Q ss_pred             HHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhc---Cc----HHHHHHHHH
Q 048394          305 RVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQK---DM----YEEAALIFN  377 (485)
Q Consensus       305 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~----~~~A~~~~~  377 (485)
                      .+++++.+..+.+..+|.....++...|+++++++.++++.+.++. |...|+....++.+.   |.    .+++..+..
T Consensus       129 ~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~  207 (320)
T PLN02789        129 EFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSELKYTI  207 (320)
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHHHHHHH
Confidence            4454555544445555555555555555555555555555554443 344444333333222   11    123444444


Q ss_pred             HHHhcccccCCchhHHHHHHHHHHhc----ccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcC----------
Q 048394          378 NAKKRANASARFFKSRESFMIYYLRS----RQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEK----------  443 (485)
Q Consensus       378 ~~~~~~~~~~p~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------  443 (485)
                      +++...   +-|...|+.+...+...    +...+|.+++.+..+.     .+.+...+..|+..|....          
T Consensus       208 ~aI~~~---P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~-----~~~s~~al~~l~d~~~~~~~~~~~~~~~~  279 (320)
T PLN02789        208 DAILAN---PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSK-----DSNHVFALSDLLDLLCEGLQPTAEFRDTV  279 (320)
T ss_pred             HHHHhC---CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcc-----cCCcHHHHHHHHHHHHhhhccchhhhhhh
Confidence            444442   33344454444444431    2334455555554443     2234444555555554321          


Q ss_pred             --------ChhhHHHHHHHHhhcCCCCHHHHHH
Q 048394          444 --------DVDGAEEFCKVLKSLNCLDFSAYSL  468 (485)
Q Consensus       444 --------~~~~A~~~~~~~~~~~~~~~~~~~~  468 (485)
                              ..+.|.++++.+.+.+|.-..-|..
T Consensus       280 ~~~~~~~~~~~~a~~~~~~l~~~d~ir~~yw~~  312 (320)
T PLN02789        280 DTLAEELSDSTLAQAVCSELEVADPMRRNYWAW  312 (320)
T ss_pred             hccccccccHHHHHHHHHHHHhhCcHHHHHHHH
Confidence                    3466778888776555554444443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.11  E-value=1.9e-07  Score=87.44  Aligned_cols=106  Identities=13%  Similarity=0.152  Sum_probs=45.4

Q ss_pred             HHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHH
Q 048394          260 YVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQ  339 (485)
Q Consensus       260 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  339 (485)
                      ......|.+|+.+++.+..... -...|..+.+.|...|+++.|.++|.+.        ..++-.|..|.+.|++++|.+
T Consensus       742 ai~akew~kai~ildniqdqk~-~s~yy~~iadhyan~~dfe~ae~lf~e~--------~~~~dai~my~k~~kw~da~k  812 (1636)
T KOG3616|consen  742 AIGAKEWKKAISILDNIQDQKT-ASGYYGEIADHYANKGDFEIAEELFTEA--------DLFKDAIDMYGKAGKWEDAFK  812 (1636)
T ss_pred             HhhhhhhhhhHhHHHHhhhhcc-ccccchHHHHHhccchhHHHHHHHHHhc--------chhHHHHHHHhccccHHHHHH
Confidence            3344445555555544433111 1223444445555555555555554432        222334445555555555544


Q ss_pred             HHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHH
Q 048394          340 CFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIF  376 (485)
Q Consensus       340 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  376 (485)
                      +-.+..  |+......|-+-..-+-+.|++.+|.+++
T Consensus       813 la~e~~--~~e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  813 LAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             HHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            433322  22223333333333344445555554444

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.11  E-value=5.9e-07  Score=94.13  Aligned_cols=326  Identities=13%  Similarity=-0.003  Sum_probs=209.2

Q ss_pred             HHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcC--C----Ccc--HHHHHHHHHHH
Q 048394          153 CYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRN--I----SLD--NLTYIVWMQSY  224 (485)
Q Consensus       153 ~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~----~p~--~~~~~~l~~~~  224 (485)
                      .....|+++.+..+++.+.......+..........+...|+++++...+......-  .    .+.  ......+...+
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            345567888777777765322111122233444555677899999999998876431  0    111  11222233456


Q ss_pred             HhcCCHhHHHHHHHHHHhccCCCCc----HHHHHHHHHHHHhcccHHHHHHHHHHHHhc----CCCC--hHHHHHHHHHH
Q 048394          225 SHLNDIDGVERVFYEMCNECEDKCR----WTTYSNLASIYVKAELFEKAELALKKLEEM----KPRD--RKAYHFLISLY  294 (485)
Q Consensus       225 ~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~--~~~~~~l~~~~  294 (485)
                      ...|++++|...++..... ....+    ....+.+...+...|++++|...+.+....    ..+.  ..++..+...+
T Consensus       463 ~~~g~~~~A~~~~~~al~~-~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~  541 (903)
T PRK04841        463 INDGDPEEAERLAELALAE-LPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEIL  541 (903)
T ss_pred             HhCCCHHHHHHHHHHHHhc-CCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHH
Confidence            6899999999999988761 11111    134456677788899999999999888762    1111  23456677788


Q ss_pred             HhcCChhhHHHHHHHhhhc----CCC----ChhhHHHHHHHHHhcCChhHHHHHHHHHHHcc--CCC--CHHhHHHHHHH
Q 048394          295 CNTSNLDAVNRVWGILKST----FPP----TNTSYLVLLQALAKLNAIDILKQCFEEWESRC--SSY--DMRLADVIIRA  362 (485)
Q Consensus       295 ~~~~~~~~a~~~~~~~~~~----~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~--~~~~~~~l~~~  362 (485)
                      ...|+++.|...+++....    +..    ....+..+...+...|++++|...+.+.....  ..+  ....+..+...
T Consensus       542 ~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  621 (903)
T PRK04841        542 FAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKI  621 (903)
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHH
Confidence            8999999999988876542    211    22334456667778899999999998875531  111  23445556677


Q ss_pred             HHhcCcHHHHHHHHHHHHhcccccCCchhHH-----HHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCcc---HHHHHH
Q 048394          363 YLQKDMYEEAALIFNNAKKRANASARFFKSR-----ESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPM---QVTVDT  434 (485)
Q Consensus       363 ~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~-----~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~---~~~~~~  434 (485)
                      +...|++++|...+++....... ......+     ...+..+...|+.+.|..++.......    ....   ...+..
T Consensus       622 ~~~~G~~~~A~~~l~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~----~~~~~~~~~~~~~  696 (903)
T PRK04841        622 SLARGDLDNARRYLNRLENLLGN-GRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPE----FANNHFLQGQWRN  696 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhc-ccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCC----CccchhHHHHHHH
Confidence            88999999999999888653110 1111111     111234456889999999987754421    1111   112345


Q ss_pred             HHHHHhhcCChhhHHHHHHHHhhcCC------CCHHHHHHHHHHHHHhCCCcchhc
Q 048394          435 FFRFFEEEKDVDGAEEFCKVLKSLNC------LDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       435 l~~~~~~~~~~~~A~~~~~~~~~~~~------~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      +..++...|++++|...++++.....      ....+...++.++.+.|+.++|..
T Consensus       697 ~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~  752 (903)
T PRK04841        697 IARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQR  752 (903)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            66788899999999999999877431      134578889999999999988864

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.10  E-value=1.7e-06  Score=72.46  Aligned_cols=295  Identities=12%  Similarity=0.039  Sum_probs=134.4

Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHH-HH
Q 048394           74 VRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGAL-LN  152 (485)
Q Consensus        74 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~l-i~  152 (485)
                      .....+..++..+.+..++++|++++..-.++. +.+....+.+..+|....++..|-..++++....|...-|... ..
T Consensus         8 i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQ   86 (459)
T KOG4340|consen    8 IPEGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQ   86 (459)
T ss_pred             CCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHH
Confidence            333344455555555555555555555444443 1244444444555555555555555555555533443333221 23


Q ss_pred             HHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHH--HHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCH
Q 048394          153 CYCKELMTERALALFEKMDELKFLGNTVAFNNLS--TMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDI  230 (485)
Q Consensus       153 ~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~--~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  230 (485)
                      .+.+.+.+.+|+.+...|...   |+...-..-+  ......+++..+..+.++....|   +..+.+...-...+.|++
T Consensus        87 SLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqy  160 (459)
T KOG4340|consen   87 SLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQY  160 (459)
T ss_pred             HHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccH
Confidence            334455555555555554432   1111100111  11123445555555554443221   222222222233455555


Q ss_pred             hHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHh----cCC----------CC-------------
Q 048394          231 DGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEE----MKP----------RD-------------  283 (485)
Q Consensus       231 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~----------~~-------------  283 (485)
                      +.|.+-|+...+.+|..|- ..|+ +.-+..+.|+++.|++...++.+    ..|          +|             
T Consensus       161 EaAvqkFqaAlqvsGyqpl-lAYn-iALaHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~S  238 (459)
T KOG4340|consen  161 EAAVQKFQAALQVSGYQPL-LAYN-LALAHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQS  238 (459)
T ss_pred             HHHHHHHHHHHhhcCCCch-hHHH-HHHHHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHH
Confidence            5555555555553333332 2232 22223344555555555544443    000          00             


Q ss_pred             --hHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC--ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHH
Q 048394          284 --RKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP--TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVI  359 (485)
Q Consensus       284 --~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  359 (485)
                        ..++|.-...+.+.|+++.|.+.+..|......  |+.|...+.-.- ..+++-+..+-++-+.+..+- ...||..+
T Consensus       239 al~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nPf-P~ETFANl  316 (459)
T KOG4340|consen  239 ALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNPF-PPETFANL  316 (459)
T ss_pred             HHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCCC-ChHHHHHH
Confidence              233555555666666766666666666544443  555554433221 123344444444444444443 34555556


Q ss_pred             HHHHHhcCcHHHHHHHHHHH
Q 048394          360 IRAYLQKDMYEEAALIFNNA  379 (485)
Q Consensus       360 ~~~~~~~~~~~~A~~~~~~~  379 (485)
                      +-.||++.-++-|-.++.+-
T Consensus       317 LllyCKNeyf~lAADvLAEn  336 (459)
T KOG4340|consen  317 LLLYCKNEYFDLAADVLAEN  336 (459)
T ss_pred             HHHHhhhHHHhHHHHHHhhC
Confidence            66666666666666665443

>PLN02789 farnesyltranstransferase

Probab=99.09  E-value=1.2e-07  Score=84.41  Aligned_cols=212  Identities=11%  Similarity=0.002  Sum_probs=171.0

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcC-ChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCCh
Q 048394          256 LASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTS-NLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAI  334 (485)
Q Consensus       256 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  334 (485)
                      +-..+...+..++|+.+..++.+..|.+..+|+.-..++...| ++++++..++++....+.+..+|+.....+.+.|+.
T Consensus        43 ~ra~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~  122 (320)
T PLN02789         43 FRAVYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPD  122 (320)
T ss_pred             HHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCch
Confidence            3334445678889999999999999989999998888888888 679999999999999999888888776666677763


Q ss_pred             --hHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhc---cc----
Q 048394          335 --DILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRS---RQ----  405 (485)
Q Consensus       335 --~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---g~----  405 (485)
                        +++..+++.+.+..++ |..+|+...-++...|+++++++.++++++.+   .-|...|+.....+.+.   |.    
T Consensus       123 ~~~~el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d---~~N~sAW~~R~~vl~~~~~l~~~~~~  198 (320)
T PLN02789        123 AANKELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEED---VRNNSAWNQRYFVITRSPLLGGLEAM  198 (320)
T ss_pred             hhHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC---CCchhHHHHHHHHHHhcccccccccc
Confidence              6788999999988776 88999998889999999999999999999987   44556776665555443   22    


Q ss_pred             HHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhc----CChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHh
Q 048394          406 LDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEE----KDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAA  476 (485)
Q Consensus       406 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  476 (485)
                      .++++.+..+++..     .+-+...|+.+...+...    +...+|.+.+.++.+..|.++.+...|+..|+..
T Consensus       199 ~e~el~y~~~aI~~-----~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~  268 (320)
T PLN02789        199 RDSELKYTIDAILA-----NPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEG  268 (320)
T ss_pred             HHHHHHHHHHHHHh-----CCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhh
Confidence            35678888888887     456778888888888773    3456788999998888899999999999999874

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

Probab=99.02  E-value=3e-07  Score=91.99  Aligned_cols=201  Identities=15%  Similarity=0.168  Sum_probs=122.5

Q ss_pred             hhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCc-----cHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHH
Q 048394          179 TVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISL-----DNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTY  253 (485)
Q Consensus       179 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  253 (485)
                      ...|-..|......++.++|.+++++.+.. +.+     -...|.++++.-...|.-+...++|+++.+   .-....+|
T Consensus      1458 Si~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcq---ycd~~~V~ 1533 (1710)
T KOG1070|consen 1458 SILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQ---YCDAYTVH 1533 (1710)
T ss_pred             chHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHH---hcchHHHH
Confidence            344555565666666666666666665543 211     123455555555555666666666666665   22234455


Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC--ChhhHHHHHHHHHhc
Q 048394          254 SNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP--TNTSYLVLLQALAKL  331 (485)
Q Consensus       254 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~  331 (485)
                      ..|...|.+.+.+++|-++++.|.+........|...+..+.+.++-+.|..++.++.+.-|.  ........+..-.+.
T Consensus      1534 ~~L~~iy~k~ek~~~A~ell~~m~KKF~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~ 1613 (1710)
T KOG1070|consen 1534 LKLLGIYEKSEKNDEADELLRLMLKKFGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKY 1613 (1710)
T ss_pred             HHHHHHHHHhhcchhHHHHHHHHHHHhcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhc
Confidence            566666666667777777777666633345666666666666666666666776666666555  334444455555566


Q ss_pred             CChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhccc
Q 048394          332 NAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRAN  384 (485)
Q Consensus       332 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  384 (485)
                      |+.+.+..+|+......++ -...|+..++.-.+.|+.+.++.+|++....++
T Consensus      1614 GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l 1665 (1710)
T KOG1070|consen 1614 GDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKL 1665 (1710)
T ss_pred             CCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCC
Confidence            7777777777766665444 556677777777777777777777777776665

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.99  E-value=4.8e-08  Score=76.51  Aligned_cols=127  Identities=13%  Similarity=-0.015  Sum_probs=107.5

Q ss_pred             HHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHH
Q 048394          338 KQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAAL  417 (485)
Q Consensus       338 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  417 (485)
                      +.++++..+.    ++..+..+...+...|++++|...|+......   +.+...|..+...+.+.|++++|+..|+++.
T Consensus        13 ~~~~~~al~~----~p~~~~~~g~~~~~~g~~~~A~~~~~~al~~~---P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al   85 (144)
T PRK15359         13 EDILKQLLSV----DPETVYASGYASWQEGDYSRAVIDFSWLVMAQ---PWSWRAHIALAGTWMMLKEYTTAINFYGHAL   85 (144)
T ss_pred             HHHHHHHHHc----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC---CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            3456666554    33345567888899999999999999998875   5577888899999999999999999999999


Q ss_pred             HHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHh
Q 048394          418 SEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAA  476 (485)
Q Consensus       418 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  476 (485)
                      ..     .+.+...+..+..++...|++++|...|+.+.+..|.++..|...+.+....
T Consensus        86 ~l-----~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~~l  139 (144)
T PRK15359         86 ML-----DASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQIMV  139 (144)
T ss_pred             hc-----CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHH
Confidence            87     5567889999999999999999999999999999999999998888877654

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.99  E-value=2.2e-07  Score=91.94  Aligned_cols=168  Identities=9%  Similarity=0.091  Sum_probs=105.7

Q ss_pred             ChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHH-HHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHH
Q 048394          178 NTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNL-TYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNL  256 (485)
Q Consensus       178 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  256 (485)
                      +...|..|+..+...+++++|.++.+...+.  .|+.. .|..+...+.+.++...+..+  .+..              
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~--------------   91 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--NLID--------------   91 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--hhhh--------------
Confidence            3456777888888888888888888866664  34433 333333355666665555544  2222              


Q ss_pred             HHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhH
Q 048394          257 ASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDI  336 (485)
Q Consensus       257 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  336 (485)
                        ......++.....+...+.. .+.+..++..++.+|-+.|+.+++..+|+++.+..+.+..+.+.+...|... ++++
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 --SFSQNLKWAIVEHICDKILL-YGENKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEK  167 (906)
T ss_pred             --hcccccchhHHHHHHHHHHh-hhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHH
Confidence              22222233222222223322 2234457777888888888888888888888888777888888888888887 8888


Q ss_pred             HHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhc
Q 048394          337 LKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKR  382 (485)
Q Consensus       337 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  382 (485)
                      |.+++.+....               |...+++.++..+|.++...
T Consensus       168 A~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~  198 (906)
T PRK14720        168 AITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHY  198 (906)
T ss_pred             HHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhc
Confidence            88877776554               44455666666666666655

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.98  E-value=5.5e-07  Score=87.19  Aligned_cols=377  Identities=13%  Similarity=-0.016  Sum_probs=223.1

Q ss_pred             CChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcHHHHHHHHH
Q 048394           90 GRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMTERALALFE  168 (485)
Q Consensus        90 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~  168 (485)
                      .+...|+..|-+..+... -=...|..|...|+...+...|.+.|+...+ ..-+...+......|++..+++.|..+.-
T Consensus       472 K~~~~al~ali~alrld~-~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l  550 (1238)
T KOG1127|consen  472 KNSALALHALIRALRLDV-SLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICL  550 (1238)
T ss_pred             hhHHHHHHHHHHHHhccc-chhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHH
Confidence            346677777766655542 2234677788888877788888888888877 44456677888888888888888887733


Q ss_pred             HHHhCCCC-CChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCC
Q 048394          169 KMDELKFL-GNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDK  247 (485)
Q Consensus       169 ~m~~~~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  247 (485)
                      ..-+.... .-...|..+.-.|.+.++...++.-|+...... +.|...|..+..+|...|.+..|.++|..+..  -.|
T Consensus       551 ~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~--LrP  627 (1238)
T KOG1127|consen  551 RAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASL--LRP  627 (1238)
T ss_pred             HHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHh--cCc
Confidence            33222110 111223334445667777777777777776653 34566777777788888888888888877765  333


Q ss_pred             CcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCC-------CChHHHHHHHHHHHhcCChhhHHHHHHHhh-------hc
Q 048394          248 CRWTTYSNLASIYVKAELFEKAELALKKLEEMKP-------RDRKAYHFLISLYCNTSNLDAVNRVWGILK-------ST  313 (485)
Q Consensus       248 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-------~~  313 (485)
                      .+...--...-..+..|.+.+|...+........       .-..++..+...+...|-...+.++++.-.       .+
T Consensus       628 ~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h  707 (1238)
T KOG1127|consen  628 LSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIH  707 (1238)
T ss_pred             HhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHH
Confidence            3333333344445566777777777666554111       112333333333333333333333333222       11


Q ss_pred             C-CCChhhHHHHHHHHH-----------------------hcCCh---h---HHHHHHHHHHHccCCCCHHhHHHHHHHH
Q 048394          314 F-PPTNTSYLVLLQALA-----------------------KLNAI---D---ILKQCFEEWESRCSSYDMRLADVIIRAY  363 (485)
Q Consensus       314 ~-~~~~~~~~~l~~~~~-----------------------~~~~~---~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~  363 (485)
                      . ..+...|..+..+|.                       ..+..   |   -+.+.+-.-.+  ...+..+|..++..|
T Consensus       708 ~~~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hls--l~~~~~~WyNLGiny  785 (1238)
T KOG1127|consen  708 SLQSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLS--LAIHMYPWYNLGINY  785 (1238)
T ss_pred             hhhhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHH--HhhccchHHHHhHHH
Confidence            1 112222222222221                       11111   1   01111111111  111233444444444


Q ss_pred             Hh--------cCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHH
Q 048394          364 LQ--------KDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTF  435 (485)
Q Consensus       364 ~~--------~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l  435 (485)
                      .+        ..+...|...+.+.++..   ..+..+|+.|.- ....|++.-|.-.|-+....     .+....+|..+
T Consensus       786 lr~f~~l~et~~~~~~Ai~c~KkaV~L~---ann~~~WnaLGV-lsg~gnva~aQHCfIks~~s-----ep~~~~~W~Nl  856 (1238)
T KOG1127|consen  786 LRYFLLLGETMKDACTAIRCCKKAVSLC---ANNEGLWNALGV-LSGIGNVACAQHCFIKSRFS-----EPTCHCQWLNL  856 (1238)
T ss_pred             HHHHHHcCCcchhHHHHHHHHHHHHHHh---hccHHHHHHHHH-hhccchhhhhhhhhhhhhhc-----cccchhheecc
Confidence            33        123346777787777653   455566766644 36668888888888877766     56678899999


Q ss_pred             HHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcc
Q 048394          436 FRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLAS  481 (485)
Q Consensus       436 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  481 (485)
                      .-.+.+..|++.|...|.+...+.|.|...|...+.+....|+.-+
T Consensus       857 gvL~l~n~d~E~A~~af~~~qSLdP~nl~~WlG~Ali~eavG~ii~  902 (1238)
T KOG1127|consen  857 GVLVLENQDFEHAEPAFSSVQSLDPLNLVQWLGEALIPEAVGRIIE  902 (1238)
T ss_pred             ceeEEecccHHHhhHHHHhhhhcCchhhHHHHHHHHhHHHHHHHHH
Confidence            9999999999999999999999999999998877777766665443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.98  E-value=1.9e-07  Score=80.68  Aligned_cols=192  Identities=13%  Similarity=0.050  Sum_probs=127.4

Q ss_pred             CCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCh---HHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChh---
Q 048394          246 DKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDR---KAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNT---  319 (485)
Q Consensus       246 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---  319 (485)
                      .......+..++..+...|+++.|...|+++....|.++   .++..+..++...|++++|...++++.+..|.+..   
T Consensus        29 ~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~  108 (235)
T TIGR03302        29 EEWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADY  108 (235)
T ss_pred             ccCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHH
Confidence            455666777788888888999999999988888666543   46677888888889999999999988887776333   


Q ss_pred             hHHHHHHHHHhc--------CChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchh
Q 048394          320 SYLVLLQALAKL--------NAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFK  391 (485)
Q Consensus       320 ~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~  391 (485)
                      ++..+..++...        |+.+.|.+.++.+.+..+. +...+..+.....    ...       ...         .
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~~~~----~~~-------~~~---------~  167 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN-SEYAPDAKKRMDY----LRN-------RLA---------G  167 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC-ChhHHHHHHHHHH----HHH-------HHH---------H
Confidence            455555555544        5677777777777666433 2222222211100    000       000         0


Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCC
Q 048394          392 SRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNC  460 (485)
Q Consensus       392 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  460 (485)
                      ....+...+.+.|++++|+..+++.++...  ..+.....+..+..++.+.|++++|..+++.+....|
T Consensus       168 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~p--~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       168 KELYVARFYLKRGAYVAAINRFETVVENYP--DTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHHCC--CCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            112345567888999999999988887631  0112346778888888889999999888888776654

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=98.97  E-value=5.4e-07  Score=90.21  Aligned_cols=242  Identities=11%  Similarity=0.053  Sum_probs=182.8

Q ss_pred             HHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCC-----ChhhHHHHHHHHHhCCCcccHHHHHH
Q 048394          129 AAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLG-----NTVAFNNLSTMYLRLGQPEKVRPLVN  203 (485)
Q Consensus       129 ~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p-----~~~~~~~l~~~~~~~g~~~~a~~~~~  203 (485)
                      .|..+-..+...+.+...|-..|....+.++.++|.+++++.+.. +.+     -...|.++++.-...|.-+...++|+
T Consensus      1443 saeDferlvrssPNSSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFe 1521 (1710)
T KOG1070|consen 1443 SAEDFERLVRSSPNSSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFE 1521 (1710)
T ss_pred             CHHHHHHHHhcCCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHH
Confidence            333333333334445678888888889999999999999988653 211     12367777777777787788889999


Q ss_pred             HHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCC-
Q 048394          204 QMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPR-  282 (485)
Q Consensus       204 ~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-  282 (485)
                      ++.+.. . .-..|..|...|.+.+++++|.++++.|.+  .+.....+|...+..+.+.++-+.|..++.++.+..|. 
T Consensus      1522 RAcqyc-d-~~~V~~~L~~iy~k~ek~~~A~ell~~m~K--KF~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~ 1597 (1710)
T KOG1070|consen 1522 RACQYC-D-AYTVHLKLLGIYEKSEKNDEADELLRLMLK--KFGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQ 1597 (1710)
T ss_pred             HHHHhc-c-hHHHHHHHHHHHHHhhcchhHHHHHHHHHH--HhcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchh
Confidence            988762 1 234677888999999999999999999998  44467778888999999999999999999998885553 


Q ss_pred             -ChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCC--HHhHHHH
Q 048394          283 -DRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYD--MRLADVI  359 (485)
Q Consensus       283 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l  359 (485)
                       ........+..-.+.|+.+.+..+|+......|.-...|+.+++.-.+.|+.+.+..+|+++...++.|.  -..|..-
T Consensus      1598 eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkw 1677 (1710)
T KOG1070|consen 1598 EHVEFISKFAQLEFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKW 1677 (1710)
T ss_pred             hhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHH
Confidence             4556667777778899999999999999998888888899999999999999999999999998877654  2344444


Q ss_pred             HHHHHhcCcHHHHHHH
Q 048394          360 IRAYLQKDMYEEAALI  375 (485)
Q Consensus       360 ~~~~~~~~~~~~A~~~  375 (485)
                      +..-.+.|+-+.++.+
T Consensus      1678 LeyEk~~Gde~~vE~V 1693 (1710)
T KOG1070|consen 1678 LEYEKSHGDEKNVEYV 1693 (1710)
T ss_pred             HHHHHhcCchhhHHHH
Confidence            4444444554444333

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.97  E-value=1.9e-07  Score=80.76  Aligned_cols=188  Identities=13%  Similarity=0.063  Sum_probs=138.2

Q ss_pred             ccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcH---HHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChH---
Q 048394          212 LDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRW---TTYSNLASIYVKAELFEKAELALKKLEEMKPRDRK---  285 (485)
Q Consensus       212 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~---  285 (485)
                      .....+..+...+...|+++.|...|+++..  ..+.+.   .++..+..++...|++++|...++++.+..|.+..   
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~--~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~  108 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALES--RYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADY  108 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHH
Confidence            3566777788889999999999999999987  333332   46678899999999999999999999996665544   


Q ss_pred             HHHHHHHHHHhc--------CChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHH
Q 048394          286 AYHFLISLYCNT--------SNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLAD  357 (485)
Q Consensus       286 ~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  357 (485)
                      ++..+..++...        |+++.|.+.++.+....|.+...+..+.....    ...      ..        .....
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~----~~~------~~--------~~~~~  170 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDY----LRN------RL--------AGKEL  170 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHH----HHH------HH--------HHHHH
Confidence            566667777665        78899999999999888875544433322111    000      00        01112


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          358 VIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       358 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      .+...|.+.|++++|...+++..+.....+.....+..+..++.+.|++++|..+++.+...
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            46677889999999999999988763100223467788899999999999999998888765

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).

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

Probab=98.97  E-value=3.6e-07  Score=75.24  Aligned_cols=255  Identities=11%  Similarity=0.056  Sum_probs=144.3

Q ss_pred             HHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccH
Q 048394          187 TMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELF  266 (485)
Q Consensus       187 ~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  266 (485)
                      +-+.-.|++..++..-.......  -+...-..+.++|...|.+...   ..++..  +..|.......+......-++.
T Consensus        16 Rn~fY~Gnyq~~ine~~~~~~~~--~~~e~d~y~~raylAlg~~~~~---~~eI~~--~~~~~lqAvr~~a~~~~~e~~~   88 (299)
T KOG3081|consen   16 RNYFYLGNYQQCINEAEKFSSSK--TDVELDVYMYRAYLALGQYQIV---ISEIKE--GKATPLQAVRLLAEYLELESNK   88 (299)
T ss_pred             HHHHHhhHHHHHHHHHHhhcccc--chhHHHHHHHHHHHHccccccc---cccccc--ccCChHHHHHHHHHHhhCcchh
Confidence            34445577766665544443321  2333333355666666665433   233333  2234444433333333333443


Q ss_pred             HHHHH-HHHHHHh-cCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 048394          267 EKAEL-ALKKLEE-MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEW  344 (485)
Q Consensus       267 ~~A~~-~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  344 (485)
                      +.-.. +.+.+.. ....+......-+..|++.|++++|++.....     .+......=+..+.+..+++.|.+.++.|
T Consensus        89 ~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~-----~~lE~~Al~VqI~lk~~r~d~A~~~lk~m  163 (299)
T KOG3081|consen   89 KSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLG-----ENLEAAALNVQILLKMHRFDLAEKELKKM  163 (299)
T ss_pred             HHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhcc-----chHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33332 2233222 22223333344455677788888887776651     23334444445556677778888888888


Q ss_pred             HHccCCCCHHhHHHHHHHHHh----cCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHh
Q 048394          345 ESRCSSYDMRLADVIIRAYLQ----KDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEA  420 (485)
Q Consensus       345 ~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  420 (485)
                      .+..   +..+.+.|..++.+    .+.+.+|.-+|++|.++-   .|+..+.+....++...|++++|..++++.+.. 
T Consensus       164 q~id---ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~---~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~k-  236 (299)
T KOG3081|consen  164 QQID---EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKT---PPTPLLLNGQAVCHLQLGRYEEAESLLEEALDK-  236 (299)
T ss_pred             Hccc---hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhccc---CCChHHHccHHHHHHHhcCHHHHHHHHHHHHhc-
Confidence            7642   44555555555543    456777888888887643   677777777777777888888888888888877 


Q ss_pred             hhcCCCccHHHHHHHHHHHhhcCCh-hhHHHHHHHHhhcCCCCHH
Q 048394          421 KQFHWRPMQVTVDTFFRFFEEEKDV-DGAEEFCKVLKSLNCLDFS  464 (485)
Q Consensus       421 ~~~~~~~~~~~~~~l~~~~~~~~~~-~~A~~~~~~~~~~~~~~~~  464 (485)
                          ...++.+...++-+-...|.. +...+.+.++....|..+.
T Consensus       237 ----d~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~~p~h~~  277 (299)
T KOG3081|consen  237 ----DAKDPETLANLIVLALHLGKDAEVTERNLSQLKLSHPEHPF  277 (299)
T ss_pred             ----cCCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCcchH
Confidence                445667766666544444543 4455667777776665443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.97  E-value=2.8e-05  Score=70.87  Aligned_cols=186  Identities=11%  Similarity=0.074  Sum_probs=132.0

Q ss_pred             HHHHHHHHHHHHh-cCCCChHHHHHHHHHHHhcC---ChhhHHHHHHHhhhcCCC-ChhhHHHHHHHHHhcCChhHHHHH
Q 048394          266 FEKAELALKKLEE-MKPRDRKAYHFLISLYCNTS---NLDAVNRVWGILKSTFPP-TNTSYLVLLQALAKLNAIDILKQC  340 (485)
Q Consensus       266 ~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~  340 (485)
                      -+++..+++.... ....+..+|..+.+.--..-   ..+....+++++...... ...+|..+++...+..-+..|..+
T Consensus       309 t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~i  388 (656)
T KOG1914|consen  309 TDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKI  388 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHH
Confidence            3445555555544 22223344444333222122   356666777777665555 677888899998899999999999


Q ss_pred             HHHHHHccCCC-CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHH-HHHHHHHHhcccHHHHHHHHHHHHH
Q 048394          341 FEEWESRCSSY-DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSR-ESFMIYYLRSRQLDLALNEMEAALS  418 (485)
Q Consensus       341 ~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~  418 (485)
                      |.++.+.+..+ ++.++++++.-||. ++.+-|.++|+--.+.    -+|...| ...+..+...++-..|..+|++.+.
T Consensus       389 F~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkk----f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~  463 (656)
T KOG1914|consen  389 FKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKK----FGDSPEYVLKYLDFLSHLNDDNNARALFERVLT  463 (656)
T ss_pred             HHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHh----cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHh
Confidence            99998887666 78888888887775 7888999999876655    3443333 4566777888998999999999988


Q ss_pred             HhhhcCCCcc--HHHHHHHHHHHhhcCChhhHHHHHHHHhhcCC
Q 048394          419 EAKQFHWRPM--QVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNC  460 (485)
Q Consensus       419 ~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  460 (485)
                      .+    ..|+  ..+|..++.--..-||...+.++-++.....|
T Consensus       464 s~----l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~  503 (656)
T KOG1914|consen  464 SV----LSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFP  503 (656)
T ss_pred             cc----CChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcc
Confidence            75    4443  57899999988899999999888888776555

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

Probab=98.96  E-value=2.3e-07  Score=76.85  Aligned_cols=156  Identities=10%  Similarity=0.093  Sum_probs=117.4

Q ss_pred             HHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCCh
Q 048394          221 MQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNL  300 (485)
Q Consensus       221 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  300 (485)
                      +..|...|+++.+....+.+..    +..         .+...++.+++...++......|.+...|..+...|...|++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~----~~~---------~~~~~~~~~~~i~~l~~~L~~~P~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD----PLH---------QFASQQTPEAQLQALQDKIRANPQNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC----ccc---------cccCchhHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCH
Confidence            3467788888776554433222    100         111256667788888888888888889999999999999999


Q ss_pred             hhHHHHHHHhhhcCCCChhhHHHHHHHH-HhcCC--hhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHH
Q 048394          301 DAVNRVWGILKSTFPPTNTSYLVLLQAL-AKLNA--IDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFN  377 (485)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  377 (485)
                      ++|...+++.....+.+...+..+..++ ...|+  .++|.+++++..+..+. +...+..+...+.+.|++++|...|+
T Consensus        90 ~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~  168 (198)
T PRK10370         90 DNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999988888888888888888864 56676  48899999998888766 77788888888888999999999999


Q ss_pred             HHHhcccccCCchhHH
Q 048394          378 NAKKRANASARFFKSR  393 (485)
Q Consensus       378 ~~~~~~~~~~p~~~~~  393 (485)
                      ++.+..   +|+..-+
T Consensus       169 ~aL~l~---~~~~~r~  181 (198)
T PRK10370        169 KVLDLN---SPRVNRT  181 (198)
T ss_pred             HHHhhC---CCCccHH
Confidence            888775   4554443

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

Probab=98.96  E-value=1.1e-07  Score=78.30  Aligned_cols=158  Identities=13%  Similarity=0.043  Sum_probs=96.9

Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhc
Q 048394          218 IVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNT  297 (485)
Q Consensus       218 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  297 (485)
                      ..+-..+...|+-+....+......  ..+.+......++....+.|++..|...+.+.....|+|..+|+.+.-+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHc
Confidence            3444555556666666666555444  44455555555666666666666666666666666666666666666666666


Q ss_pred             CChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHH
Q 048394          298 SNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFN  377 (485)
Q Consensus       298 ~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  377 (485)
                      |+.+.|..-|.+..+..+.++..++.+.-.+.-.|+.+.|..++......+.. |..+-..+..+....|++++|..+..
T Consensus       148 Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         148 GRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             cChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHHhhcc
Confidence            66666666666666666666666666666666666666666666666555443 44445556666666666666666654


Q ss_pred             H
Q 048394          378 N  378 (485)
Q Consensus       378 ~  378 (485)
                      .
T Consensus       227 ~  227 (257)
T COG5010         227 Q  227 (257)
T ss_pred             c
Confidence            3

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.95  E-value=1.2e-05  Score=78.27  Aligned_cols=330  Identities=11%  Similarity=0.066  Sum_probs=173.2

Q ss_pred             HHHHHHhCCC--CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC--CChhhHHHHHHHHHhhCCHHHHHHHHHhhcc
Q 048394           64 LNAYIMEGKT--VRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMH--FSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE  139 (485)
Q Consensus        64 ~~~~~~~g~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  139 (485)
                      ++..+..+.+  -|+......++++...+-+.+-+++++.+.-.+-.  -+...-|.++-... .-+..+..++.+++..
T Consensus       970 iDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAi-kad~trVm~YI~rLdn 1048 (1666)
T KOG0985|consen  970 IDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAI-KADRTRVMEYINRLDN 1048 (1666)
T ss_pred             HHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHh-hcChHHHHHHHHHhcc
Confidence            3444444443  46788888899999999999999999998543211  12222333333333 3455666677776655


Q ss_pred             -cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCC----------------------CCCChhhHHHHHHHHHhCCCcc
Q 048394          140 -YAKNRYTYGALLNCYCKELMTERALALFEKMDELK----------------------FLGNTVAFNNLSTMYLRLGQPE  196 (485)
Q Consensus       140 -~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~----------------------~~p~~~~~~~l~~~~~~~g~~~  196 (485)
                       ..|+.      ...+...+-+++|..+|++.-..+                      +. .+..|..+..+-.+.|...
T Consensus      1049 yDa~~i------a~iai~~~LyEEAF~ifkkf~~n~~A~~VLie~i~~ldRA~efAe~~n-~p~vWsqlakAQL~~~~v~ 1121 (1666)
T KOG0985|consen 1049 YDAPDI------AEIAIENQLYEEAFAIFKKFDMNVSAIQVLIENIGSLDRAYEFAERCN-EPAVWSQLAKAQLQGGLVK 1121 (1666)
T ss_pred             CCchhH------HHHHhhhhHHHHHHHHHHHhcccHHHHHHHHHHhhhHHHHHHHHHhhC-ChHHHHHHHHHHHhcCchH
Confidence             22322      223334455566666655432110                      11 2234555555555555555


Q ss_pred             cHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHH
Q 048394          197 KVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKL  276 (485)
Q Consensus       197 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  276 (485)
                      +|++-|-+.      -|+..|..+++...+.|.+++-.+++....+ ..-.|...+  .|+-+|++.++..+-++.+   
T Consensus      1122 dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRk-k~~E~~id~--eLi~AyAkt~rl~elE~fi--- 1189 (1666)
T KOG0985|consen 1122 DAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARK-KVREPYIDS--ELIFAYAKTNRLTELEEFI--- 1189 (1666)
T ss_pred             HHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHH-hhcCccchH--HHHHHHHHhchHHHHHHHh---
Confidence            555443221      1444555666666666666666666655555 333343333  3566666666555444332   


Q ss_pred             HhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhH
Q 048394          277 EEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLA  356 (485)
Q Consensus       277 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  356 (485)
                         ..|+......+.+-|...|.++.|.-+|..        ...|..|...+...|++..|...-++.      .+..+|
T Consensus      1190 ---~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~--------vSN~a~La~TLV~LgeyQ~AVD~aRKA------ns~ktW 1252 (1666)
T KOG0985|consen 1190 ---AGPNVANIQQVGDRCFEEKMYEAAKLLYSN--------VSNFAKLASTLVYLGEYQGAVDAARKA------NSTKTW 1252 (1666)
T ss_pred             ---cCCCchhHHHHhHHHhhhhhhHHHHHHHHH--------hhhHHHHHHHHHHHHHHHHHHHHhhhc------cchhHH
Confidence               223555555556666666666666555543        234455555555666655554443322      145566


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHH
Q 048394          357 DVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFF  436 (485)
Q Consensus       357 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~  436 (485)
                      ..+-.+|...+.+.-|     +|-..++  .....-...++..|-..|-+++.+.+++..+-.     -+...-.|+-|.
T Consensus      1253 K~VcfaCvd~~EFrlA-----QiCGL~i--ivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGL-----ERAHMgmfTELa 1320 (1666)
T KOG0985|consen 1253 KEVCFACVDKEEFRLA-----QICGLNI--IVHADELEELIEYYQDRGYFEELISLLEAGLGL-----ERAHMGMFTELA 1320 (1666)
T ss_pred             HHHHHHHhchhhhhHH-----HhcCceE--EEehHhHHHHHHHHHhcCcHHHHHHHHHhhhch-----hHHHHHHHHHHH
Confidence            6665555554444322     2333333  333444556666677777777777666665443     122333444444


Q ss_pred             HHHhhc
Q 048394          437 RFFEEE  442 (485)
Q Consensus       437 ~~~~~~  442 (485)
                      -.|.+.
T Consensus      1321 iLYsky 1326 (1666)
T KOG0985|consen 1321 ILYSKY 1326 (1666)
T ss_pred             HHHHhc
Confidence            444443

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

Probab=98.95  E-value=1.9e-07  Score=77.00  Aligned_cols=179  Identities=13%  Similarity=0.010  Sum_probs=145.7

Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHcc
Q 048394          269 AELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRC  348 (485)
Q Consensus       269 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  348 (485)
                      +...+-......|.+... ..+...+...|+-+....+........+.+......++....+.|++..|...+.+.....
T Consensus        52 a~~al~~~~~~~p~d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~  130 (257)
T COG5010          52 AAAALGAAVLRNPEDLSI-AKLATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA  130 (257)
T ss_pred             HHHHHHHHHhcCcchHHH-HHHHHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC
Confidence            333333333355656666 7788888899999999988888777777788888889999999999999999999998876


Q ss_pred             CCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCcc
Q 048394          349 SSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPM  428 (485)
Q Consensus       349 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  428 (485)
                      ++ |...|+.+.-+|.+.|+++.|..-|.+..+..   .-+...++.+...+.-.|+.+.|..++......+     .-|
T Consensus       131 p~-d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~---~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-----~ad  201 (257)
T COG5010         131 PT-DWEAWNLLGAALDQLGRFDEARRAYRQALELA---PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-----AAD  201 (257)
T ss_pred             CC-ChhhhhHHHHHHHHccChhHHHHHHHHHHHhc---cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-----CCc
Confidence            54 89999999999999999999999999998874   3345667888888899999999999999998863     347


Q ss_pred             HHHHHHHHHHHhhcCChhhHHHHHHHHhh
Q 048394          429 QVTVDTFFRFFEEEKDVDGAEEFCKVLKS  457 (485)
Q Consensus       429 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  457 (485)
                      ..+-..+..+....|++++|+.+...-..
T Consensus       202 ~~v~~NLAl~~~~~g~~~~A~~i~~~e~~  230 (257)
T COG5010         202 SRVRQNLALVVGLQGDFREAEDIAVQELL  230 (257)
T ss_pred             hHHHHHHHHHHhhcCChHHHHhhcccccc
Confidence            78888888899999999999988765443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.93  E-value=2.2e-06  Score=83.23  Aligned_cols=213  Identities=12%  Similarity=0.011  Sum_probs=129.7

Q ss_pred             HHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 048394          267 EKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWES  346 (485)
Q Consensus       267 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  346 (485)
                      ..|...+++..+....+..+|+.|.-. ...|++.-+...|-+-....+....+|..+.-.+.+..+++.|...|.....
T Consensus       800 ~~Ai~c~KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~sep~~~~~W~NlgvL~l~n~d~E~A~~af~~~qS  878 (1238)
T KOG1127|consen  800 CTAIRCCKKAVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSEPTCHCQWLNLGVLVLENQDFEHAEPAFSSVQS  878 (1238)
T ss_pred             HHHHHHHHHHHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhccccchhheeccceeEEecccHHHhhHHHHhhhh
Confidence            355566666665555566666666544 4556666666666666666666677777777777778888888888888777


Q ss_pred             ccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHH--HHh--cccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhh
Q 048394          347 RCSSYDMRLADVIIRAYLQKDMYEEAALIFNN--AKK--RANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQ  422 (485)
Q Consensus       347 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~--~~~--~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  422 (485)
                      ..+. |...|-.....-...|+.-++..+|..  ...  .|-  .|+..-|-....-...+|+.++-+...+.+......
T Consensus       879 LdP~-nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gk--a~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~a  955 (1238)
T KOG1127|consen  879 LDPL-NLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGK--AKKFQYWLCATEIHLQNGNIEESINTARKISSASLA  955 (1238)
T ss_pred             cCch-hhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccc--cchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHH
Confidence            6554 566665555555566777777777765  222  222  444444444444445566655554444433322100


Q ss_pred             c-----CCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcC------CCCHHHHHHHHHHHHHhCCCcchh
Q 048394          423 F-----HWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLN------CLDFSAYSLLIKTYIAAGKLASDM  483 (485)
Q Consensus       423 ~-----~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~l~~~~~~~g~~~~A~  483 (485)
                      .     +.+.+...|..........+.+..|.....+....-      ..+..+-..++..++..|.++.|.
T Consensus       956 l~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~ 1027 (1238)
T KOG1127|consen  956 LSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAK 1027 (1238)
T ss_pred             HHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHh
Confidence            0     144556677777777777777887777777655421      123335557778888888888764

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.92  E-value=1e-06  Score=86.44  Aligned_cols=136  Identities=8%  Similarity=0.006  Sum_probs=86.5

Q ss_pred             CCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHH
Q 048394          246 DKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLL  325 (485)
Q Consensus       246 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  325 (485)
                      .+.+...+..|.....+.|.+++|..+++.+.+..|.+......++..+.+.+++++|....++.....|.+......+.
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~a  161 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLEA  161 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHHH
Confidence            44456666666666666666666666666666666666666666666666666666666666666666666666666666


Q ss_pred             HHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhc
Q 048394          326 QALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKR  382 (485)
Q Consensus       326 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  382 (485)
                      .++.+.|++++|..+|+++...++. +..++..+...+...|+.++|...|++..+.
T Consensus       162 ~~l~~~g~~~~A~~~y~~~~~~~p~-~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        162 KSWDEIGQSEQADACFERLSRQHPE-FENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHhcchHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            6666666666666666666654332 3555666666666666666666666666554

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.92  E-value=3.2e-06  Score=80.48  Aligned_cols=164  Identities=15%  Similarity=0.164  Sum_probs=77.1

Q ss_pred             HhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHH
Q 048394          122 AKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPL  201 (485)
Q Consensus       122 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  201 (485)
                      ...|.+++|..+|.+...       |..|=..|-..|.+++|.++-+.--.-.+   ..||......+-..++.+.|++.
T Consensus       811 ieLgMlEeA~~lYr~ckR-------~DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~Aley  880 (1416)
T KOG3617|consen  811 IELGMLEEALILYRQCKR-------YDLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAALEY  880 (1416)
T ss_pred             HHHhhHHHHHHHHHHHHH-------HHHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHHHHH
Confidence            345555666665555543       22333334445666666555433211111   12444444444444555555555


Q ss_pred             HHHHHH----------cC---------CCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHh
Q 048394          202 VNQMKQ----------RN---------ISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVK  262 (485)
Q Consensus       202 ~~~~~~----------~~---------~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  262 (485)
                      |++...          ..         -..|...|.-...-+-..|+.+.|+.+|....+          |-+++...|-
T Consensus       881 yEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D----------~fs~VrI~C~  950 (1416)
T KOG3617|consen  881 YEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD----------YFSMVRIKCI  950 (1416)
T ss_pred             HHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh----------hhhheeeEee
Confidence            543211          00         011222333333333344555555555554443          2234444445


Q ss_pred             cccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHh
Q 048394          263 AELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGIL  310 (485)
Q Consensus       263 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  310 (485)
                      .|+.++|-.+-++     ..|..+...+.+.|-+.|++.+|..+|.+.
T Consensus       951 qGk~~kAa~iA~e-----sgd~AAcYhlaR~YEn~g~v~~Av~FfTrA  993 (1416)
T KOG3617|consen  951 QGKTDKAARIAEE-----SGDKAACYHLARMYENDGDVVKAVKFFTRA  993 (1416)
T ss_pred             ccCchHHHHHHHh-----cccHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            5555555555443     124455556677777777777777766654

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

Probab=98.92  E-value=5.9e-08  Score=90.75  Aligned_cols=215  Identities=10%  Similarity=0.038  Sum_probs=132.6

Q ss_pred             CCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHH
Q 048394          245 EDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVL  324 (485)
Q Consensus       245 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l  324 (485)
                      ..+|-+..-..+...+...|-...|..+|+++        ..|...+.+|...|+..+|..+..+-.+ .++++..|..+
T Consensus       393 ~lpp~Wq~q~~laell~slGitksAl~I~Erl--------emw~~vi~CY~~lg~~~kaeei~~q~le-k~~d~~lyc~L  463 (777)
T KOG1128|consen  393 HLPPIWQLQRLLAELLLSLGITKSALVIFERL--------EMWDPVILCYLLLGQHGKAEEINRQELE-KDPDPRLYCLL  463 (777)
T ss_pred             CCCCcchHHHHHHHHHHHcchHHHHHHHHHhH--------HHHHHHHHHHHHhcccchHHHHHHHHhc-CCCcchhHHHh
Confidence            45677777777888888889999999988874        5677788888888988888888887776 55577778777


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcc
Q 048394          325 LQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSR  404 (485)
Q Consensus       325 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  404 (485)
                      ++......-++.|.++.+.....       .-..+.....+.++++++.+.|+.-.+.+   +-...+|-.+..+..+.+
T Consensus       464 GDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n---plq~~~wf~~G~~ALqle  533 (777)
T KOG1128|consen  464 GDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN---PLQLGTWFGLGCAALQLE  533 (777)
T ss_pred             hhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC---ccchhHHHhccHHHHHHh
Confidence            77766555566666666654322       11111122223455666666655544443   223344544444445556


Q ss_pred             cHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchh
Q 048394          405 QLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDM  483 (485)
Q Consensus       405 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  483 (485)
                      ++..|.+.|......     -+.+...|+++-.+|.+.|+-.+|...++++.+.+..+...|.+..-...+-|.+++|+
T Consensus       534 k~q~av~aF~rcvtL-----~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~  607 (777)
T KOG1128|consen  534 KEQAAVKAFHRCVTL-----EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAI  607 (777)
T ss_pred             hhHHHHHHHHHHhhc-----CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHH
Confidence            666666666665554     22234456666666666666666666666666555555555555555555555555554

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

Probab=98.92  E-value=1.1e-07  Score=89.03  Aligned_cols=214  Identities=12%  Similarity=0.053  Sum_probs=161.9

Q ss_pred             HHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCC
Q 048394          115 AVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQ  194 (485)
Q Consensus       115 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~  194 (485)
                      ..+...+...|-...|..+|+++.       .|...|.+|...|+..+|..+..+..++  +||+..|-.+.+......-
T Consensus       402 ~~laell~slGitksAl~I~Erle-------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~s~  472 (777)
T KOG1128|consen  402 RLLAELLLSLGITKSALVIFERLE-------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDPSL  472 (777)
T ss_pred             HHHHHHHHHcchHHHHHHHHHhHH-------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccChHH
Confidence            445667777888888888888764       5777788888888888888888777763  3677777777776666666


Q ss_pred             cccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHH
Q 048394          195 PEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALK  274 (485)
Q Consensus       195 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  274 (485)
                      +++|.++.+..-.+       .-..+.....+.+++.++.+.|+.-.+  -.+....+|-.+..+..+.+++..|.+.|.
T Consensus       473 yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~--~nplq~~~wf~~G~~ALqlek~q~av~aF~  543 (777)
T KOG1128|consen  473 YEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLE--INPLQLGTWFGLGCAALQLEKEQAAVKAFH  543 (777)
T ss_pred             HHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhh--cCccchhHHHhccHHHHHHhhhHHHHHHHH
Confidence            67777776654332       112222223447888888888887776  566677788788888888888888888888


Q ss_pred             HHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 048394          275 KLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWES  346 (485)
Q Consensus       275 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  346 (485)
                      ......|.+...||.+..+|.+.++-.+|...+.+..+.+..+...|...+....+.|.+++|.+.+..+..
T Consensus       544 rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  544 RCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            888888888888888888888888888888888888887755777777777778888888888888887754

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.91  E-value=1e-06  Score=86.42  Aligned_cols=195  Identities=12%  Similarity=0.103  Sum_probs=153.4

Q ss_pred             HHHHHHhcCCHhHH-HHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcC
Q 048394          220 WMQSYSHLNDIDGV-ERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTS  298 (485)
Q Consensus       220 l~~~~~~~~~~~~a-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  298 (485)
                      +=.+....|..++| .+++.++.+             ++..........+++.-+.......+.+...+..|..+....|
T Consensus        34 ~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~La~i~~~~g  100 (694)
T PRK15179         34 LEAALAEPGESEEAGRELLQQARQ-------------VLERHAAVHKPAAALPELLDYVRRYPHTELFQVLVARALEAAH  100 (694)
T ss_pred             HHHHhcCcccchhHHHHHHHHHHH-------------HHHHhhhhcchHhhHHHHHHHHHhccccHHHHHHHHHHHHHcC
Confidence            33445566666655 455555555             3333333333333333333333355667999999999999999


Q ss_pred             ChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHH
Q 048394          299 NLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNN  378 (485)
Q Consensus       299 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  378 (485)
                      .+++|..+|+...+..|.+......++..+.+.+++++|...++......+. +......+..++.+.|++++|..+|++
T Consensus       101 ~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~~~a~~l~~~g~~~~A~~~y~~  179 (694)
T PRK15179        101 RSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREILLEAKSWDEIGQSEQADACFER  179 (694)
T ss_pred             CcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999998776 788888899999999999999999999


Q ss_pred             HHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHH
Q 048394          379 AKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFF  436 (485)
Q Consensus       379 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~  436 (485)
                      +...+   .-+..++..+..++...|+.++|...|++..+.     ..|....|+.++
T Consensus       180 ~~~~~---p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~-----~~~~~~~~~~~~  229 (694)
T PRK15179        180 LSRQH---PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA-----IGDGARKLTRRL  229 (694)
T ss_pred             HHhcC---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----hCcchHHHHHHH
Confidence            99853   344778888999999999999999999999988     556666666554

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.90  E-value=4.5e-05  Score=69.55  Aligned_cols=403  Identities=10%  Similarity=0.046  Sum_probs=238.3

Q ss_pred             CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHH
Q 048394           71 GKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGAL  150 (485)
Q Consensus        71 g~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~l  150 (485)
                      ..|-|..++..+++-+... .++++.++++++...- +.+...|...|..-....+++..+++|.+.....-+...|...
T Consensus        15 ~nP~di~sw~~lire~qt~-~~~~~R~~YEq~~~~F-P~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvLnlDLW~lY   92 (656)
T KOG1914|consen   15 ENPYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNVF-PSSPRAWKLYIERELASKDFESVEKLFSRCLVKVLNLDLWKLY   92 (656)
T ss_pred             cCCccHHHHHHHHHHHccC-CHHHHHHHHHHHhccC-CCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHhHHHHH
Confidence            4567888888888877655 8899999999987653 4566678888888888899999999999887744567777777


Q ss_pred             HHHHHh-cCcHHH----HHHHHHHH-HhCCCCC-ChhhHHHHHHHH---------HhCCCcccHHHHHHHHHHcCCCccH
Q 048394          151 LNCYCK-ELMTER----ALALFEKM-DELKFLG-NTVAFNNLSTMY---------LRLGQPEKVRPLVNQMKQRNISLDN  214 (485)
Q Consensus       151 i~~~~~-~~~~~~----A~~~~~~m-~~~~~~p-~~~~~~~l~~~~---------~~~g~~~~a~~~~~~~~~~~~~p~~  214 (485)
                      ++---+ .|+...    ..+.|+-. .+.|..+ +-..|+..+..+         ..+.+.+.+.++|+++...-+..=.
T Consensus        93 l~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlE  172 (656)
T KOG1914|consen   93 LSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLE  172 (656)
T ss_pred             HHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHH
Confidence            754333 233222    23333333 2334322 223455555432         2334556677777777754221112


Q ss_pred             HHHHHHHHHH-------------HhcCCHhHHHHHHHHHHhc-cCC-------CCcH--------HHHHHHHHHHHhcc-
Q 048394          215 LTYIVWMQSY-------------SHLNDIDGVERVFYEMCNE-CED-------KCRW--------TTYSNLASIYVKAE-  264 (485)
Q Consensus       215 ~~~~~l~~~~-------------~~~~~~~~a~~~~~~~~~~-~~~-------~~~~--------~~~~~l~~~~~~~~-  264 (485)
                      ..|+-...--             -+...+..|.++++++... .|.       +|..        ..|-.+|.--...+ 
T Consensus       173 kLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL  252 (656)
T KOG1914|consen  173 KLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPL  252 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCc
Confidence            2333221110             0122355566666665431 011       1110        01111121110000 


Q ss_pred             -----c--HHHHHHHHHHHHhcCCCChHHHHHHHH-------HHHhcCC-------hhhHHHHHHHhhhcCCC-ChhhHH
Q 048394          265 -----L--FEKAELALKKLEEMKPRDRKAYHFLIS-------LYCNTSN-------LDAVNRVWGILKSTFPP-TNTSYL  322 (485)
Q Consensus       265 -----~--~~~A~~~~~~~~~~~~~~~~~~~~l~~-------~~~~~~~-------~~~a~~~~~~~~~~~~~-~~~~~~  322 (485)
                           .  -....-++++.....+..+..|..-..       .+...|+       .+++..+++.....-.. +...|.
T Consensus       253 ~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~  332 (656)
T KOG1914|consen  253 RTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYF  332 (656)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                 0  011112223322211222333332222       2223333       34566666666554443 444444


Q ss_pred             HHHHHHHhcC---ChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCC-chhHHHHHHH
Q 048394          323 VLLQALAKLN---AIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASAR-FFKSRESFMI  398 (485)
Q Consensus       323 ~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p-~~~~~~~l~~  398 (485)
                      .+...--..-   ..+....+++++......--..+|-.++..-.+...++.|..+|.++.+.+.  .+ ++..++.++.
T Consensus       333 ~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r--~~hhVfVa~A~mE  410 (656)
T KOG1914|consen  333 ALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKR--TRHHVFVAAALME  410 (656)
T ss_pred             HHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccC--CcchhhHHHHHHH
Confidence            4433322222   2556666777666543222345677788888888999999999999999877  66 6677778887


Q ss_pred             HHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcC--CC-CHHHHHHHHHHHHH
Q 048394          399 YYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLN--CL-DFSAYSLLIKTYIA  475 (485)
Q Consensus       399 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~-~~~~~~~l~~~~~~  475 (485)
                      .|+ .++..-|.++|+--+..     +..++......+.-+...++-..|..+|++++...  +. ...+|..++.--..
T Consensus       411 y~c-skD~~~AfrIFeLGLkk-----f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~  484 (656)
T KOG1914|consen  411 YYC-SKDKETAFRIFELGLKK-----FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESN  484 (656)
T ss_pred             HHh-cCChhHHHHHHHHHHHh-----cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHh
Confidence            665 56779999999998887     66777777888899999999999999999999872  22 56789999988888


Q ss_pred             hCCCcchh
Q 048394          476 AGKLASDM  483 (485)
Q Consensus       476 ~g~~~~A~  483 (485)
                      -|+.+.++
T Consensus       485 vGdL~si~  492 (656)
T KOG1914|consen  485 VGDLNSIL  492 (656)
T ss_pred             cccHHHHH
Confidence            88876554

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.88  E-value=2.8e-06  Score=69.62  Aligned_cols=191  Identities=15%  Similarity=0.092  Sum_probs=140.2

Q ss_pred             hcCCHhHHHHHHHHHHhcc--C-CCCc-HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChh
Q 048394          226 HLNDIDGVERVFYEMCNEC--E-DKCR-WTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLD  301 (485)
Q Consensus       226 ~~~~~~~a~~~~~~~~~~~--~-~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  301 (485)
                      ...+.++..+++.++....  + ..++ +..|..++-+....|+.+.|...++++....|.+..+-..-.-.+-..|+++
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchh
Confidence            4567788888888776522  2 2233 4556667777778899999999999988866666555555555566788999


Q ss_pred             hHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHh
Q 048394          302 AVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKK  381 (485)
Q Consensus       302 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  381 (485)
                      +|.++++.+.+..|.|..++-.-+...-..|+.-+|++-+....+.-+. |...|.-+...|...|++++|.-.++++.-
T Consensus       104 ~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~-D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  104 EAIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMN-DQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             hHHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcC-cHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            9999999998888778888877676777778877888888888777444 889999999999999999999999998886


Q ss_pred             cccccCCchhHHHHHHHHHHh---cccHHHHHHHHHHHHHHh
Q 048394          382 RANASARFFKSRESFMIYYLR---SRQLDLALNEMEAALSEA  420 (485)
Q Consensus       382 ~~~~~~p~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~  420 (485)
                      ..   +-++..+..+.+.+.-   ..+..-|.++|.+.++..
T Consensus       183 ~~---P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  183 IQ---PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             cC---CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            62   2333444555555433   336677888888888763

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

Probab=98.86  E-value=7.9e-07  Score=73.68  Aligned_cols=119  Identities=9%  Similarity=-0.022  Sum_probs=57.5

Q ss_pred             cCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHH-HhcCc--HHHHH
Q 048394          297 TSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAY-LQKDM--YEEAA  373 (485)
Q Consensus       297 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~--~~~A~  373 (485)
                      .++.+++...++......|.+...|..+...|...|++++|...|++..+..+. +...+..+..++ ...|+  .++|.
T Consensus        52 ~~~~~~~i~~l~~~L~~~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A~  130 (198)
T PRK10370         52 QQTPEAQLQALQDKIRANPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQTR  130 (198)
T ss_pred             chhHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHHH
Confidence            334444444455555555555555555555555555555555555555544433 444444444432 33343  25555


Q ss_pred             HHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          374 LIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       374 ~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      .++++..+.+   +-+...+..+...+.+.|++++|+..|+++++.
T Consensus       131 ~~l~~al~~d---P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        131 EMIDKALALD---ANEVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHhC---CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            5555555443   223344444444455555555555555555544

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.86  E-value=6.2e-06  Score=77.64  Aligned_cols=268  Identities=14%  Similarity=0.132  Sum_probs=161.3

Q ss_pred             HHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCH
Q 048394          151 LNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDI  230 (485)
Q Consensus       151 i~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  230 (485)
                      +.+......|.+|+.+++.+......  ..-|..+...|+..|+++.|.++|-+.         ..++-.|..|.+.|++
T Consensus       739 ieaai~akew~kai~ildniqdqk~~--s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKTA--SGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhccc--cccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccH
Confidence            34445567777777777777665422  335677777888888888888877543         2345567778888888


Q ss_pred             hHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHh
Q 048394          231 DGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGIL  310 (485)
Q Consensus       231 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  310 (485)
                      +.|.++-++..   +.......|.+-..-+-+.|++.+|.+++-.   ...|+     ..|..|-+.|..+..+++.++-
T Consensus       808 ~da~kla~e~~---~~e~t~~~yiakaedldehgkf~eaeqlyit---i~~p~-----~aiqmydk~~~~ddmirlv~k~  876 (1636)
T KOG3616|consen  808 EDAFKLAEECH---GPEATISLYIAKAEDLDEHGKFAEAEQLYIT---IGEPD-----KAIQMYDKHGLDDDMIRLVEKH  876 (1636)
T ss_pred             HHHHHHHHHhc---CchhHHHHHHHhHHhHHhhcchhhhhheeEE---ccCch-----HHHHHHHhhCcchHHHHHHHHh
Confidence            88877766553   3445556666666666677788888777654   33333     3466777888888777776654


Q ss_pred             hhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHH----------
Q 048394          311 KSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAK----------  380 (485)
Q Consensus       311 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----------  380 (485)
                      ....  -..+...+..-+...|++..|+..|-+..+         |.+-+.+|...+-|++|.++-+.--          
T Consensus       877 h~d~--l~dt~~~f~~e~e~~g~lkaae~~flea~d---------~kaavnmyk~s~lw~dayriaktegg~n~~k~v~f  945 (1636)
T KOG3616|consen  877 HGDH--LHDTHKHFAKELEAEGDLKAAEEHFLEAGD---------FKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAF  945 (1636)
T ss_pred             Chhh--hhHHHHHHHHHHHhccChhHHHHHHHhhhh---------HHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHH
Confidence            2211  345556677777888888888877765433         3445566666777777666543211          


Q ss_pred             ----hcccccCCchhHH------HHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHH
Q 048394          381 ----KRANASARFFKSR------ESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEE  450 (485)
Q Consensus       381 ----~~~~~~~p~~~~~------~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  450 (485)
                          ..|-  ..-....      ..-++.-+..+-++-|.++-+-..+.       ....+...+..-+...|++++|-+
T Consensus       946 lwaksigg--daavkllnk~gll~~~id~a~d~~afd~afdlari~~k~-------k~~~vhlk~a~~ledegk~edask 1016 (1636)
T KOG3616|consen  946 LWAKSIGG--DAAVKLLNKHGLLEAAIDFAADNCAFDFAFDLARIAAKD-------KMGEVHLKLAMFLEDEGKFEDASK 1016 (1636)
T ss_pred             HHHHhhCc--HHHHHHHHhhhhHHHHhhhhhcccchhhHHHHHHHhhhc-------cCccchhHHhhhhhhccchhhhhH
Confidence                0000  0000000      11122223445555555554444333       222333445555677899999988


Q ss_pred             HHHHHhhcCC
Q 048394          451 FCKVLKSLNC  460 (485)
Q Consensus       451 ~~~~~~~~~~  460 (485)
                      .|-++++++.
T Consensus      1017 hyveaiklnt 1026 (1636)
T KOG3616|consen 1017 HYVEAIKLNT 1026 (1636)
T ss_pred             hhHHHhhccc
Confidence            8888877654

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.83  E-value=4.5e-06  Score=75.12  Aligned_cols=142  Identities=14%  Similarity=0.054  Sum_probs=108.9

Q ss_pred             HHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChh
Q 048394          222 QSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLD  301 (485)
Q Consensus       222 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  301 (485)
                      ..+...|+++.|+..++.+..  ..|.|+.........+.+.++.++|.+.++++....|.....+..+..++.+.|++.
T Consensus       314 ~~~~~~~~~d~A~~~l~~L~~--~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~  391 (484)
T COG4783         314 LQTYLAGQYDEALKLLQPLIA--AQPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQ  391 (484)
T ss_pred             HHHHHhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChH
Confidence            345567888888888888777  566667766777788888888888888888888877767777778888888888888


Q ss_pred             hHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHh
Q 048394          302 AVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKK  381 (485)
Q Consensus       302 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  381 (485)
                      +|..+++......+.++..|..|..+|...|+..++..-..                  ..|...|+++.|...+....+
T Consensus       392 eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~A------------------E~~~~~G~~~~A~~~l~~A~~  453 (484)
T COG4783         392 EAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARA------------------EGYALAGRLEQAIIFLMRASQ  453 (484)
T ss_pred             HHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHH------------------HHHHhCCCHHHHHHHHHHHHH
Confidence            88888888888877788888888888888888776654433                  345566888888888877776


Q ss_pred             cc
Q 048394          382 RA  383 (485)
Q Consensus       382 ~~  383 (485)
                      ..
T Consensus       454 ~~  455 (484)
T COG4783         454 QV  455 (484)
T ss_pred             hc
Confidence            54

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.81  E-value=5.3e-06  Score=82.43  Aligned_cols=168  Identities=13%  Similarity=0.056  Sum_probs=79.3

Q ss_pred             CHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhh-HHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHH
Q 048394          143 NRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVA-FNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWM  221 (485)
Q Consensus       143 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~-~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~  221 (485)
                      +...+..|+..+...+++++|.++.+...+..  |+... |-.+...+.+.++.+.+.-+                 .++
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~--P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~l   90 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEH--KKSISALYISGILSLSRRPLNDSNLL-----------------NLI   90 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--CcceehHHHHHHHHHhhcchhhhhhh-----------------hhh
Confidence            34455566666656666666666666544432  33222 22222233444443322222                 222


Q ss_pred             HHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChh
Q 048394          222 QSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLD  301 (485)
Q Consensus       222 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  301 (485)
                      .......++.....+...+..   ..-+...+..++.+|-+.|+.++|..+++++.+..|.++.+.|.+...|... +.+
T Consensus        91 ~~~~~~~~~~~ve~~~~~i~~---~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~  166 (906)
T PRK14720         91 DSFSQNLKWAIVEHICDKILL---YGENKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKE  166 (906)
T ss_pred             hhcccccchhHHHHHHHHHHh---hhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHH
Confidence            222233333222222223322   2233334445555666666666666666666655555566666666665555 555


Q ss_pred             hHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048394          302 AVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESR  347 (485)
Q Consensus       302 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  347 (485)
                      +|..++.+...              .+...+++..+.++|.++...
T Consensus       167 KA~~m~~KAV~--------------~~i~~kq~~~~~e~W~k~~~~  198 (906)
T PRK14720        167 KAITYLKKAIY--------------RFIKKKQYVGIEEIWSKLVHY  198 (906)
T ss_pred             HHHHHHHHHHH--------------HHHhhhcchHHHHHHHHHHhc
Confidence            66555555422              244444555555555555544

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.80  E-value=6e-05  Score=73.77  Aligned_cols=312  Identities=9%  Similarity=0.090  Sum_probs=219.4

Q ss_pred             HHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHH
Q 048394           86 LRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALA  165 (485)
Q Consensus        86 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  165 (485)
                      ...++-+++|..+|+..     ..+....+.++.   .-+.++.|.++-++..    ...+|..+..+-.+.|.+.+|++
T Consensus      1058 ai~~~LyEEAF~ifkkf-----~~n~~A~~VLie---~i~~ldRA~efAe~~n----~p~vWsqlakAQL~~~~v~dAie 1125 (1666)
T KOG0985|consen 1058 AIENQLYEEAFAIFKKF-----DMNVSAIQVLIE---NIGSLDRAYEFAERCN----EPAVWSQLAKAQLQGGLVKDAIE 1125 (1666)
T ss_pred             HhhhhHHHHHHHHHHHh-----cccHHHHHHHHH---HhhhHHHHHHHHHhhC----ChHHHHHHHHHHHhcCchHHHHH
Confidence            34455566666666543     123333344443   3466777777766664    46789999999999999999998


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccC
Q 048394          166 LFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECE  245 (485)
Q Consensus       166 ~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  245 (485)
                      -|-+.      -|+..|..++....+.|.|++..+++.-.++..-.|...  +.|+-+|++.+++.+..+++        
T Consensus      1126 Syika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi-------- 1189 (1666)
T KOG0985|consen 1126 SYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFI-------- 1189 (1666)
T ss_pred             HHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHh--------
Confidence            77432      266789999999999999999999998888877666655  46889999999988765544        


Q ss_pred             CCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHH
Q 048394          246 DKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLL  325 (485)
Q Consensus       246 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  325 (485)
                      .-|+......+.+-|...|.++.|.-++..        ..-|..|...+...|++..|.+.-++.     .+..+|-.+-
T Consensus      1190 ~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~--------vSN~a~La~TLV~LgeyQ~AVD~aRKA-----ns~ktWK~Vc 1256 (1666)
T KOG0985|consen 1190 AGPNVANIQQVGDRCFEEKMYEAAKLLYSN--------VSNFAKLASTLVYLGEYQGAVDAARKA-----NSTKTWKEVC 1256 (1666)
T ss_pred             cCCCchhHHHHhHHHhhhhhhHHHHHHHHH--------hhhHHHHHHHHHHHHHHHHHHHHhhhc-----cchhHHHHHH
Confidence            234555555688889999999999888764        466888999999999999988776654     2678898888


Q ss_pred             HHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhccc
Q 048394          326 QALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQ  405 (485)
Q Consensus       326 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  405 (485)
                      .+|...+.+.-|     +|-..++-....-...++..|-..|-+++-..+++......   +...-.|+.|.-.|++- +
T Consensus      1257 faCvd~~EFrlA-----QiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLE---RAHMgmfTELaiLYsky-k 1327 (1666)
T KOG0985|consen 1257 FACVDKEEFRLA-----QICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLE---RAHMGMFTELAILYSKY-K 1327 (1666)
T ss_pred             HHHhchhhhhHH-----HhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchh---HHHHHHHHHHHHHHHhc-C
Confidence            888877766544     23333333455566779999999999999999998776432   33445566666656553 4


Q ss_pred             HHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhh
Q 048394          406 LDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKS  457 (485)
Q Consensus       406 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  457 (485)
                      +++..+.++-....-       +   .-.+++++....-|.+..-+|.+..+
T Consensus      1328 p~km~EHl~LFwsRv-------N---ipKviRA~eqahlW~ElvfLY~~y~e 1369 (1666)
T KOG0985|consen 1328 PEKMMEHLKLFWSRV-------N---IPKVIRAAEQAHLWSELVFLYDKYEE 1369 (1666)
T ss_pred             HHHHHHHHHHHHHhc-------c---hHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            566666666655442       1   12356666666666666666655544

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.80  E-value=8e-05  Score=71.36  Aligned_cols=91  Identities=13%  Similarity=0.184  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-------------------
Q 048394           79 LEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-------------------  139 (485)
Q Consensus        79 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-------------------  139 (485)
                      |..+=+.|-..|.+++|+++-+.=.+..+   ..||......+...++.+.|+++|++...                   
T Consensus       829 ~DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Y  905 (1416)
T KOG3617|consen  829 YDLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQY  905 (1416)
T ss_pred             HHHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHH
Confidence            33444455566777777777665333322   23444445555556667777766664311                   


Q ss_pred             --cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHh
Q 048394          140 --YAKNRYTYGALLNCYCKELMTERALALFEKMDE  172 (485)
Q Consensus       140 --~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  172 (485)
                        ...|...|.-....+-..|+.+.|+.+|....+
T Consensus       906 v~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D  940 (1416)
T KOG3617|consen  906 VRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD  940 (1416)
T ss_pred             HHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh
Confidence              122444555555555566777777777766543

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.76  E-value=2.2e-05  Score=70.77  Aligned_cols=207  Identities=12%  Similarity=0.011  Sum_probs=150.2

Q ss_pred             CHHHHHHHHHhhcc----cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHH
Q 048394          126 GIAAAEKYFNGLSE----YAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPL  201 (485)
Q Consensus       126 ~~~~a~~~~~~~~~----~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  201 (485)
                      ++.++...-+.++.    ..|+...+...+.+......-..+-.++.+-.+.  .-...-|..-+ .+...|++++|+..
T Consensus       252 RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~--~~~aa~YG~A~-~~~~~~~~d~A~~~  328 (484)
T COG4783         252 RIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKRSKR--GGLAAQYGRAL-QTYLAGQYDEALKL  328 (484)
T ss_pred             HHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHHhCc--cchHHHHHHHH-HHHHhcccchHHHH
Confidence            45556666666655    4566666777666554444333333333333321  11223344444 45678999999999


Q ss_pred             HHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCC
Q 048394          202 VNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKP  281 (485)
Q Consensus       202 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  281 (485)
                      ++.+... .+-|..........+...|+.++|.+.++.+..  ..|......-.+..+|.+.|++.+|..+++......|
T Consensus       329 l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~--l~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p  405 (484)
T COG4783         329 LQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALA--LDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDP  405 (484)
T ss_pred             HHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh--cCCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Confidence            9999886 333455555567789999999999999999998  4555566677899999999999999999999999899


Q ss_pred             CChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhH
Q 048394          282 RDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLA  356 (485)
Q Consensus       282 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  356 (485)
                      .++..|..|.++|...|+..++..-..                 ..+...|+++.|...+....+.. +++..+|
T Consensus       406 ~dp~~w~~LAqay~~~g~~~~a~~A~A-----------------E~~~~~G~~~~A~~~l~~A~~~~-~~~~~~~  462 (484)
T COG4783         406 EDPNGWDLLAQAYAELGNRAEALLARA-----------------EGYALAGRLEQAIIFLMRASQQV-KLGFPDW  462 (484)
T ss_pred             CCchHHHHHHHHHHHhCchHHHHHHHH-----------------HHHHhCCCHHHHHHHHHHHHHhc-cCCcHHH
Confidence            999999999999999999988876544                 45777899999999999887763 3344443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.75  E-value=5.6e-07  Score=70.47  Aligned_cols=103  Identities=6%  Similarity=-0.106  Sum_probs=60.1

Q ss_pred             HHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcC
Q 048394          219 VWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTS  298 (485)
Q Consensus       219 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  298 (485)
                      .+...+...|++++|...|+....  ..+.+...+..+..++...|++++|...|+......|.+..++..+..++...|
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVM--AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcC
Confidence            344455556666666666666555  445555555666666666666666666666666655556666666666666666


Q ss_pred             ChhhHHHHHHHhhhcCCCChhhHHH
Q 048394          299 NLDAVNRVWGILKSTFPPTNTSYLV  323 (485)
Q Consensus       299 ~~~~a~~~~~~~~~~~~~~~~~~~~  323 (485)
                      ++++|...|+......+.+...+..
T Consensus       107 ~~~eAi~~~~~Al~~~p~~~~~~~~  131 (144)
T PRK15359        107 EPGLAREAFQTAIKMSYADASWSEI  131 (144)
T ss_pred             CHHHHHHHHHHHHHhCCCChHHHHH
Confidence            6666666666665555554444433

>PF12854 PPR_1: PPR repeat

Probab=98.70  E-value=2.3e-08  Score=55.63  Aligned_cols=32  Identities=25%  Similarity=0.387  Sum_probs=16.5

Q ss_pred             CCCccHHHHHHHHHHHHhcCCHhHHHHHHHHH
Q 048394          209 NISLDNLTYIVWMQSYSHLNDIDGVERVFYEM  240 (485)
Q Consensus       209 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  240 (485)
                      |+.||..||+++|.+|++.|++++|.++|++|
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            44555555555555555555555555555544

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.68  E-value=4.5e-05  Score=62.80  Aligned_cols=190  Identities=11%  Similarity=0.012  Sum_probs=153.8

Q ss_pred             hCCCcccHHHHHHHHHHc---C-CCccHHH-HHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhccc
Q 048394          191 RLGQPEKVRPLVNQMKQR---N-ISLDNLT-YIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAEL  265 (485)
Q Consensus       191 ~~g~~~~a~~~~~~~~~~---~-~~p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  265 (485)
                      ...+.++..+++.+++..   | ..|+..+ |..++-+....|+.+.|...++++..  .+|-+..+-..-.-.+-..|+
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~--~fp~S~RV~~lkam~lEa~~~  101 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRD--RFPGSKRVGKLKAMLLEATGN  101 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHH--hCCCChhHHHHHHHHHHHhhc
Confidence            456789999999998753   4 4555544 44455677788999999999999988  556666665444555666899


Q ss_pred             HHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 048394          266 FEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWE  345 (485)
Q Consensus       266 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  345 (485)
                      +++|.++++.+.+.+|.|..++---+-..-..|+.-+|++-+....+..+.|...|.-+...|...|+++.|.-.++++.
T Consensus       102 ~~~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~l  181 (289)
T KOG3060|consen  102 YKEAIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELL  181 (289)
T ss_pred             hhhHHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHH
Confidence            99999999999998888889998888888888999999999999999999999999999999999999999999999998


Q ss_pred             HccCCCCHHhHHHHHHHHHhcC---cHHHHHHHHHHHHhcc
Q 048394          346 SRCSSYDMRLADVIIRAYLQKD---MYEEAALIFNNAKKRA  383 (485)
Q Consensus       346 ~~~~~~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~  383 (485)
                      -..+. ++..+..+...+.-.|   +.+-|.++|.+..+..
T Consensus       182 l~~P~-n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  182 LIQPF-NPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            77554 6667777777665544   5667888999888763

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.68  E-value=1.3e-06  Score=68.07  Aligned_cols=115  Identities=8%  Similarity=-0.059  Sum_probs=71.8

Q ss_pred             HHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHh
Q 048394          341 FEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEA  420 (485)
Q Consensus       341 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  420 (485)
                      ++.+.+..+. +......+...+...|++++|...|+.+...+   +.+...+..+...+...|++++|...++..... 
T Consensus         6 ~~~~l~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~---p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-   80 (135)
T TIGR02552         6 LKDLLGLDSE-QLEQIYALAYNLYQQGRYDEALKLFQLLAAYD---PYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL-   80 (135)
T ss_pred             HHHHHcCChh-hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-
Confidence            4444443332 33444556666666777777777777766653   335556666666666777777777777776665 


Q ss_pred             hhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHH
Q 048394          421 KQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFS  464 (485)
Q Consensus       421 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  464 (485)
                          .+.+...+..+...+...|+++.|...++.+.+..|.+..
T Consensus        81 ----~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  120 (135)
T TIGR02552        81 ----DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPE  120 (135)
T ss_pred             ----CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccch
Confidence                3345566666666777777777777777777777666544

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF12854 PPR_1: PPR repeat

Probab=98.65  E-value=4.9e-08  Score=54.35  Aligned_cols=32  Identities=13%  Similarity=0.183  Sum_probs=15.2

Q ss_pred             CCCCChhhHHHHHHHHHhhCCHHHHHHHHHhh
Q 048394          106 KMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGL  137 (485)
Q Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  137 (485)
                      |+.||..+|+.+|.+|++.|++++|.++|++|
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            34444444444444444444444444444444

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.64  E-value=1.8e-06  Score=67.33  Aligned_cols=94  Identities=14%  Similarity=0.027  Sum_probs=36.1

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhc
Q 048394          287 YHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQK  366 (485)
Q Consensus       287 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  366 (485)
                      ...+...+...|++++|.+.++.+...++.+...+..+..++...|++++|...++...+.++. +...+..+...|...
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~~~~   98 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPD-DPRPYFHAAECLLAL   98 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHHHc
Confidence            3333333334444444444444433333333333333344444444444444444433333221 233333333334444


Q ss_pred             CcHHHHHHHHHHHHh
Q 048394          367 DMYEEAALIFNNAKK  381 (485)
Q Consensus       367 ~~~~~A~~~~~~~~~  381 (485)
                      |++++|...|++..+
T Consensus        99 g~~~~A~~~~~~al~  113 (135)
T TIGR02552        99 GEPESALKALDLAIE  113 (135)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            444444444443333

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

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

Probab=98.62  E-value=2.1e-05  Score=65.21  Aligned_cols=151  Identities=12%  Similarity=0.088  Sum_probs=75.2

Q ss_pred             HHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHH----
Q 048394          186 STMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYV----  261 (485)
Q Consensus       186 ~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~----  261 (485)
                      ...|++.|++++|++......      +......-+..+.+..+++-|.+.++.|.+  ..  +..+.+-|..++.    
T Consensus       115 a~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~--id--ed~tLtQLA~awv~la~  184 (299)
T KOG3081|consen  115 AIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQ--ID--EDATLTQLAQAWVKLAT  184 (299)
T ss_pred             hHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHc--cc--hHHHHHHHHHHHHHHhc
Confidence            344556666666665554411      122222223344455566666666666655  11  2222332333333    


Q ss_pred             hcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCCh-hHHHHH
Q 048394          262 KAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAI-DILKQC  340 (485)
Q Consensus       262 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~  340 (485)
                      ..+.+.+|.-+|+++.+..+|++.+.+-.+.++...|++++|..+++........++.+...++-+....|.. +...+.
T Consensus       185 ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~  264 (299)
T KOG3081|consen  185 GGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTERN  264 (299)
T ss_pred             cchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHHH
Confidence            2344556666666665555556666666666666666666666666666665555555554444444444433 223334


Q ss_pred             HHHHHH
Q 048394          341 FEEWES  346 (485)
Q Consensus       341 ~~~~~~  346 (485)
                      +.++..
T Consensus       265 l~QLk~  270 (299)
T KOG3081|consen  265 LSQLKL  270 (299)
T ss_pred             HHHHHh
Confidence            444443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.60  E-value=0.00077  Score=65.61  Aligned_cols=203  Identities=9%  Similarity=0.052  Sum_probs=134.7

Q ss_pred             HHHHHHH--HHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHh
Q 048394           79 LEYCVRS--LRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCK  156 (485)
Q Consensus        79 ~~~l~~~--~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~  156 (485)
                      +..++++  +.+.|+.++|..+++....-+.. |..|...+-.+|...|+.++|..+++...+..|+......+..+|.+
T Consensus        44 ~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~~P~eell~~lFmayvR  122 (932)
T KOG2053|consen   44 YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQKYPSEELLYHLFMAYVR  122 (932)
T ss_pred             HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhhCCcHHHHHHHHHHHHH
Confidence            4444444  46889999999888887666543 78888888889999999999999999999977888888888888888


Q ss_pred             cCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCC-Ccc---------cHHHHHHHHHHcC-CCccHHHHHHHHHHHH
Q 048394          157 ELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLG-QPE---------KVRPLVNQMKQRN-ISLDNLTYIVWMQSYS  225 (485)
Q Consensus       157 ~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g-~~~---------~a~~~~~~~~~~~-~~p~~~~~~~l~~~~~  225 (485)
                      .+.+.+-.++--+|-+. .+-+...|-++++.....- ..+         -|.+.++.+.+.+ ---+..-...-...+.
T Consensus       123 ~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~  201 (932)
T KOG2053|consen  123 EKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILE  201 (932)
T ss_pred             HHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHH
Confidence            88887655544444432 2225556666666655432 222         2444555555443 1111122222234456


Q ss_pred             hcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCC
Q 048394          226 HLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRD  283 (485)
Q Consensus       226 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  283 (485)
                      ..|++++|..++..-....-.+.+...-+.-+..+...+++.+..++..++....+.|
T Consensus       202 ~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~~Dd  259 (932)
T KOG2053|consen  202 LQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKGNDD  259 (932)
T ss_pred             hcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhCCcc
Confidence            7788999999984333213444445555567788888899999998888888866655

>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=98.59  E-value=1.6e-06  Score=78.72  Aligned_cols=123  Identities=19%  Similarity=0.102  Sum_probs=64.6

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHH
Q 048394          322 LVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYL  401 (485)
Q Consensus       322 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~  401 (485)
                      ..++..+...++++.|.++++++.+..  |+  ....+++.+...++..+|.+++++.....   +.+...+..-...|.
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~---p~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN---PQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHH
Confidence            344444445556666666666665553  22  22335555555555556666665555442   223333333344455


Q ss_pred             hcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHh
Q 048394          402 RSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLK  456 (485)
Q Consensus       402 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  456 (485)
                      +.++++.|+.+.+++...     .+.+..+|..|..+|...|+++.|...++.+.
T Consensus       246 ~k~~~~lAL~iAk~av~l-----sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVEL-----SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             hcCCHHHHHHHHHHHHHh-----CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            566666666666666654     23334466666666666666666665555443

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.49  E-value=0.0015  Score=63.79  Aligned_cols=221  Identities=14%  Similarity=0.154  Sum_probs=119.1

Q ss_pred             hcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHH--HhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHH
Q 048394          156 KELMTERALALFEKMDELKFLGNTVAFNNLSTMY--LRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGV  233 (485)
Q Consensus       156 ~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~--~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  233 (485)
                      ..+++.+|.+...++.+.-  |+. .|..++.++  .+.|+.++|..+++....-+.. |..|...+-.+|...++.++|
T Consensus        21 d~~qfkkal~~~~kllkk~--Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~   96 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKKH--PNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEA   96 (932)
T ss_pred             hhHHHHHHHHHHHHHHHHC--CCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHH
Confidence            4466666666666665543  332 233333332  4566666666666655544332 556666666666666666666


Q ss_pred             HHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCC----------hhhH
Q 048394          234 ERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSN----------LDAV  303 (485)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a  303 (485)
                      ..+|+...+   ..|+......+..+|++.+++.+-.++--++-+..|.++..+-.+++.+.+.-.          ..-|
T Consensus        97 ~~~Ye~~~~---~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA  173 (932)
T KOG2053|consen   97 VHLYERANQ---KYPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWSVISLILQSIFSENELLDPILLALA  173 (932)
T ss_pred             HHHHHHHHh---hCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHhccCCcccccchhHHHH
Confidence            666666655   333455555566666666666655555555555555555555555555443221          1223


Q ss_pred             HHHHHHhhhcC-CC-ChhhHHHHHHHHHhcCChhHHHHHHH-HHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHH
Q 048394          304 NRVWGILKSTF-PP-TNTSYLVLLQALAKLNAIDILKQCFE-EWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAK  380 (485)
Q Consensus       304 ~~~~~~~~~~~-~~-~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  380 (485)
                      .+.++.+.+.+ .- +..-.......+...|++++|.+++. ...+.-...+...-+.-+..+...+++.+..++-.++.
T Consensus       174 ~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll  253 (932)
T KOG2053|consen  174 EKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLL  253 (932)
T ss_pred             HHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence            44444444433 22 22223333344455666777777763 33333333344444555666666777777777777766


Q ss_pred             hcc
Q 048394          381 KRA  383 (485)
Q Consensus       381 ~~~  383 (485)
                      ..|
T Consensus       254 ~k~  256 (932)
T KOG2053|consen  254 EKG  256 (932)
T ss_pred             HhC
Confidence            664

>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=98.41  E-value=1.9e-05  Score=71.93  Aligned_cols=124  Identities=14%  Similarity=0.150  Sum_probs=94.9

Q ss_pred             HHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHh
Q 048394          183 NNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVK  262 (485)
Q Consensus       183 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  262 (485)
                      ..++..+...++++.|+.+|+++.+..  |+.  ...+++.+...++-.+|.+++++..+  ..+-+...+...+..+.+
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--pev--~~~LA~v~l~~~~E~~AI~ll~~aL~--~~p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALK--ENPQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHh
Confidence            344555666778888888888888764  443  34467777777788888888888876  566677777777778888


Q ss_pred             cccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhh
Q 048394          263 AELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKS  312 (485)
Q Consensus       263 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  312 (485)
                      .++++.|+.+.+++....|.+..+|..|..+|...|+++.|+..++.+.-
T Consensus       247 k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             cCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            88888888888888888887888888888888888888888888776643

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.40  E-value=1.9e-05  Score=62.14  Aligned_cols=116  Identities=18%  Similarity=0.126  Sum_probs=62.0

Q ss_pred             cCChhhHHHHHHHhhhcCCCC---hhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCC--HHhHHHHHHHHHhcCcHHH
Q 048394          297 TSNLDAVNRVWGILKSTFPPT---NTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYD--MRLADVIIRAYLQKDMYEE  371 (485)
Q Consensus       297 ~~~~~~a~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~  371 (485)
                      .++...+...++.+....+.+   ......+...+...|++++|...|+.+......|+  ......+...+...|++++
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            555566666666666555553   22333344555666666666666666665543222  1223335555666666666


Q ss_pred             HHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHH
Q 048394          372 AALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAA  416 (485)
Q Consensus       372 A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  416 (485)
                      |+..++.....    ......+....+.|.+.|++++|...|+..
T Consensus       104 Al~~L~~~~~~----~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  104 ALATLQQIPDE----AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHhccCc----chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            66666543222    222334445555666666666666666543

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.38  E-value=2.9e-05  Score=65.75  Aligned_cols=110  Identities=15%  Similarity=-0.013  Sum_probs=93.4

Q ss_pred             HHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhc
Q 048394          363 YLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEE  442 (485)
Q Consensus       363 ~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  442 (485)
                      +.+.+++++|+..|.+.++..   +-|.+.|..=..+|.+.|.++.|++-.+..+...     +-...+|..|..+|...
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~---P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-----p~yskay~RLG~A~~~~  162 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELD---PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-----PHYSKAYGRLGLAYLAL  162 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC---CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-----hHHHHHHHHHHHHHHcc
Confidence            567799999999999999874   4455666777888999999999999999998863     33467899999999999


Q ss_pred             CChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCc
Q 048394          443 KDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLA  480 (485)
Q Consensus       443 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  480 (485)
                      |++++|++.|++.++++|.+...+..|-.+-.+.+...
T Consensus       163 gk~~~A~~aykKaLeldP~Ne~~K~nL~~Ae~~l~e~~  200 (304)
T KOG0553|consen  163 GKYEEAIEAYKKALELDPDNESYKSNLKIAEQKLNEPK  200 (304)
T ss_pred             CcHHHHHHHHHhhhccCCCcHHHHHHHHHHHHHhcCCC
Confidence            99999999999999999999999999888877766655

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.35  E-value=2.2e-05  Score=59.51  Aligned_cols=112  Identities=12%  Similarity=-0.098  Sum_probs=80.4

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHH
Q 048394          355 LADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDT  434 (485)
Q Consensus       355 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  434 (485)
                      ++..++..+.+.|++++|...|.++.............+..+...+.+.|++++|...|+.+....  ++.+.....+..
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~   81 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKY--PKSPKAPDALLK   81 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHC--CCCCcccHHHHH
Confidence            445577778888999999999988886531001112355667788888999999999999988764  111122456777


Q ss_pred             HHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHH
Q 048394          435 FFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSL  468 (485)
Q Consensus       435 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  468 (485)
                      +..++...|++++|.+.++++.+..|.++.+...
T Consensus        82 ~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~  115 (119)
T TIGR02795        82 LGMSLQELGDKEKAKATLQQVIKRYPGSSAAKLA  115 (119)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHHHCcCChhHHHH
Confidence            7788888899999999999999988887765544

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.

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.28  E-value=0.00042  Score=61.33  Aligned_cols=88  Identities=16%  Similarity=0.060  Sum_probs=41.9

Q ss_pred             HhcCChhHHHHHHHHHHHcc---CCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhccc
Q 048394          329 AKLNAIDILKQCFEEWESRC---SSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQ  405 (485)
Q Consensus       329 ~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  405 (485)
                      .+.|.+..|.+.|.+.+...   ..|+...|.....+..+.|+.++|+.--++..+.+.   --...|..-..++...++
T Consensus       260 fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~---syikall~ra~c~l~le~  336 (486)
T KOG0550|consen  260 FKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDS---SYIKALLRRANCHLALEK  336 (486)
T ss_pred             hhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCH---HHHHHHHHHHHHHHHHHH
Confidence            34556666666666555432   233444555555555556666666655555544321   000111111223334555


Q ss_pred             HHHHHHHHHHHHHH
Q 048394          406 LDLALNEMEAALSE  419 (485)
Q Consensus       406 ~~~A~~~~~~~~~~  419 (485)
                      |++|.+-++...+.
T Consensus       337 ~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  337 WEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHhh
Confidence            66666666555554

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.28  E-value=1.5e-06  Score=49.23  Aligned_cols=33  Identities=36%  Similarity=0.507  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCC
Q 048394          146 TYGALLNCYCKELMTERALALFEKMDELKFLGN  178 (485)
Q Consensus       146 ~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~  178 (485)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            566666666666777777777776666666665

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.

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.26  E-value=8.1e-05  Score=58.58  Aligned_cols=114  Identities=18%  Similarity=0.171  Sum_probs=58.1

Q ss_pred             cccHHHHHHHHHHHHhcCCCC---hHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC---ChhhHHHHHHHHHhcCChhH
Q 048394          263 AELFEKAELALKKLEEMKPRD---RKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP---TNTSYLVLLQALAKLNAIDI  336 (485)
Q Consensus       263 ~~~~~~A~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~  336 (485)
                      .++...+...++.+....|.+   ......+...+...|++++|...|+.+....+.   .......+...+...|++++
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            455555555555555533333   223333445555556666666666655554432   12233345555556666666


Q ss_pred             HHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHH
Q 048394          337 LKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNN  378 (485)
Q Consensus       337 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  378 (485)
                      |+..++......  .....+......|...|++++|...|+.
T Consensus       104 Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  104 ALATLQQIPDEA--FKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHhccCcc--hHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            666665432221  2333445555666666666666666654

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.25  E-value=5.5e-05  Score=66.71  Aligned_cols=266  Identities=9%  Similarity=-0.063  Sum_probs=117.3

Q ss_pred             HHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcc
Q 048394          185 LSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAE  264 (485)
Q Consensus       185 l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  264 (485)
                      ....+.+..++..|+..+....+.. +-+..-|..-+..+...|++++|.--.+.-.+  -.+-....+.....++...+
T Consensus        55 ~gn~~yk~k~Y~nal~~yt~Ai~~~-pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r--~kd~~~k~~~r~~~c~~a~~  131 (486)
T KOG0550|consen   55 EGNAFYKQKTYGNALKNYTFAIDMC-PDNASYYSNRAATLMMLGRFEEALGDARQSVR--LKDGFSKGQLREGQCHLALS  131 (486)
T ss_pred             hcchHHHHhhHHHHHHHHHHHHHhC-ccchhhhchhHHHHHHHHhHhhcccchhhhee--cCCCccccccchhhhhhhhH
Confidence            3344555556666666666666553 22344444445555555666665554444333  12222223444555555555


Q ss_pred             cHHHHHHHHHHHHh------------cC-----CCChHHHHHH-HHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHH
Q 048394          265 LFEKAELALKKLEE------------MK-----PRDRKAYHFL-ISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQ  326 (485)
Q Consensus       265 ~~~~A~~~~~~~~~------------~~-----~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  326 (485)
                      +..+|.+.++.-..            ..     +|.-.+|..+ ..++...|+.++|.++--.+.+....+......-..
T Consensus       132 ~~i~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld~~n~~al~vrg~  211 (486)
T KOG0550|consen  132 DLIEAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLDATNAEALYVRGL  211 (486)
T ss_pred             HHHHHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcccchhHHHHhccc
Confidence            55555555542210            00     0111222221 223444555666655555555544443333333333


Q ss_pred             HHHhcCChhHHHHHHHHHHHccCCCC-HHhHHHHHHHH----------HhcCcHHHHHHHHHHHHhccc-ccCCchhHHH
Q 048394          327 ALAKLNAIDILKQCFEEWESRCSSYD-MRLADVIIRAY----------LQKDMYEEAALIFNNAKKRAN-ASARFFKSRE  394 (485)
Q Consensus       327 ~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~----------~~~~~~~~A~~~~~~~~~~~~-~~~p~~~~~~  394 (485)
                      ++...++.+.+...|++.+..++... ..+.....+.+          .+.|++.+|.+.|.+.+..+. ...|+...|.
T Consensus       212 ~~yy~~~~~ka~~hf~qal~ldpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~  291 (486)
T KOG0550|consen  212 CLYYNDNADKAINHFQQALRLDPDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYG  291 (486)
T ss_pred             ccccccchHHHHHHHhhhhccChhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHH
Confidence            34445556666666665555432210 11111122221          234555566666655554421 0011222233


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCcc-HHHHHHHHHHHhhcCChhhHHHHHHHHhhcC
Q 048394          395 SFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPM-QVTVDTFFRFFEEEKDVDGAEEFCKVLKSLN  459 (485)
Q Consensus       395 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  459 (485)
                      .......+.|+..+|+.-.++..+..      +. ...+..-..++.-.++|++|.+-++++.+..
T Consensus       292 nra~v~~rLgrl~eaisdc~~Al~iD------~syikall~ra~c~l~le~~e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  292 NRALVNIRLGRLREAISDCNEALKID------SSYIKALLRRANCHLALEKWEEAVEDYEKAMQLE  351 (486)
T ss_pred             HhHhhhcccCCchhhhhhhhhhhhcC------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            33334445566666665555554431      11 1111111234444555666666666555543

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.22  E-value=5.9e-05  Score=69.00  Aligned_cols=102  Identities=10%  Similarity=-0.072  Sum_probs=54.5

Q ss_pred             HHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhc
Q 048394          363 YLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEE  442 (485)
Q Consensus       363 ~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  442 (485)
                      +...|++++|...|+++++.+   +.+...|..+..+|.+.|++++|+..+++++..     .+.+...|..+..+|...
T Consensus        12 a~~~~~~~~Ai~~~~~Al~~~---P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l-----~P~~~~a~~~lg~~~~~l   83 (356)
T PLN03088         12 AFVDDDFALAVDLYTQAIDLD---PNNAELYADRAQANIKLGNFTEAVADANKAIEL-----DPSLAKAYLRKGTACMKL   83 (356)
T ss_pred             HHHcCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CcCCHHHHHHHHHHHHHh
Confidence            344455555555555555543   223344445555555555556665555555554     223444555555555555


Q ss_pred             CChhhHHHHHHHHhhcCCCCHHHHHHHHHH
Q 048394          443 KDVDGAEEFCKVLKSLNCLDFSAYSLLIKT  472 (485)
Q Consensus       443 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  472 (485)
                      |++++|...|+++++..|.++.....+..+
T Consensus        84 g~~~eA~~~~~~al~l~P~~~~~~~~l~~~  113 (356)
T PLN03088         84 EEYQTAKAALEKGASLAPGDSRFTKLIKEC  113 (356)
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            566666666655555555555555444444

>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=98.18  E-value=4.6e-05  Score=54.88  Aligned_cols=88  Identities=24%  Similarity=0.250  Sum_probs=37.7

Q ss_pred             HHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCCh
Q 048394          221 MQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNL  300 (485)
Q Consensus       221 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  300 (485)
                      ...+...|++++|...++.+.+  ..+.+...+..+..++...+++++|...++......+.+..++..+...+...|++
T Consensus         7 a~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (100)
T cd00189           7 GNLYYKLGDYDEALEYYEKALE--LDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKY   84 (100)
T ss_pred             HHHHHHHhcHHHHHHHHHHHHh--cCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHhH
Confidence            3334444444444444444443  22222233344444444444444444444444443333334444444444444444


Q ss_pred             hhHHHHHHHh
Q 048394          301 DAVNRVWGIL  310 (485)
Q Consensus       301 ~~a~~~~~~~  310 (485)
                      +.|...+...
T Consensus        85 ~~a~~~~~~~   94 (100)
T cd00189          85 EEALEAYEKA   94 (100)
T ss_pred             HHHHHHHHHH
Confidence            4444444443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.17  E-value=4.7e-05  Score=58.72  Aligned_cols=96  Identities=10%  Similarity=-0.092  Sum_probs=74.4

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHH
Q 048394          356 ADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTF  435 (485)
Q Consensus       356 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l  435 (485)
                      .-.+..-+...|++++|..+|+-+...+   +-+..-|..|...+-..|++.+|+..|......     .+.|+..+-.+
T Consensus        38 lY~~A~~ly~~G~l~~A~~~f~~L~~~D---p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L-----~~ddp~~~~~a  109 (157)
T PRK15363         38 LYRYAMQLMEVKEFAGAARLFQLLTIYD---AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQI-----KIDAPQAPWAA  109 (157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC---cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-----CCCCchHHHHH
Confidence            3345566778889999999988887764   345556667777777888899999999888887     34567778888


Q ss_pred             HHHHhhcCChhhHHHHHHHHhhcC
Q 048394          436 FRFFEEEKDVDGAEEFCKVLKSLN  459 (485)
Q Consensus       436 ~~~~~~~~~~~~A~~~~~~~~~~~  459 (485)
                      ..++...|+.+.|.+.|+.++...
T Consensus       110 g~c~L~lG~~~~A~~aF~~Ai~~~  133 (157)
T PRK15363        110 AECYLACDNVCYAIKALKAVVRIC  133 (157)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHh
Confidence            888888899999998888888755

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.16  E-value=2.7e-06  Score=48.14  Aligned_cols=33  Identities=27%  Similarity=0.399  Sum_probs=27.9

Q ss_pred             hHHHHHHHHHhCCCcccHHHHHHHHHHcCCCcc
Q 048394          181 AFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLD  213 (485)
Q Consensus       181 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  213 (485)
                      +||.++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            688888888888888888888888888888876

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.

>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=98.16  E-value=4.3e-05  Score=55.04  Aligned_cols=93  Identities=20%  Similarity=0.220  Sum_probs=54.1

Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCC
Q 048394          254 SNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNA  333 (485)
Q Consensus       254 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  333 (485)
                      ..++..+...|++++|...++.+.+..|.+...+..+...+...+++++|...++......+.+...+..+...+...|+
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGK   83 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHh
Confidence            34555556666666666666666655554555555666666666666666666666555555444455555555555555


Q ss_pred             hhHHHHHHHHHHH
Q 048394          334 IDILKQCFEEWES  346 (485)
Q Consensus       334 ~~~a~~~~~~~~~  346 (485)
                      .+.|...+....+
T Consensus        84 ~~~a~~~~~~~~~   96 (100)
T cd00189          84 YEEALEAYEKALE   96 (100)
T ss_pred             HHHHHHHHHHHHc
Confidence            5555555555443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.15  E-value=3.5e-06  Score=47.29  Aligned_cols=32  Identities=38%  Similarity=0.450  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCC
Q 048394          146 TYGALLNCYCKELMTERALALFEKMDELKFLG  177 (485)
Q Consensus       146 ~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p  177 (485)
                      +|+.++.+|++.|+++.|.++|+.|.+.|++|
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            55566666666666666666666666555554

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.15  E-value=4.8e-06  Score=58.48  Aligned_cols=79  Identities=10%  Similarity=0.021  Sum_probs=38.7

Q ss_pred             cCcHHHHHHHHHHHHhcccccCC---chhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhc
Q 048394          366 KDMYEEAALIFNNAKKRANASAR---FFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEE  442 (485)
Q Consensus       366 ~~~~~~A~~~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  442 (485)
                      .|+++.|+.+++++.+.    .|   +...+..+..+|.+.|++++|+.++++ ...+     +.+......+..++.+.
T Consensus         2 ~~~y~~Ai~~~~k~~~~----~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-----~~~~~~~~l~a~~~~~l   71 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLEL----DPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-----PSNPDIHYLLARCLLKL   71 (84)
T ss_dssp             TT-HHHHHHHHHHHHHH----HCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-----HCHHHHHHHHHHHHHHT
T ss_pred             CccHHHHHHHHHHHHHH----CCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-----CCCHHHHHHHHHHHHHh
Confidence            35556666666666555    33   223333355555666666666666655 2221     11223333334555666


Q ss_pred             CChhhHHHHHHH
Q 048394          443 KDVDGAEEFCKV  454 (485)
Q Consensus       443 ~~~~~A~~~~~~  454 (485)
                      |++++|++++++
T Consensus        72 ~~y~eAi~~l~~   83 (84)
T PF12895_consen   72 GKYEEAIKALEK   83 (84)
T ss_dssp             T-HHHHHHHHHH
T ss_pred             CCHHHHHHHHhc
Confidence            666666655554

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.15  E-value=0.0001  Score=55.82  Aligned_cols=60  Identities=13%  Similarity=0.137  Sum_probs=24.5

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCC---ChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCC
Q 048394          256 LASIYVKAELFEKAELALKKLEEMKPR---DRKAYHFLISLYCNTSNLDAVNRVWGILKSTFP  315 (485)
Q Consensus       256 l~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  315 (485)
                      ++.++.+.|+++.|...++.+....|.   ...++..+..++.+.|++++|...++++....|
T Consensus        45 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p  107 (119)
T TIGR02795        45 LGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQVIKRYP  107 (119)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCChHHHHHHHHHHHHHCc
Confidence            444444444444444444444432221   123333444444444444444444444444433

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.

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.14  E-value=0.0004  Score=61.53  Aligned_cols=147  Identities=16%  Similarity=0.099  Sum_probs=82.8

Q ss_pred             HHHHHHHHhc-CChhHHHHHHHHHHHccC---CC--CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhccccc---CCchh-
Q 048394          322 LVLLQALAKL-NAIDILKQCFEEWESRCS---SY--DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANAS---ARFFK-  391 (485)
Q Consensus       322 ~~l~~~~~~~-~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~---~p~~~-  391 (485)
                      ..+...|... |+++.|.+.|++..+.-.   .+  -..++..+...+.+.|++++|..+|+++.......   ..+.. 
T Consensus       118 ~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~  197 (282)
T PF14938_consen  118 KELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKE  197 (282)
T ss_dssp             HHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHH
Confidence            3456667776 888888888887755311   11  13456677888899999999999999887643200   11111 


Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHH
Q 048394          392 SRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLL  469 (485)
Q Consensus       392 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  469 (485)
                      .|-..+-.+...||...|...+++.....+.............|+.++. .||.+.....+...-...+.|+.--..|
T Consensus       198 ~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~-~~D~e~f~~av~~~d~~~~ld~w~~~~l  274 (282)
T PF14938_consen  198 YFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYE-EGDVEAFTEAVAEYDSISRLDNWKTKML  274 (282)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHH-TT-CCCHHHHCHHHTTSS---HHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHH-hCCHHHHHHHHHHHcccCccHHHHHHHH
Confidence            1222333556788999999999998776422222233456666777654 4555555555555444444444433333

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.12  E-value=3.8e-06  Score=47.15  Aligned_cols=33  Identities=21%  Similarity=0.436  Sum_probs=26.4

Q ss_pred             hhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCc
Q 048394          180 VAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISL  212 (485)
Q Consensus       180 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p  212 (485)
                      .+|+.++.+|++.|+++.|.++|++|++.|++|
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            478888888888888888888888888877776

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.11  E-value=0.0014  Score=56.39  Aligned_cols=179  Identities=15%  Similarity=0.149  Sum_probs=105.3

Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCChHHH---HHHHHHHHhcCChhhHHHHHHHhhhcCCC-ChhhHHHHHHHHHh
Q 048394          255 NLASIYVKAELFEKAELALKKLEEMKPRDRKAY---HFLISLYCNTSNLDAVNRVWGILKSTFPP-TNTSYLVLLQALAK  330 (485)
Q Consensus       255 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~  330 (485)
                      .....+...|++++|.+.|+.+....|.+....   ..++.++.+.+++++|...+++..+..|. ....+...+.+.+.
T Consensus        37 ~~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         37 ATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTN  116 (243)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhh
Confidence            345555667778888888777777555444433   45566777778888888888877777776 33344333333321


Q ss_pred             --cC---------------C---hhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCch
Q 048394          331 --LN---------------A---IDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFF  390 (485)
Q Consensus       331 --~~---------------~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~  390 (485)
                        .+               |   ...|.+.|+.+++.               |=...-..+|...+..+...=-     .
T Consensus       117 ~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~---------------yP~S~ya~~A~~rl~~l~~~la-----~  176 (243)
T PRK10866        117 MALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG---------------YPNSQYTTDATKRLVFLKDRLA-----K  176 (243)
T ss_pred             hhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH---------------CcCChhHHHHHHHHHHHHHHHH-----H
Confidence              11               1   12233444444433               3333334455544444433210     0


Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHh
Q 048394          391 KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLK  456 (485)
Q Consensus       391 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  456 (485)
                      .-+ .+...|.+.|.+..|+.-++.+++.-  |+.+........++.+|...|..++|..+...+.
T Consensus       177 ~e~-~ia~~Y~~~~~y~AA~~r~~~v~~~Y--p~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        177 YEL-SVAEYYTKRGAYVAVVNRVEQMLRDY--PDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHH-HHHHHHHHcCchHHHHHHHHHHHHHC--CCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            111 44566888889999999999988874  2223344566677788888898888888776554

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.10  E-value=0.00016  Score=63.80  Aligned_cols=131  Identities=12%  Similarity=0.061  Sum_probs=79.6

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHH-HHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHH
Q 048394          285 KAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQA-LAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAY  363 (485)
Q Consensus       285 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  363 (485)
                      .+|..++...-+.+..+.|..+|.+..+....+...|...+.. +...++.+.|.++|+...+.-.. +...|...++.+
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~-~~~~~~~Y~~~l   80 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPS-DPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT--HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHH
Confidence            4566677777777777777777777764444345555544444 22345566677777777665333 666677777777


Q ss_pred             HhcCcHHHHHHHHHHHHhcccccCCc---hhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          364 LQKDMYEEAALIFNNAKKRANASARF---FKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       364 ~~~~~~~~A~~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      ...|+.+.|..+|++.... +  .++   ...|...+..=.+.|+.+.+.++.+++.+.
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l--~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-L--PKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-S--SCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh-c--CchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            7777777777777776654 2  221   236666666666777777777777777665

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.

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.09  E-value=0.00027  Score=57.47  Aligned_cols=114  Identities=17%  Similarity=0.066  Sum_probs=57.4

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCc--hhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHH
Q 048394          355 LADVIIRAYLQKDMYEEAALIFNNAKKRANASARF--FKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTV  432 (485)
Q Consensus       355 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  432 (485)
                      .+..+...+...|++++|...|++..+...  .++  ...+..+...+.+.|++++|...+++.++.     .+.+...+
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~-----~p~~~~~~  109 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEE--DPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL-----NPKQPSAL  109 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhh--ccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CcccHHHH
Confidence            344444455555555555555555544321  111  234444455555555555555555555554     22233344


Q ss_pred             HHHHHHHhhcCC--------------hhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCC
Q 048394          433 DTFFRFFEEEKD--------------VDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGK  478 (485)
Q Consensus       433 ~~l~~~~~~~~~--------------~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  478 (485)
                      ..+..++...|+              +++|.++++++.+.+|.+   +..++..+...|+
T Consensus       110 ~~lg~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~~  166 (172)
T PRK02603        110 NNIAVIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcCc
Confidence            444444444443              466777777777766655   4444454444444

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.09  E-value=9.4e-05  Score=57.09  Aligned_cols=94  Identities=6%  Similarity=-0.060  Sum_probs=59.9

Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCC
Q 048394          254 SNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNA  333 (485)
Q Consensus       254 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  333 (485)
                      -.+...+...|++++|..+|+.+...+|.+..-|..|.-++-..|++++|+..|.......+.++..+-.+..++...|+
T Consensus        39 Y~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L~lG~  118 (157)
T PRK15363         39 YRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYLACDN  118 (157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHcCC
Confidence            33455555666666666666666666666666666666666666666666666666666665566666666666666666


Q ss_pred             hhHHHHHHHHHHHc
Q 048394          334 IDILKQCFEEWESR  347 (485)
Q Consensus       334 ~~~a~~~~~~~~~~  347 (485)
                      .+.|.+.|+.....
T Consensus       119 ~~~A~~aF~~Ai~~  132 (157)
T PRK15363        119 VCYAIKALKAVVRI  132 (157)
T ss_pred             HHHHHHHHHHHHHH
Confidence            66666666655443

>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=98.06  E-value=2.2e-05  Score=52.52  Aligned_cols=66  Identities=20%  Similarity=0.130  Sum_probs=53.8

Q ss_pred             HhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHH
Q 048394          401 LRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIK  471 (485)
Q Consensus       401 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  471 (485)
                      .+.|++++|++.|+++...     .+.+...+..+..+|.+.|++++|.++++++....|.++..+..+++
T Consensus         2 l~~~~~~~A~~~~~~~l~~-----~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~l~a~   67 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQR-----NPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEYQQLLAQ   67 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHH-----TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHH-----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHHHHHHhc
Confidence            5678999999999999887     45577788888899999999999999999999988887766666543

...

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.04  E-value=0.0018  Score=55.63  Aligned_cols=176  Identities=10%  Similarity=-0.054  Sum_probs=112.0

Q ss_pred             ChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhH---HHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHH
Q 048394          283 DRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSY---LVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVI  359 (485)
Q Consensus       283 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  359 (485)
                      +...+-.....+...|++++|...|+.+....|.+....   ..++.++.+.++++.|...+++..+..+.....-+...
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y  110 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLY  110 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHH
Confidence            344444556666778888888888888888777644333   55677778888888888888888876554333333333


Q ss_pred             HHHHHh--cC---------------c---HHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          360 IRAYLQ--KD---------------M---YEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       360 ~~~~~~--~~---------------~---~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      ..+.+.  .+               +   ..+|...|+++++.    -|+..-             ..+|...+..+...
T Consensus       111 ~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~----yP~S~y-------------a~~A~~rl~~l~~~  173 (243)
T PRK10866        111 MRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG----YPNSQY-------------TTDATKRLVFLKDR  173 (243)
T ss_pred             HHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH----CcCChh-------------HHHHHHHHHHHHHH
Confidence            333221  11               1   23455566666655    454321             23333333333222


Q ss_pred             hhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCC---CHHHHHHHHHHHHHhCCCcchh
Q 048394          420 AKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL---DFSAYSLLIKTYIAAGKLASDM  483 (485)
Q Consensus       420 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~  483 (485)
                             .-... ..+..-|.+.|.+..|..-++.+++..|.   ...+...++.+|...|..++|-
T Consensus       174 -------la~~e-~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~  232 (243)
T PRK10866        174 -------LAKYE-LSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQAD  232 (243)
T ss_pred             -------HHHHH-HHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHH
Confidence                   00111 24556788999999999999999998775   5678899999999999988874

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.04  E-value=7.5e-05  Score=68.40  Aligned_cols=120  Identities=13%  Similarity=0.119  Sum_probs=83.3

Q ss_pred             CCChhhHHHHHHHHHhhCCHHHHHHHHHhhccc----CCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHH
Q 048394          108 HFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEY----AKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFN  183 (485)
Q Consensus       108 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~  183 (485)
                      +.+......+++.+....+++.+..++-+....    .--..+..++|+.|.+.|..++++.+++.=..-|+-||..++|
T Consensus        63 ~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n  142 (429)
T PF10037_consen   63 PVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFN  142 (429)
T ss_pred             CCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHH
Confidence            455556666677666666777777777666651    1112345577777777788888888777777777778888888


Q ss_pred             HHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhc
Q 048394          184 NLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHL  227 (485)
Q Consensus       184 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  227 (485)
                      .||..+.+.|++..|.++..+|...+.-.+..|+...+.+|.+.
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            88888888888888887777777666666666666666665554

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=98.04  E-value=0.00036  Score=61.53  Aligned_cols=145  Identities=17%  Similarity=0.118  Sum_probs=108.4

Q ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHh-cCChhhHHHHHHHhhhcCCCChhhHHHHHHHHH
Q 048394          251 TTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCN-TSNLDAVNRVWGILKSTFPPTNTSYLVLLQALA  329 (485)
Q Consensus       251 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  329 (485)
                      .+|..++...-+.+..+.|..+|.++.+....+...|...+..-.. .++.+.|..+|+...+..+.+...|...++.+.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~l~   81 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDFLI   81 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            4677888888888999999999999986544456667666666344 567777999999999888888888899999999


Q ss_pred             hcCChhHHHHHHHHHHHccCCCC---HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHH
Q 048394          330 KLNAIDILKQCFEEWESRCSSYD---MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYY  400 (485)
Q Consensus       330 ~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~  400 (485)
                      ..++.+.|..+|+..... +.++   ...|...++.-.+.|+.+.+..+.+++.+.    .|+......+++-|
T Consensus        82 ~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~----~~~~~~~~~f~~ry  150 (280)
T PF05843_consen   82 KLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL----FPEDNSLELFSDRY  150 (280)
T ss_dssp             HTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH----TTTS-HHHHHHCCT
T ss_pred             HhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH----hhhhhHHHHHHHHh
Confidence            999999999999998765 2222   358888888888899999999999988876    55544444444433

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.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.00  E-value=0.017  Score=55.63  Aligned_cols=402  Identities=10%  Similarity=0.030  Sum_probs=196.7

Q ss_pred             CCchhHHHHHHhhcCCCCcHHHHHHHHHH------------hCCCCCHHHHHHHHHH------HHHcCChHHHHHHHHHH
Q 048394           41 GNEDKLYKRLSALGATGGSVTGALNAYIM------------EGKTVRKDMLEYCVRS------LRKFGRYRHALEVIEWM  102 (485)
Q Consensus        41 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~~------------~g~~~~~~~~~~l~~~------~~~~~~~~~A~~~~~~~  102 (485)
                      .+-..||++..+.....+...+.+..+++            .+..-.+..-..++++      +.+..++++-..+...+
T Consensus       336 ePgA~L~eA~q~~e~~S~kade~L~~~~e~L~~aV~~CI~aA~~ef~pe~QK~LL~AAsfGk~~l~~~~~d~~~~v~~~l  415 (829)
T KOG2280|consen  336 EPGALLYEAFQKMEQKSGKADEYLSEIREDLYKAVDDCIEAACDEFQPEEQKSLLRAASFGKASLRTPNPDEYMRVCREL  415 (829)
T ss_pred             CchHHHHHHHHHHhhcchhhHHHHHHHHHHHHHHHHHHHHHhhhccCHHHHHHHHHHHhhcccccccCChHHHHHHHHHH
Confidence            35667888887777777777666666552            2223333333344433      23444555554444433


Q ss_pred             --------HhCCCCCChhhHHH-----HHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcH--HHHHHH
Q 048394          103 --------ESRKMHFSYTDFAV-----YLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMT--ERALAL  166 (485)
Q Consensus       103 --------~~~~~~~~~~~~~~-----l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~--~~A~~~  166 (485)
                              ...|++.+..-|..     +++-+...+.+..|.++-..+.. ...+..+|.....-+.+..+.  +++.+.
T Consensus       416 rVln~~r~~~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~~~Vl~~Wa~~kI~~~d~~d~~vld~  495 (829)
T KOG2280|consen  416 RVLNALRDVRIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQGDRVLLEWARRKIKQSDKMDEEVLDK  495 (829)
T ss_pred             HHHhhhcccccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccccHHHHHHHHHHHhccCccchHHHHH
Confidence                    34566666665544     35666667778888887776655 111256666666666665322  223333


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCC----ccHHHHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048394          167 FEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNIS----LDNLTYIVWMQSYSHLNDIDGVERVFYEMCN  242 (485)
Q Consensus       167 ~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~----p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  242 (485)
                      .++=...... ...+|..+.+-....|+++-|..+++.=...+..    .+..-+...+.-+...|+.+....++-.+.+
T Consensus       496 I~~kls~~~~-~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~  574 (829)
T KOG2280|consen  496 IDEKLSAKLT-PGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKN  574 (829)
T ss_pred             HHHHhcccCC-CceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHH
Confidence            3322222123 3446777777677788888777766432211100    0111223334444455555555554444433


Q ss_pred             ccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHh-cCCCChHHHHHHHHHHHhcCChhhHHHHHH--Hhhhc-CCC-C
Q 048394          243 ECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEE-MKPRDRKAYHFLISLYCNTSNLDAVNRVWG--ILKST-FPP-T  317 (485)
Q Consensus       243 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~-~~~-~  317 (485)
                        ...  ..      +......+.-.|..++..+.+ .+..      .+-+.|- .++-..+...|.  ..... ... -
T Consensus       575 --~~~--~s------~l~~~l~~~p~a~~lY~~~~r~~~~~------~l~d~y~-q~dn~~~~a~~~~q~~~~~~~~~~r  637 (829)
T KOG2280|consen  575 --KLN--RS------SLFMTLRNQPLALSLYRQFMRHQDRA------TLYDFYN-QDDNHQALASFHLQASYAAETIEGR  637 (829)
T ss_pred             --HHH--HH------HHHHHHHhchhhhHHHHHHHHhhchh------hhhhhhh-cccchhhhhhhhhhhhhhhhhhccc
Confidence              000  00      000111122223333333222 1110      0111111 111111111111  10000 000 1


Q ss_pred             hhhHHHHHHHHHhcCChhH----------HHHHHHHHH-HccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhccccc
Q 048394          318 NTSYLVLLQALAKLNAIDI----------LKQCFEEWE-SRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANAS  386 (485)
Q Consensus       318 ~~~~~~l~~~~~~~~~~~~----------a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  386 (485)
                      ........+++.+.....-          -.++.+.+. +.|..-..-+.+--+.-+...|+..+|.++-.+.+      
T Consensus       638 ~~~lk~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk------  711 (829)
T KOG2280|consen  638 IPALKTAANAFAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK------  711 (829)
T ss_pred             chhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC------
Confidence            1222233344443333111          111111221 11222233344445556677788888888776665      


Q ss_pred             CCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHH
Q 048394          387 ARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAY  466 (485)
Q Consensus       387 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  466 (485)
                      -||...|..-+.+++..+++++-.++-+...          ++.-|..++.+|.+.|+.++|.+++-++...    +   
T Consensus       712 ipdKr~~wLk~~aLa~~~kweeLekfAkskk----------sPIGy~PFVe~c~~~~n~~EA~KYiprv~~l----~---  774 (829)
T KOG2280|consen  712 IPDKRLWWLKLTALADIKKWEELEKFAKSKK----------SPIGYLPFVEACLKQGNKDEAKKYIPRVGGL----Q---  774 (829)
T ss_pred             CcchhhHHHHHHHHHhhhhHHHHHHHHhccC----------CCCCchhHHHHHHhcccHHHHhhhhhccCCh----H---
Confidence            6777778777888888888877665544432          2445666888888888888888887655332    1   


Q ss_pred             HHHHHHHHHhCCCcchhc
Q 048394          467 SLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       467 ~~l~~~~~~~g~~~~A~~  484 (485)
                       ..+.+|.+.|++.+|.+
T Consensus       775 -ekv~ay~~~~~~~eAad  791 (829)
T KOG2280|consen  775 -EKVKAYLRVGDVKEAAD  791 (829)
T ss_pred             -HHHHHHHHhccHHHHHH
Confidence             56777888888777753

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.99  E-value=3.9e-05  Score=50.70  Aligned_cols=63  Identities=14%  Similarity=0.032  Sum_probs=48.6

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCH
Q 048394          396 FMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDF  463 (485)
Q Consensus       396 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~  463 (485)
                      +...+.+.|++++|...|+++++.     .+-+...+..+..++...|++++|..+|+++++..|.++
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~-----~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQ-----DPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCC-----STTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH-----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            345677888888888888888887     444677788888888888888888888888888887764

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.99  E-value=0.00027  Score=64.73  Aligned_cols=94  Identities=16%  Similarity=0.088  Sum_probs=45.4

Q ss_pred             HHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHH
Q 048394          189 YLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEK  268 (485)
Q Consensus       189 ~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  268 (485)
                      +...|++++|++.|++.++.. +-+...|..+..+|...|++++|+..++.+..  ..+.+...|..+..+|...|++++
T Consensus        12 a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~--l~P~~~~a~~~lg~~~~~lg~~~e   88 (356)
T PLN03088         12 AFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIE--LDPSLAKAYLRKGTACMKLEEYQT   88 (356)
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCcCCHHHHHHHHHHHHHhCCHHH
Confidence            344455555555555555432 12334444444455555555555555555544  333344444455555555555555


Q ss_pred             HHHHHHHHHhcCCCChH
Q 048394          269 AELALKKLEEMKPRDRK  285 (485)
Q Consensus       269 A~~~~~~~~~~~~~~~~  285 (485)
                      |...|++.....|.+..
T Consensus        89 A~~~~~~al~l~P~~~~  105 (356)
T PLN03088         89 AKAALEKGASLAPGDSR  105 (356)
T ss_pred             HHHHHHHHHHhCCCCHH
Confidence            55555555554443333

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.98  E-value=2.6e-05  Score=54.73  Aligned_cols=80  Identities=13%  Similarity=0.145  Sum_probs=32.2

Q ss_pred             CCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHH
Q 048394          228 NDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVW  307 (485)
Q Consensus       228 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  307 (485)
                      |+++.|+.+++.+.+.....++...+..++.+|.+.|++++|..+++. .+..+.+......+..++.+.|++++|+.++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~l   81 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKAL   81 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            444445555554444111111222333344445555555555555444 2222222233333344444555555554444


Q ss_pred             H
Q 048394          308 G  308 (485)
Q Consensus       308 ~  308 (485)
                      +
T Consensus        82 ~   82 (84)
T PF12895_consen   82 E   82 (84)
T ss_dssp             H
T ss_pred             h
Confidence            3

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.98  E-value=0.00012  Score=52.36  Aligned_cols=80  Identities=9%  Similarity=0.082  Sum_probs=61.1

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhCCC-CCChhhHHHHHHHHHhCC--------CcccHHHHHHHHHHcCCCccHHHH
Q 048394          147 YGALLNCYCKELMTERALALFEKMDELKF-LGNTVAFNNLSTMYLRLG--------QPEKVRPLVNQMKQRNISLDNLTY  217 (485)
Q Consensus       147 ~~~li~~~~~~~~~~~A~~~~~~m~~~~~-~p~~~~~~~l~~~~~~~g--------~~~~a~~~~~~~~~~~~~p~~~~~  217 (485)
                      -...|..+...+++...-.+|+.+++.|+ .|+..+|+.++.+.++..        +.-..+.+|+.|...+++|+..+|
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etY  107 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETY  107 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHH
Confidence            34456666667888888889999998888 888889998888776643        233567778888888888888888


Q ss_pred             HHHHHHHHh
Q 048394          218 IVWMQSYSH  226 (485)
Q Consensus       218 ~~l~~~~~~  226 (485)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            888876654

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 [, , ].

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.98  E-value=0.0023  Score=56.73  Aligned_cols=92  Identities=14%  Similarity=0.135  Sum_probs=44.6

Q ss_pred             HHHHhC-CCcccHHHHHHHHHHc----CCCcc--HHHHHHHHHHHHhcCCHhHHHHHHHHHHhccC----CCCcHH-HHH
Q 048394          187 TMYLRL-GQPEKVRPLVNQMKQR----NISLD--NLTYIVWMQSYSHLNDIDGVERVFYEMCNECE----DKCRWT-TYS  254 (485)
Q Consensus       187 ~~~~~~-g~~~~a~~~~~~~~~~----~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~-~~~  254 (485)
                      ..|-.. |++++|++.|++..+.    | .+.  ...+..+...+.+.|++++|.++|+++.....    ...+.. .+.
T Consensus       122 ~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l  200 (282)
T PF14938_consen  122 EIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFL  200 (282)
T ss_dssp             HHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHH
Confidence            344444 6667777666665432    2 111  22344555666677777777777776654111    111121 222


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhc
Q 048394          255 NLASIYVKAELFEKAELALKKLEEM  279 (485)
Q Consensus       255 ~l~~~~~~~~~~~~A~~~~~~~~~~  279 (485)
                      ..+-++...||...|...+++....
T Consensus       201 ~a~l~~L~~~D~v~A~~~~~~~~~~  225 (282)
T PF14938_consen  201 KAILCHLAMGDYVAARKALERYCSQ  225 (282)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHGTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            3333455556666666666666553

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.94  E-value=0.00082  Score=57.49  Aligned_cols=103  Identities=14%  Similarity=0.079  Sum_probs=64.8

Q ss_pred             cCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcC---ChhHHHHHHHHHHHccCCCCHHh
Q 048394          279 MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLN---AIDILKQCFEEWESRCSSYDMRL  355 (485)
Q Consensus       279 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~  355 (485)
                      ..|.|...|..|..+|...|+.+.|..-|....+..+++...+..+..++....   +..++..+|+++.+..+. |+..
T Consensus       151 ~nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~-~ira  229 (287)
T COG4235         151 QNPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPA-NIRA  229 (287)
T ss_pred             hCCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCc-cHHH
Confidence            556666777777777777777777777777666666666666665555554432   244566666666665444 5555


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhc
Q 048394          356 ADVIIRAYLQKDMYEEAALIFNNAKKR  382 (485)
Q Consensus       356 ~~~l~~~~~~~~~~~~A~~~~~~~~~~  382 (485)
                      ...|...+...|++.+|...|+.|.+.
T Consensus       230 l~lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         230 LSLLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            555666666666666666666666665

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.93  E-value=0.015  Score=52.61  Aligned_cols=377  Identities=11%  Similarity=0.057  Sum_probs=205.9

Q ss_pred             CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHH
Q 048394           71 GKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGAL  150 (485)
Q Consensus        71 g~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~l  150 (485)
                      ..|.|..+|..++.-+...+..++..+++++|..-- +.-...|...+..-...+++...+.+|.+......+...|...
T Consensus        37 dNPtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~pf-p~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l~ldLW~lY  115 (660)
T COG5107          37 DNPTNILSYFQLIQYLETQESMDAEREMYEQLSSPF-PIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSLNLDLWMLY  115 (660)
T ss_pred             cCchhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCC-ccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhccHhHHHHH
Confidence            346778899999999999999999999999986542 3445567777776667789999999999888755567777776


Q ss_pred             HHHHHhcC-----cH-HHHHHHHHHHHh-CCCCCCh-hhHHHHHHHHH---hCC------CcccHHHHHHHHHHcCCCcc
Q 048394          151 LNCYCKEL-----MT-ERALALFEKMDE-LKFLGNT-VAFNNLSTMYL---RLG------QPEKVRPLVNQMKQRNISLD  213 (485)
Q Consensus       151 i~~~~~~~-----~~-~~A~~~~~~m~~-~~~~p~~-~~~~~l~~~~~---~~g------~~~~a~~~~~~~~~~~~~p~  213 (485)
                      +.---+.+     +- ....+.|+-... .++.|-. ..|+..+...-   ..|      +.|.....|.+|+.--+..=
T Consensus       116 l~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~ral~tP~~nl  195 (660)
T COG5107         116 LEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYMRALQTPMGNL  195 (660)
T ss_pred             HHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHcCccccH
Confidence            65443322     11 112223332222 3333322 23444333221   122      23344444544443211000


Q ss_pred             HHHH------HHHHHHH-Hh--cC----CHhHHHHHHHHHHhc-----------------------------------c-
Q 048394          214 NLTY------IVWMQSY-SH--LN----DIDGVERVFYEMCNE-----------------------------------C-  244 (485)
Q Consensus       214 ~~~~------~~l~~~~-~~--~~----~~~~a~~~~~~~~~~-----------------------------------~-  244 (485)
                      ...|      ..=++.. ++  .|    -+-.|.+.++++...                                   . 
T Consensus       196 eklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~WlNwIkwE~en~  275 (660)
T COG5107         196 EKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSDSNWLNWIKWEMENG  275 (660)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccccchhhhHhhHhhcCC
Confidence            0000      0000000 00  00    011222222222110                                   0 


Q ss_pred             ---------------------CCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhH
Q 048394          245 ---------------------EDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAV  303 (485)
Q Consensus       245 ---------------------~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  303 (485)
                                           -.+....+|----.-+...+|-..|+..........|   .....+...|.-.++-+.+
T Consensus       276 l~L~~~~~~qRi~y~~~q~~~y~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~sp---sL~~~lse~yel~nd~e~v  352 (660)
T COG5107         276 LKLGGRPHEQRIHYIHNQILDYFYYAEEVWFDYSEYLIGISDKQKALKTVERGIEMSP---SLTMFLSEYYELVNDEEAV  352 (660)
T ss_pred             cccCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccCCC---chheeHHHHHhhcccHHHH
Confidence                                 0111111111111122234555556555554322222   2222222333333333333


Q ss_pred             HHHHHHhhh--------------cC----C------------CChhhHHHHHHHHHhcCChhHHHHHHHHHHHcc-CCCC
Q 048394          304 NRVWGILKS--------------TF----P------------PTNTSYLVLLQALAKLNAIDILKQCFEEWESRC-SSYD  352 (485)
Q Consensus       304 ~~~~~~~~~--------------~~----~------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~  352 (485)
                      ...|+...+              .+    +            .-..+|..+++...+..-++.|..+|.+..+.+ ..++
T Consensus       353 ~~~fdk~~q~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~  432 (660)
T COG5107         353 YGCFDKCTQDLKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHH  432 (660)
T ss_pred             hhhHHHHHHHHHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcc
Confidence            332222110              00    1            012345556666667777888889999888887 6678


Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHH-HHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCcc--H
Q 048394          353 MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSR-ESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPM--Q  429 (485)
Q Consensus       353 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~--~  429 (485)
                      +.++++++..++. |+..-|..+|+--...    -||...| +-.+..+..-++-..|..+|+..+..     +..+  .
T Consensus       433 vyi~~A~~E~~~~-~d~~ta~~ifelGl~~----f~d~~~y~~kyl~fLi~inde~naraLFetsv~r-----~~~~q~k  502 (660)
T COG5107         433 VYIYCAFIEYYAT-GDRATAYNIFELGLLK----FPDSTLYKEKYLLFLIRINDEENARALFETSVER-----LEKTQLK  502 (660)
T ss_pred             eeeeHHHHHHHhc-CCcchHHHHHHHHHHh----CCCchHHHHHHHHHHHHhCcHHHHHHHHHHhHHH-----HHHhhhh
Confidence            8888888886664 7788888888765544    4555444 34455567788888888888877665     4444  5


Q ss_pred             HHHHHHHHHHhhcCChhhHHHHHHHHhhcCCC
Q 048394          430 VTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL  461 (485)
Q Consensus       430 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  461 (485)
                      .+|..+|..-..-|+...+..+-+++.+..|.
T Consensus       503 ~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQ  534 (660)
T COG5107         503 RIYDKMIEYESMVGSLNNVYSLEERFRELVPQ  534 (660)
T ss_pred             HHHHHHHHHHHhhcchHHHHhHHHHHHHHcCc
Confidence            68888888888888888888888888887765

>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=97.92  E-value=9.5e-05  Score=49.55  Aligned_cols=66  Identities=12%  Similarity=-0.017  Sum_probs=51.8

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcC-ChhhHHHHHHHHhhcCC
Q 048394          390 FKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEK-DVDGAEEFCKVLKSLNC  460 (485)
Q Consensus       390 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~~  460 (485)
                      ...|..+...+...|++++|+..|++.++.     .+.+...|..+..++...| ++++|.+.++++++..|
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~-----~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIEL-----DPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHH-----STTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-----CCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            456777777888888888888888888887     4456677788888888888 68888888888887765

...

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.90  E-value=0.00068  Score=64.95  Aligned_cols=137  Identities=12%  Similarity=0.009  Sum_probs=63.7

Q ss_pred             cCCCChHHHHHHHHHHHhcC-----ChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcC--------ChhHHHHHHHHHH
Q 048394          279 MKPRDRKAYHFLISLYCNTS-----NLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLN--------AIDILKQCFEEWE  345 (485)
Q Consensus       279 ~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~  345 (485)
                      ..|.+..+|...+++.....     +...|..+|++..+..|.....+..+..++....        ++..+.+......
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~  411 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIV  411 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhh
Confidence            34455666666666543322     2446666666666666665555544433332211        1112222222211


Q ss_pred             Hc-cCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          346 SR-CSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       346 ~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      .. ....+...|.++.-.....|++++|...++++.+.    .|+...|..+...+...|+.++|.+.+++....
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L----~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDL----EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            11 01112344444444444445555555555555554    344445555555555555555555555555543

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.90  E-value=1.8e-05  Score=43.24  Aligned_cols=29  Identities=41%  Similarity=0.665  Sum_probs=18.4

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHhCC
Q 048394          146 TYGALLNCYCKELMTERALALFEKMDELK  174 (485)
Q Consensus       146 ~~~~li~~~~~~~~~~~A~~~~~~m~~~~  174 (485)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            56666666666666666666666666554

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.

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.89  E-value=0.00082  Score=54.67  Aligned_cols=81  Identities=7%  Similarity=-0.019  Sum_probs=34.9

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCC--C-ChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHH
Q 048394          253 YSNLASIYVKAELFEKAELALKKLEEMKP--R-DRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALA  329 (485)
Q Consensus       253 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  329 (485)
                      +..+...+...|++++|...|++..+..+  + ....+..+...+.+.|++++|...+.+.....+.+...+..+...+.
T Consensus        38 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~  117 (172)
T PRK02603         38 YYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVIYH  117 (172)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            33444444444444444444444443211  1 12344444444444444444444444444444334444444444444


Q ss_pred             hcCC
Q 048394          330 KLNA  333 (485)
Q Consensus       330 ~~~~  333 (485)
                      ..|+
T Consensus       118 ~~g~  121 (172)
T PRK02603        118 KRGE  121 (172)
T ss_pred             HcCC
Confidence            4444

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.89  E-value=0.0024  Score=53.40  Aligned_cols=61  Identities=16%  Similarity=0.181  Sum_probs=32.6

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCC---CChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC
Q 048394          256 LASIYVKAELFEKAELALKKLEEMKP---RDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP  316 (485)
Q Consensus       256 l~~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  316 (485)
                      .+..+...|++++|...|+.+....|   --..+...++.++.+.|+++.|...+++..+..|.
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~   74 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPN   74 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC
Confidence            44445556666666666666665332   22344455556666666666666666666655555

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.89  E-value=0.00079  Score=54.57  Aligned_cols=102  Identities=14%  Similarity=-0.053  Sum_probs=57.0

Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCC--chhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHH
Q 048394          353 MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASAR--FFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQV  430 (485)
Q Consensus       353 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  430 (485)
                      ...|..++..+...|++++|...|++......  .|  ...++..+...+...|++++|+..+++....     .+....
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~--~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~-----~~~~~~  107 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEI--DPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER-----NPFLPQ  107 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccc--cchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CcCcHH
Confidence            34455555666666777777777776665422  21  1235566666666777777777777776654     223334


Q ss_pred             HHHHHHHHHh-------hcCChh-------hHHHHHHHHhhcCCC
Q 048394          431 TVDTFFRFFE-------EEKDVD-------GAEEFCKVLKSLNCL  461 (485)
Q Consensus       431 ~~~~l~~~~~-------~~~~~~-------~A~~~~~~~~~~~~~  461 (485)
                      .+..+...+.       ..|+++       +|..++++.....|+
T Consensus       108 ~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~a~~~~p~  152 (168)
T CHL00033        108 ALNNMAVICHYRGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPG  152 (168)
T ss_pred             HHHHHHHHHHHhhHHHHHcccHHHHHHHHHHHHHHHHHHHHhCcc
Confidence            4444444444       566655       444444455555554

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.89  E-value=0.0012  Score=63.28  Aligned_cols=142  Identities=12%  Similarity=0.018  Sum_probs=103.8

Q ss_pred             CCCChhhHHHHHHHHHhc-----CChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhc--------CcHHHHHHHHHHHH
Q 048394          314 FPPTNTSYLVLLQALAKL-----NAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQK--------DMYEEAALIFNNAK  380 (485)
Q Consensus       314 ~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~~A~~~~~~~~  380 (485)
                      .+.+...|...+.+....     ++.+.|..+|++..+..+. ....|..+..++...        .+...+.+...+..
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP~-~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~  411 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEPD-FTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIV  411 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhh
Confidence            334888888888876543     2377899999999998655 455555554444322        12344555555544


Q ss_pred             hcc-cccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcC
Q 048394          381 KRA-NASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLN  459 (485)
Q Consensus       381 ~~~-~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  459 (485)
                      ... .  ..+...|..+.-.....|++++|...++++++..      |+...|..+...+...|+.++|...++++..++
T Consensus       412 al~~~--~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~------ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        412 ALPEL--NVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE------MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             hcccC--cCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            431 2  3455677777666677899999999999999964      788899999999999999999999999999999


Q ss_pred             CCCHH
Q 048394          460 CLDFS  464 (485)
Q Consensus       460 ~~~~~  464 (485)
                      |.++.
T Consensus       484 P~~pt  488 (517)
T PRK10153        484 PGENT  488 (517)
T ss_pred             CCCch
Confidence            97663

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.88  E-value=0.0048  Score=51.66  Aligned_cols=56  Identities=13%  Similarity=0.156  Sum_probs=23.9

Q ss_pred             HHHHhcCChhhHHHHHHHhhhcCCC---ChhhHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048394          292 SLYCNTSNLDAVNRVWGILKSTFPP---TNTSYLVLLQALAKLNAIDILKQCFEEWESR  347 (485)
Q Consensus       292 ~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  347 (485)
                      ..+...|++++|...|+.+....|.   ...+...++.++.+.|+++.|...++...+.
T Consensus        13 ~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   13 LEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3344444555555555544444333   2233334444444445555555555444443

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.87  E-value=0.00035  Score=64.12  Aligned_cols=123  Identities=14%  Similarity=0.091  Sum_probs=76.5

Q ss_pred             cCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC---ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHh
Q 048394          279 MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP---TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRL  355 (485)
Q Consensus       279 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  355 (485)
                      ..+-+......+++.+....+.+.+..++-+.+.....   -..+..++++.|.+.|..+.+..+++.=...|+-||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            33445556666666666666666666666666554222   344555667777777777777777776666677777777


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhc
Q 048394          356 ADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRS  403 (485)
Q Consensus       356 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  403 (485)
                      +|.|++.+.+.|++..|.++...|...+.  ..+..|+..-+.+|.+-
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~--~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEE--FDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhc--cCCchHHHHHHHHHHHh
Confidence            77777777777777777777666665554  45555555545444443

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 [].

>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=97.86  E-value=0.0003  Score=57.04  Aligned_cols=61  Identities=20%  Similarity=0.279  Sum_probs=44.8

Q ss_pred             HHHHHhhcccCCCHhHHHHHHHHHHh-----cCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 048394          131 EKYFNGLSEYAKNRYTYGALLNCYCK-----ELMTERALALFEKMDELKFLGNTVAFNNLSTMYLR  191 (485)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~li~~~~~-----~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~  191 (485)
                      ...|+.......|..+|..++..|.+     .|.++=....+..|.+-|+.-|..+|+.|++.+=+
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK   99 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK   99 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC
Confidence            34455543344577777777777764     47788888888889999988899999999888754

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.86  E-value=0.013  Score=52.43  Aligned_cols=279  Identities=13%  Similarity=0.041  Sum_probs=150.9

Q ss_pred             hHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhC
Q 048394          113 DFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRL  192 (485)
Q Consensus       113 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  192 (485)
                      +|..+.......|+.+-|..+++.=+    +..-   =+-.+.+.|+.+.|   +.+..+.|- ||. +|..++..--+.
T Consensus         2 S~a~IA~~A~~~GR~~LA~~LL~~Ep----~~~~---qVplLL~m~e~e~A---L~kAi~SgD-~DL-i~~vLl~L~~~l   69 (319)
T PF04840_consen    2 SYAEIARKAYEEGRPKLATKLLELEP----RASK---QVPLLLKMGEDELA---LNKAIESGD-TDL-IYLVLLHLKRKL   69 (319)
T ss_pred             CHHHHHHHHHHcChHHHHHHHHHcCC----ChHH---HHHHHhcCCchHHH---HHHHHHcCC-ccH-HHHHHHHHHHhC
Confidence            35566666677888888887766443    2221   14445667777776   334455441 232 455555433322


Q ss_pred             CCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHH
Q 048394          193 GQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELA  272 (485)
Q Consensus       193 g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  272 (485)
                      .    .-+++. +...  .|..   ..+...|++..+.+.-..+|.+--+     ........+-.++. ..+.+.-...
T Consensus        70 ~----~s~f~~-il~~--~p~a---~~l~~~~~r~~~~~~L~~~y~q~d~-----~~~~a~~~l~~~~~-~~~~~~~~~~  133 (319)
T PF04840_consen   70 S----LSQFFK-ILNQ--NPVA---SNLYKKYCREQDRELLKDFYYQEDR-----FQELANLHLQEALS-QKDVEEKISF  133 (319)
T ss_pred             C----HHHHHH-HHHh--Ccch---HHHHHHHHHhccHHHHHHHHHhcch-----HHHHHHHHHHHHHh-CCChHHHHHH
Confidence            2    113333 3322  2332   2345556666666665555543221     11122222223322 2444444444


Q ss_pred             HHHHHh--cCCCChHHHHHHHHHHHhcCChhhHHHHHH---Hhhhc-CCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 048394          273 LKKLEE--MKPRDRKAYHFLISLYCNTSNLDAVNRVWG---ILKST-FPP-TNTSYLVLLQALAKLNAIDILKQCFEEWE  345 (485)
Q Consensus       273 ~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~---~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  345 (485)
                      +..+.+  ....+......++.         +-.++++   .+... +.. ...+.+..+.-+...|+...|.++-.+. 
T Consensus       134 L~~a~~~y~~~k~~~f~~~~~e---------~q~~Ll~~Q~~Le~~~~~~f~~~Sl~~Ti~~li~~~~~k~A~kl~k~F-  203 (319)
T PF04840_consen  134 LKQAQKLYSKSKNDAFEAKLIE---------EQIKLLEYQKELEEKYNTNFVGLSLNDTIRKLIEMGQEKQAEKLKKEF-  203 (319)
T ss_pred             HHHHHHHHHhcchhHHHHHHHH---------HHHHHHHHHHHHHHHhccchhcCCHHHHHHHHHHCCCHHHHHHHHHHc-
Confidence            444444  11112111122211         1122222   11111 111 3345566677777888887777775554 


Q ss_pred             HccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCC
Q 048394          346 SRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHW  425 (485)
Q Consensus       346 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  425 (485)
                         --|+...|...+.+++..++|++-..+...        .-.+.-|..++..|.+.|+..+|..++.++..       
T Consensus       204 ---kv~dkrfw~lki~aLa~~~~w~eL~~fa~s--------kKsPIGyepFv~~~~~~~~~~eA~~yI~k~~~-------  265 (319)
T PF04840_consen  204 ---KVPDKRFWWLKIKALAENKDWDELEKFAKS--------KKSPIGYEPFVEACLKYGNKKEASKYIPKIPD-------  265 (319)
T ss_pred             ---CCcHHHHHHHHHHHHHhcCCHHHHHHHHhC--------CCCCCChHHHHHHHHHCCCHHHHHHHHHhCCh-------
Confidence               235888888899999999999887776432        12237788899999999999999888877322       


Q ss_pred             CccHHHHHHHHHHHhhcCChhhHHHHHHH
Q 048394          426 RPMQVTVDTFFRFFEEEKDVDGAEEFCKV  454 (485)
Q Consensus       426 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  454 (485)
                             ..-+..|.+.|++.+|.+..-+
T Consensus       266 -------~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  266 -------EERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             -------HHHHHHHHHCCCHHHHHHHHHH
Confidence                   2345667788999888766544

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

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.85  E-value=0.00044  Score=56.06  Aligned_cols=26  Identities=19%  Similarity=-0.042  Sum_probs=10.8

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHh
Q 048394          253 YSNLASIYVKAELFEKAELALKKLEE  278 (485)
Q Consensus       253 ~~~l~~~~~~~~~~~~A~~~~~~~~~  278 (485)
                      +..+..+|...|++++|...+++...
T Consensus        75 ~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         75 LYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            33344444444444444444444433

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.85  E-value=0.00022  Score=63.04  Aligned_cols=282  Identities=11%  Similarity=0.044  Sum_probs=140.8

Q ss_pred             HHHhCCCcccHHHHHHHHHHcCCC---ccHHHHHHHHHHHHhcCCHhHHHHHHHHHHh---ccCC-CCcHHHHHHHHHHH
Q 048394          188 MYLRLGQPEKVRPLVNQMKQRNIS---LDNLTYIVWMQSYSHLNDIDGVERVFYEMCN---ECED-KCRWTTYSNLASIY  260 (485)
Q Consensus       188 ~~~~~g~~~~a~~~~~~~~~~~~~---p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~-~~~~~~~~~l~~~~  260 (485)
                      -+++.|+......+|+...+.|..   .=..+|..|.++|.-.+++++|+++...=..   .-+. .-....-..|.+.+
T Consensus        26 RLck~gdcraGv~ff~aA~qvGTeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtl  105 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQVGTEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTL  105 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHhcchHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchh
Confidence            367888888888888888887632   1233456666777777788888776542111   0011 11122223355666


Q ss_pred             HhcccHHHHHHHHHHHHh----cC--CCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCCh
Q 048394          261 VKAELFEKAELALKKLEE----MK--PRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAI  334 (485)
Q Consensus       261 ~~~~~~~~A~~~~~~~~~----~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  334 (485)
                      --.|.+++|.....+-..    ..  .....++..+...|...|+.-...         ++.+...++.=+     ...+
T Consensus       106 Kv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~---------~pee~g~f~~ev-----~~al  171 (639)
T KOG1130|consen  106 KVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLE---------APEEKGAFNAEV-----TSAL  171 (639)
T ss_pred             hhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCC---------ChhhcccccHHH-----HHHH
Confidence            666777777654433222    11  123344555555555544321100         000000000000     0012


Q ss_pred             hHHHHHHHHHHH----ccCC-CCHHhHHHHHHHHHhcCcHHHHHHHHHHHH----hcccccCCchhHHHHHHHHHHhccc
Q 048394          335 DILKQCFEEWES----RCSS-YDMRLADVIIRAYLQKDMYEEAALIFNNAK----KRANASARFFKSRESFMIYYLRSRQ  405 (485)
Q Consensus       335 ~~a~~~~~~~~~----~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~~~p~~~~~~~l~~~~~~~g~  405 (485)
                      +.|.++|.+=.+    .|-. .-...|..|...|.-.|+++.|+...+.-.    +.|-. ......+..+..++.-.|+
T Consensus       172 ~~Av~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDr-AaeRRA~sNlgN~hiflg~  250 (639)
T KOG1130|consen  172 ENAVKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDR-AAERRAHSNLGNCHIFLGN  250 (639)
T ss_pred             HHHHHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhH-HHHHHhhcccchhhhhhcc
Confidence            223333332111    1100 012344445555555667777765543322    11210 1122345566667777777


Q ss_pred             HHHHHHHHHHHHHHhhhcCC-CccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcC------CCCHHHHHHHHHHHHHhCC
Q 048394          406 LDLALNEMEAALSEAKQFHW-RPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLN------CLDFSAYSLLIKTYIAAGK  478 (485)
Q Consensus       406 ~~~A~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~l~~~~~~~g~  478 (485)
                      ++.|.+.|+.......+.+. ........+|...|.-..+++.|+.++.+-+...      .....++.+|+++|...|.
T Consensus       251 fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~  330 (639)
T KOG1130|consen  251 FELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGE  330 (639)
T ss_pred             cHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhh
Confidence            77777777766544322111 1233444556666666677777777766654432      1245667777888877777


Q ss_pred             Ccchhc
Q 048394          479 LASDMR  484 (485)
Q Consensus       479 ~~~A~~  484 (485)
                      .++|+.
T Consensus       331 h~kAl~  336 (639)
T KOG1130|consen  331 HRKALY  336 (639)
T ss_pred             HHHHHH
Confidence            777763

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.82  E-value=0.021  Score=50.73  Aligned_cols=216  Identities=12%  Similarity=-0.019  Sum_probs=101.1

Q ss_pred             hcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHh--cCCCChH--HHHHHHHHHH---hcC
Q 048394          226 HLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEE--MKPRDRK--AYHFLISLYC---NTS  298 (485)
Q Consensus       226 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~--~~~~l~~~~~---~~~  298 (485)
                      +.|+.+.|.++-+..-.  .-+.-.......+...+..|+++.|+++++.-..  ...++..  .-..|+.+-.   -..
T Consensus       166 r~GareaAr~yAe~Aa~--~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~lda  243 (531)
T COG3898         166 RLGAREAARHYAERAAE--KAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDA  243 (531)
T ss_pred             hcccHHHHHHHHHHHHh--hccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcC
Confidence            44555555555554443  2233333344455555555555555555555443  1111111  0111111110   112


Q ss_pred             ChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHH
Q 048394          299 NLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNN  378 (485)
Q Consensus       299 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  378 (485)
                      +...|...-.+..+..+.-...-..-..++.+.|+..++-.+++.+-+..++|+..    .+..+.+.|+  .+..-+++
T Consensus       244 dp~~Ar~~A~~a~KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia----~lY~~ar~gd--ta~dRlkR  317 (531)
T COG3898         244 DPASARDDALEANKLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIA----LLYVRARSGD--TALDRLKR  317 (531)
T ss_pred             ChHHHHHHHHHHhhcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHH----HHHHHhcCCC--cHHHHHHH
Confidence            33444444444444444433333344556666777777777777776665554421    1122334443  23333333


Q ss_pred             HHhc-ccccCC-chhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHh-hcCChhhHHHHHHHH
Q 048394          379 AKKR-ANASAR-FFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFE-EEKDVDGAEEFCKVL  455 (485)
Q Consensus       379 ~~~~-~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~A~~~~~~~  455 (485)
                      .... ..  +| +..+...+..+-...|++..|..--+.....      .|....|..+...-. ..||-.++..++.+.
T Consensus       318 a~~L~sl--k~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~------~pres~~lLlAdIeeAetGDqg~vR~wlAqa  389 (531)
T COG3898         318 AKKLESL--KPNNAESSLAVAEAALDAGEFSAARAKAEAAARE------APRESAYLLLADIEEAETGDQGKVRQWLAQA  389 (531)
T ss_pred             HHHHHhc--CccchHHHHHHHHHHHhccchHHHHHHHHHHhhh------CchhhHHHHHHHHHhhccCchHHHHHHHHHH
Confidence            2221 11  22 2334445555566667776666655555543      366666666655433 336777777666666


Q ss_pred             hh
Q 048394          456 KS  457 (485)
Q Consensus       456 ~~  457 (485)
                      ++
T Consensus       390 v~  391 (531)
T COG3898         390 VK  391 (531)
T ss_pred             hc
Confidence            55

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.82  E-value=0.00064  Score=58.84  Aligned_cols=106  Identities=10%  Similarity=-0.057  Sum_probs=78.5

Q ss_pred             HhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCch----hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccH
Q 048394          354 RLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFF----KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQ  429 (485)
Q Consensus       354 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  429 (485)
                      ..|...+..+.+.|++++|...|+.+++.    .|+.    ..+-.+...|...|++++|...|+.+.+..+  +.+...
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~----yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP--~s~~~~  217 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKK----YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYP--KSPKAA  217 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH----CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC--CCcchh
Confidence            34555555556678999999999998887    4443    4566788888999999999999999988731  112234


Q ss_pred             HHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHH
Q 048394          430 VTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSA  465 (485)
Q Consensus       430 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  465 (485)
                      ..+..+...+...|+.+.|.++|+.+.+..|.+..+
T Consensus       218 dAl~klg~~~~~~g~~~~A~~~~~~vi~~yP~s~~a  253 (263)
T PRK10803        218 DAMFKVGVIMQDKGDTAKAKAVYQQVIKKYPGTDGA  253 (263)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHH
Confidence            555556677888899999999999999988876544

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.81  E-value=0.0004  Score=59.06  Aligned_cols=93  Identities=18%  Similarity=0.143  Sum_probs=61.4

Q ss_pred             HHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhH
Q 048394          224 YSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAV  303 (485)
Q Consensus       224 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  303 (485)
                      ..+.+++.+|+..|.+.++  -.|-|...|..-..+|++.|.++.|++-.+.....+|....+|..|..+|...|++++|
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHH
Confidence            3455666667777766666  45556666666666677777777776666666666666666677777777777777777


Q ss_pred             HHHHHHhhhcCCCCh
Q 048394          304 NRVWGILKSTFPPTN  318 (485)
Q Consensus       304 ~~~~~~~~~~~~~~~  318 (485)
                      .+.|++..+..|.+.
T Consensus       169 ~~aykKaLeldP~Ne  183 (304)
T KOG0553|consen  169 IEAYKKALELDPDNE  183 (304)
T ss_pred             HHHHHhhhccCCCcH
Confidence            666666666655544

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.79  E-value=2.3e-05  Score=42.74  Aligned_cols=29  Identities=28%  Similarity=0.572  Sum_probs=20.6

Q ss_pred             hHHHHHHHHHhCCCcccHHHHHHHHHHcC
Q 048394          181 AFNNLSTMYLRLGQPEKVRPLVNQMKQRN  209 (485)
Q Consensus       181 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  209 (485)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            57777777777777777777777776665

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.79  E-value=0.00048  Score=49.33  Aligned_cols=79  Identities=4%  Similarity=0.075  Sum_probs=63.3

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHccC-CCCHHhHHHHHHHHHhcC--------cHHHHHHHHHHHHhcccccCCchhH
Q 048394          322 LVLLQALAKLNAIDILKQCFEEWESRCS-SYDMRLADVIIRAYLQKD--------MYEEAALIFNNAKKRANASARFFKS  392 (485)
Q Consensus       322 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~A~~~~~~~~~~~~~~~p~~~~  392 (485)
                      ...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        ++-+.+.+|+.|+..++  +|+..+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~l--KP~~et  106 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKL--KPNDET  106 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhcc--CCcHHH
Confidence            4456666677888888899999999888 888999998888877542        35567788899988888  999999


Q ss_pred             HHHHHHHHHh
Q 048394          393 RESFMIYYLR  402 (485)
Q Consensus       393 ~~~l~~~~~~  402 (485)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9998887754

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 [, , ].

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.79  E-value=0.023  Score=50.41  Aligned_cols=282  Identities=12%  Similarity=-0.001  Sum_probs=181.5

Q ss_pred             hhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHH--HHhcCcHHHHHHHHHHHHhCCCCCChhhH----HHHHHHHHhCCCc
Q 048394          123 KTNGIAAAEKYFNGLSE-YAKNRYTYGALLNC--YCKELMTERALALFEKMDELKFLGNTVAF----NNLSTMYLRLGQP  195 (485)
Q Consensus       123 ~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~--~~~~~~~~~A~~~~~~m~~~~~~p~~~~~----~~l~~~~~~~g~~  195 (485)
                      -.|+-..|.++-.+..+ ..-|....-.|+.+  -.-.|+++.|.+-|+.|..     |+.+-    ..|.-...+.|+.
T Consensus        96 gAGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~-----dPEtRllGLRgLyleAqr~Gar  170 (531)
T COG3898          96 GAGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD-----DPETRLLGLRGLYLEAQRLGAR  170 (531)
T ss_pred             ccCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc-----ChHHHHHhHHHHHHHHHhcccH
Confidence            35777788877776654 44454444444433  3346899999999999886     33332    3333334567888


Q ss_pred             ccHHHHHHHHHHcCCCcc-HHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHH--HHHHHHHH---hcccHHHH
Q 048394          196 EKVRPLVNQMKQRNISLD-NLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTY--SNLASIYV---KAELFEKA  269 (485)
Q Consensus       196 ~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~~l~~~~~---~~~~~~~A  269 (485)
                      +.|.++-+..-..  .|. .-.+...+...+..|+++.|+++++.-....-+.++..--  ..|+.+-.   -..|...|
T Consensus       171 eaAr~yAe~Aa~~--Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~A  248 (531)
T COG3898         171 EAARHYAERAAEK--APQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASA  248 (531)
T ss_pred             HHHHHHHHHHHhh--ccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHH
Confidence            8888877776554  233 3456778888889999999999988776644444443321  11222111   12356677


Q ss_pred             HHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHc-c
Q 048394          270 ELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESR-C  348 (485)
Q Consensus       270 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~  348 (485)
                      ...-.+..+..|.-...-..-..++.+.|+..++-.+++.+-+..|...     +...|.....-|.++.-++...+. .
T Consensus       249 r~~A~~a~KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~-----ia~lY~~ar~gdta~dRlkRa~~L~s  323 (531)
T COG3898         249 RDDALEANKLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPD-----IALLYVRARSGDTALDRLKRAKKLES  323 (531)
T ss_pred             HHHHHHHhhcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChH-----HHHHHHHhcCCCcHHHHHHHHHHHHh
Confidence            7776666666665566666778889999999999999999887766521     223333333333344444433221 1


Q ss_pred             CCC-CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHH-hcccHHHHHHHHHHHHHHh
Q 048394          349 SSY-DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYL-RSRQLDLALNEMEAALSEA  420 (485)
Q Consensus       349 ~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~~~  420 (485)
                      .+| +......+..+-...|++..|..--+.....    .|....|..|.+.-. ..|+-.++..++.+.+..-
T Consensus       324 lk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~----~pres~~lLlAdIeeAetGDqg~vR~wlAqav~AP  393 (531)
T COG3898         324 LKPNNAESSLAVAEAALDAGEFSAARAKAEAAARE----APRESAYLLLADIEEAETGDQGKVRQWLAQAVKAP  393 (531)
T ss_pred             cCccchHHHHHHHHHHHhccchHHHHHHHHHHhhh----CchhhHHHHHHHHHhhccCchHHHHHHHHHHhcCC
Confidence            222 5666667778888889998888777766655    777777877766554 4599999999999888764

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.77  E-value=0.00015  Score=47.82  Aligned_cols=57  Identities=11%  Similarity=0.101  Sum_probs=27.2

Q ss_pred             HHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcC
Q 048394          258 SIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTF  314 (485)
Q Consensus       258 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  314 (485)
                      ..+.+.|++++|...|+++.+..|.+...+..+..++...|++++|...|+++.+..
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~   61 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELD   61 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            344444555555555555544444444445555555555555555555554444433

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.73  E-value=0.036  Score=53.00  Aligned_cols=253  Identities=9%  Similarity=0.067  Sum_probs=154.2

Q ss_pred             HHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhC-CCCCChhhHHHH-------HHHHHhCCCcccH
Q 048394          127 IAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDEL-KFLGNTVAFNNL-------STMYLRLGQPEKV  198 (485)
Q Consensus       127 ~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~-~~~p~~~~~~~l-------~~~~~~~g~~~~a  198 (485)
                      +++|.++.+    ..|.+..|..|.......-.++-|+..|-+...- |++. +.-...+       ...-.--|++++|
T Consensus       679 ledA~qfiE----dnPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~-vkrl~~i~s~~~q~aei~~~~g~feea  753 (1189)
T KOG2041|consen  679 LEDAIQFIE----DNPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKL-VKRLRTIHSKEQQRAEISAFYGEFEEA  753 (1189)
T ss_pred             hHHHHHHHh----cCCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhH-HHHhhhhhhHHHHhHhHhhhhcchhHh
Confidence            444444433    3477888988888877777888888877665432 2220 0011111       1112234788999


Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHh
Q 048394          199 RPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEE  278 (485)
Q Consensus       199 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  278 (485)
                      .++|-+|-.++         ..+..+.+.|++-...++++.-..+.....-...++.+...+.....++.|.+.+..-..
T Consensus       754 ek~yld~drrD---------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~  824 (1189)
T KOG2041|consen  754 EKLYLDADRRD---------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGD  824 (1189)
T ss_pred             hhhhhccchhh---------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            98887776653         246677788888877776654322122223345678888888888888888888866321


Q ss_pred             cCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHH
Q 048394          279 MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADV  358 (485)
Q Consensus       279 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  358 (485)
                              ....++++.+..++++-+.+.+.+    +.+....-.+..++...|.-++|.+.|-+-..    |     .+
T Consensus       825 --------~e~~~ecly~le~f~~LE~la~~L----pe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~----p-----ka  883 (1189)
T KOG2041|consen  825 --------TENQIECLYRLELFGELEVLARTL----PEDSELLPVMADMFTSVGMCDQAVEAYLRRSL----P-----KA  883 (1189)
T ss_pred             --------hHhHHHHHHHHHhhhhHHHHHHhc----CcccchHHHHHHHHHhhchHHHHHHHHHhccC----c-----HH
Confidence                    224566666666666655554443    44667777788888888888888776654321    1     23


Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHH--------------HHHHHHHHhcccHHHHHHHHHHHHHHh
Q 048394          359 IIRAYLQKDMYEEAALIFNNAKKRANASARFFKSR--------------ESFMIYYLRSRQLDLALNEMEAALSEA  420 (485)
Q Consensus       359 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~--------------~~l~~~~~~~g~~~~A~~~~~~~~~~~  420 (485)
                      .+..|...++|.+|.++-++..      -|...+.              .--|..+.+.|..-.|.+++.+|.+..
T Consensus       884 Av~tCv~LnQW~~avelaq~~~------l~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qmae~e  953 (1189)
T KOG2041|consen  884 AVHTCVELNQWGEAVELAQRFQ------LPQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQMAERE  953 (1189)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcc------chhHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHHhHHH
Confidence            4566777778888877765543      1221221              112344566777777777777776653

>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=97.70  E-value=0.00024  Score=47.60  Aligned_cols=62  Identities=21%  Similarity=0.267  Sum_probs=33.8

Q ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcC-ChhhHHHHHHHhhh
Q 048394          251 TTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTS-NLDAVNRVWGILKS  312 (485)
Q Consensus       251 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~  312 (485)
                      .+|..+...+...|++++|+..|++..+..|.+...|..+..++...| ++++|...+++..+
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            344455555555555555555555555555555555555555555555 45555555555443

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.68  E-value=0.003  Score=54.14  Aligned_cols=105  Identities=9%  Similarity=-0.030  Sum_probs=88.8

Q ss_pred             CCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcC---ChhhHHHHHHHhhhcCCCChhhH
Q 048394          245 EDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTS---NLDAVNRVWGILKSTFPPTNTSY  321 (485)
Q Consensus       245 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~  321 (485)
                      ..|-|...|-.|...|...|+++.|...|.+..+..++++..+..+..++....   ...++..+|+++....+.+..+.
T Consensus       151 ~nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral  230 (287)
T COG4235         151 QNPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRAL  230 (287)
T ss_pred             hCCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHH
Confidence            577788888889999999999999999999999988888888888888876544   33578889999998888888888


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHccC
Q 048394          322 LVLLQALAKLNAIDILKQCFEEWESRCS  349 (485)
Q Consensus       322 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~  349 (485)
                      ..|...+...|++.+|...|+.|.+..+
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp  258 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLP  258 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCC
Confidence            8889999999999999999999988743

>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=97.68  E-value=0.00022  Score=47.59  Aligned_cols=55  Identities=20%  Similarity=0.227  Sum_probs=28.3

Q ss_pred             hcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC
Q 048394          262 KAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP  316 (485)
Q Consensus       262 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  316 (485)
                      +.|++++|...|+++....|.+...+..++.+|.+.|++++|..+++++....+.
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~   57 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPD   57 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTT
T ss_pred             hccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence            3455555555555555555545555555555555555555555555555444443

...

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.65  E-value=0.045  Score=49.75  Aligned_cols=49  Identities=12%  Similarity=-0.025  Sum_probs=31.7

Q ss_pred             HhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHH
Q 048394          401 LRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVL  455 (485)
Q Consensus       401 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  455 (485)
                      ...|++.++.-.-....+      +.|++.+|..+.-++...+++++|..++..+
T Consensus       473 ysqgey~kc~~ys~WL~~------iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  473 YSQGEYHKCYLYSSWLTK------IAPSPQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             HhcccHHHHHHHHHHHHH------hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            356666666544444443      4577777777777777777777777776654

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.60  E-value=0.078  Score=51.30  Aligned_cols=139  Identities=13%  Similarity=0.035  Sum_probs=89.7

Q ss_pred             HhCCCCCHHHHHH-----HHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCC---HHHHHHHHHhhccc
Q 048394           69 MEGKTVRKDMLEY-----CVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNG---IAAAEKYFNGLSEY  140 (485)
Q Consensus        69 ~~g~~~~~~~~~~-----l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~  140 (485)
                      +-|++.+...|..     ++..+...+.+..|+++-.++...-..- ...|......+.+..+   -+.+..+-+++...
T Consensus       425 ~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~  503 (829)
T KOG2280|consen  425 RIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAK  503 (829)
T ss_pred             ccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHHHHHHHhccCccchHHHHHHHHHhccc
Confidence            4588888887766     4778888999999999999885433222 5667776766665532   22223333333321


Q ss_pred             CCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCC----CChhhHHHHHHHHHhCCCcccHHHHHHHHHHc
Q 048394          141 AKNRYTYGALLNCYCKELMTERALALFEKMDELKFL----GNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQR  208 (485)
Q Consensus       141 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~----p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  208 (485)
                      .-...+|..+.......|+.+-|..+++.=...+..    .+..-+...+.-+...|+.+-...++-.+..+
T Consensus       504 ~~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~  575 (829)
T KOG2280|consen  504 LTPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNK  575 (829)
T ss_pred             CCCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHH
Confidence            134457888888788899999999988654332211    12223455666677788888888777776653

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.60  E-value=0.001  Score=49.54  Aligned_cols=104  Identities=16%  Similarity=0.004  Sum_probs=66.6

Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHhcccccCCch---hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCc---cHHHH
Q 048394          359 IIRAYLQKDMYEEAALIFNNAKKRANASARFF---KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRP---MQVTV  432 (485)
Q Consensus       359 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---~~~~~  432 (485)
                      +..++-..|+.++|..+|++..+.|   -++.   ..+..+...+...|++++|..++++.....     +.   +....
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~g---L~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~-----p~~~~~~~l~   78 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAG---LSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF-----PDDELNAALR   78 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcC---CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-----CCccccHHHH
Confidence            5566777888888888888888764   4443   234455667778888888888888887763     22   22233


Q ss_pred             HHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHH
Q 048394          433 DTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTY  473 (485)
Q Consensus       433 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  473 (485)
                      ..+..++...|+.++|.+.+-.....   +...|.--+..|
T Consensus        79 ~f~Al~L~~~gr~~eAl~~~l~~la~---~~~~y~ra~~~y  116 (120)
T PF12688_consen   79 VFLALALYNLGRPKEALEWLLEALAE---TLPRYRRAIRFY  116 (120)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHH---HHHHHHHHHHHH
Confidence            33345677788888888877655442   222444444444

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.59  E-value=0.0048  Score=46.03  Aligned_cols=108  Identities=9%  Similarity=-0.045  Sum_probs=73.2

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhCCCCCC--hhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCC----HhHHHHHHH
Q 048394           79 LEYCVRSLRKFGRYRHALEVIEWMESRKMHFS--YTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKN----RYTYGALLN  152 (485)
Q Consensus        79 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~----~~~~~~li~  152 (485)
                      ......++-..|+.++|+.+|++....|....  ...+..+...+...|++++|..+|++.....|+    ......+..
T Consensus         4 ~~~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al   83 (120)
T PF12688_consen    4 LYELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLAL   83 (120)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHH
Confidence            34556667788999999999999888875443  234555667788889999999999887774344    222233344


Q ss_pred             HHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 048394          153 CYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYL  190 (485)
Q Consensus       153 ~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~  190 (485)
                      ++...|+.++|+..+-....    ++...|.--|..|.
T Consensus        84 ~L~~~gr~~eAl~~~l~~la----~~~~~y~ra~~~ya  117 (120)
T PF12688_consen   84 ALYNLGRPKEALEWLLEALA----ETLPRYRRAIRFYA  117 (120)
T ss_pred             HHHHCCCHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence            56778888888888766554    23345665555554

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.56  E-value=0.086  Score=50.59  Aligned_cols=122  Identities=11%  Similarity=-0.014  Sum_probs=55.6

Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh-CCCCCC--------hhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCC
Q 048394           73 TVRKDMLEYCVRSLRKFGRYRHALEVIEWMES-RKMHFS--------YTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKN  143 (485)
Q Consensus        73 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~~~~--------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  143 (485)
                      .|.+..+..+.......-.++-|...|-+... .|++.-        ...-.+=+.  +--|.+++|++++-.+..  .|
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~--~~~g~feeaek~yld~dr--rD  764 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEIS--AFYGEFEEAEKLYLDADR--RD  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHh--hhhcchhHhhhhhhccch--hh
Confidence            46666666666665555566666665554422 122110        000011111  123667777777666544  11


Q ss_pred             HhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCC--CChhhHHHHHHHHHhCCCcccHHHHHHH
Q 048394          144 RYTYGALLNCYCKELMTERALALFEKMDELKFL--GNTVAFNNLSTMYLRLGQPEKVRPLVNQ  204 (485)
Q Consensus       144 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~--p~~~~~~~l~~~~~~~g~~~~a~~~~~~  204 (485)
                           ..|..+.+.|++-...++++.--. +..  .-..+|+.+...+.....|++|.+.|..
T Consensus       765 -----LAielr~klgDwfrV~qL~r~g~~-d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~  821 (1189)
T KOG2041|consen  765 -----LAIELRKKLGDWFRVYQLIRNGGS-DDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSY  821 (1189)
T ss_pred             -----hhHHHHHhhhhHHHHHHHHHccCC-CcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence                 223444455555555544432100 000  0123455555555555555555555543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.55  E-value=0.00067  Score=45.96  Aligned_cols=66  Identities=21%  Similarity=0.004  Sum_probs=53.5

Q ss_pred             HHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHH
Q 048394          398 IYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSL  468 (485)
Q Consensus       398 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  468 (485)
                      ..|.+.+++++|++++++++..     .+.+...+.....++...|++++|.+.++.+.+..|.++.....
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~-----~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~~~   68 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALEL-----DPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDARAL   68 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHh-----CcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHHHH
Confidence            4678889999999999999887     45567777778888899999999999999999888877655443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.50  E-value=0.031  Score=44.26  Aligned_cols=130  Identities=15%  Similarity=0.034  Sum_probs=73.5

Q ss_pred             ChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHcc---CCCCHHhHHH
Q 048394          283 DRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-TNTSYLVLLQALAKLNAIDILKQCFEEWESRC---SSYDMRLADV  358 (485)
Q Consensus       283 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~  358 (485)
                      ....-..|..+....|+..+|...|.+....-.. |......+.++....++...|...++++-+..   -.||  +.-.
T Consensus        88 Tvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~~Ll  165 (251)
T COG4700          88 TVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--GHLL  165 (251)
T ss_pred             hHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--chHH
Confidence            4444455666666666666666666666555444 66666666666666666666666666665543   1222  2233


Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHH
Q 048394          359 IIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALS  418 (485)
Q Consensus       359 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  418 (485)
                      +.+.|...|.+++|+.-|+.....    .|+...-......+.+.|+.+++..-+..+.+
T Consensus       166 ~aR~laa~g~~a~Aesafe~a~~~----ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         166 FARTLAAQGKYADAESAFEVAISY----YPGPQARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHh----CCCHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            556666666666666666666654    44444333333444556655555544444433

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.50  E-value=0.0051  Score=54.73  Aligned_cols=135  Identities=10%  Similarity=-0.041  Sum_probs=92.9

Q ss_pred             hHHHHHHHHHHHhcCChhhHHHHHHHhh----hcCCC--ChhhHHHHHHHHHhcCChhHHHHHHHHHHH----ccCC-CC
Q 048394          284 RKAYHFLISLYCNTSNLDAVNRVWGILK----STFPP--TNTSYLVLLQALAKLNAIDILKQCFEEWES----RCSS-YD  352 (485)
Q Consensus       284 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~-~~  352 (485)
                      ...|..|...|.-.|+++.|+...+.-.    +-|-.  ...++..+.+++.-.|+++.|.+.|+....    .|-. ..
T Consensus       195 GRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vE  274 (639)
T KOG1130|consen  195 GRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVE  274 (639)
T ss_pred             cchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHH
Confidence            3456667777777888888887655322    22322  456788889999999999999998886533    2211 12


Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHhc-----ccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHh
Q 048394          353 MRLADVIIRAYLQKDMYEEAALIFNNAKKR-----ANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEA  420 (485)
Q Consensus       353 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  420 (485)
                      ..+.-+|...|.-..++++|+.++.+-...     +.  .-....+.+|..+|...|..++|+.+.+..++..
T Consensus       275 AQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~Dr--iGe~RacwSLgna~~alg~h~kAl~fae~hl~~s  345 (639)
T KOG1130|consen  275 AQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDR--IGELRACWSLGNAFNALGEHRKALYFAELHLRSS  345 (639)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh--hhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence            445556888888888899999888765431     11  2234567788889999999999998887776654

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.50  E-value=0.0027  Score=55.02  Aligned_cols=98  Identities=9%  Similarity=0.055  Sum_probs=47.3

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCc---HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCC---ChHHHHHH
Q 048394          217 YIVWMQSYSHLNDIDGVERVFYEMCNECEDKCR---WTTYSNLASIYVKAELFEKAELALKKLEEMKPR---DRKAYHFL  290 (485)
Q Consensus       217 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~l  290 (485)
                      |...+....+.|++++|...|+.+.+  ..|-+   ...+..++.+|...|++++|...|+.+.+..|.   ...++..+
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~--~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~kl  223 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVK--KYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKV  223 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH--HCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence            33333333444556666655555555  11111   234444555555555555555555555543332   23333334


Q ss_pred             HHHHHhcCChhhHHHHHHHhhhcCCC
Q 048394          291 ISLYCNTSNLDAVNRVWGILKSTFPP  316 (485)
Q Consensus       291 ~~~~~~~~~~~~a~~~~~~~~~~~~~  316 (485)
                      ..++...|+.++|..+|+.+.+..|.
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~~yP~  249 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIKKYPG  249 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence            44455555555555555555544444

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.49  E-value=0.033  Score=44.13  Aligned_cols=124  Identities=14%  Similarity=0.052  Sum_probs=59.2

Q ss_pred             CcHHHHHHHHHHHHhcccHHHHHHHHHHHHh-cCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC--ChhhHHHH
Q 048394          248 CRWTTYSNLASIYVKAELFEKAELALKKLEE-MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP--TNTSYLVL  324 (485)
Q Consensus       248 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~l  324 (485)
                      |+...-..|..++...|++.+|...|.+... ....|......+.++....++...|...++.+.+..+.  ++.+...+
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll~  166 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLLF  166 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHHH
Confidence            3333333455555555555555555555444 22334444455555555555555555555555444433  44444455


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHH
Q 048394          325 LQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAA  373 (485)
Q Consensus       325 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  373 (485)
                      ...+...|..++|+.-|+.....-+.|....+  ....+.++|+.+++.
T Consensus       167 aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~--Y~e~La~qgr~~ea~  213 (251)
T COG4700         167 ARTLAAQGKYADAESAFEVAISYYPGPQARIY--YAEMLAKQGRLREAN  213 (251)
T ss_pred             HHHHHhcCCchhHHHHHHHHHHhCCCHHHHHH--HHHHHHHhcchhHHH
Confidence            55555555555555555555554333222222  223344455444443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.45  E-value=0.043  Score=49.62  Aligned_cols=35  Identities=14%  Similarity=-0.084  Sum_probs=26.4

Q ss_pred             ccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCC
Q 048394          427 PMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL  461 (485)
Q Consensus       427 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  461 (485)
                      .+.-.+.+++.++.-.||++.|.+.++++....|+
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~  337 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPP  337 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCc
Confidence            34445567778888888888888888888887665

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.43  E-value=0.00015  Score=40.18  Aligned_cols=33  Identities=24%  Similarity=0.299  Sum_probs=30.7

Q ss_pred             HHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          452 CKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       452 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      |+++++..|.++.+|+.|+.+|...|++++|++
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            678899999999999999999999999999974

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=97.40  E-value=0.063  Score=45.28  Aligned_cols=181  Identities=17%  Similarity=0.145  Sum_probs=100.4

Q ss_pred             HHhcccHHHHHHHHHHHHhcCC---CChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC-ChhhHHHHHHHHHhcC---
Q 048394          260 YVKAELFEKAELALKKLEEMKP---RDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-TNTSYLVLLQALAKLN---  332 (485)
Q Consensus       260 ~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~---  332 (485)
                      -.+.|++++|.+.|+.+....|   -...+...++.++.+.++++.|....++.....|. ....|...+.+++.--   
T Consensus        44 ~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~  123 (254)
T COG4105          44 ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQID  123 (254)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCC
Confidence            3466777777777777776333   33455566666777777777777777777777666 5555555555555211   


Q ss_pred             ----Chh---HHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhccc
Q 048394          333 ----AID---ILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQ  405 (485)
Q Consensus       333 ----~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  405 (485)
                          |..   .|..-|+++++.               |=...=...|..-...+...=-      ..=..+.+.|.+.|.
T Consensus       124 ~~~rDq~~~~~A~~~f~~~i~r---------------yPnS~Ya~dA~~~i~~~~d~LA------~~Em~IaryY~kr~~  182 (254)
T COG4105         124 DVTRDQSAARAAFAAFKELVQR---------------YPNSRYAPDAKARIVKLNDALA------GHEMAIARYYLKRGA  182 (254)
T ss_pred             ccccCHHHHHHHHHHHHHHHHH---------------CCCCcchhhHHHHHHHHHHHHH------HHHHHHHHHHHHhcC
Confidence                111   122222222222               1111111222222211111100      001234567888999


Q ss_pred             HHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCH
Q 048394          406 LDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDF  463 (485)
Q Consensus       406 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~  463 (485)
                      +..|..-+++|++.-  +..+-....+-.+..+|...|-.++|.+.-+-+....|.++
T Consensus       183 ~~AA~nR~~~v~e~y--~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N~p~s~  238 (254)
T COG4105         183 YVAAINRFEEVLENY--PDTSAVREALARLEEAYYALGLTDEAKKTAKVLGANYPDSQ  238 (254)
T ss_pred             hHHHHHHHHHHHhcc--ccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCc
Confidence            999999999998872  11112233455566888889988888887766665555443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.35  E-value=0.00053  Score=40.86  Aligned_cols=42  Identities=19%  Similarity=0.139  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHH
Q 048394          430 VTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIK  471 (485)
Q Consensus       430 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  471 (485)
                      .++..+..+|...|++++|+++++++++..|.|+.+|..|+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            457778889999999999999999999999999999988865

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.30  E-value=0.1  Score=49.58  Aligned_cols=100  Identities=12%  Similarity=0.099  Sum_probs=49.1

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhc
Q 048394           78 MLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKE  157 (485)
Q Consensus        78 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~  157 (485)
                      .+..-+..+...|.+++|..+-    --|  .....|.-+.......=+++-|.+.+.+.+.                  
T Consensus       558 p~~~~m~q~Ieag~f~ea~~ia----clg--Vv~~DW~~LA~~ALeAL~f~~ARkAY~rVRd------------------  613 (1081)
T KOG1538|consen  558 PQSAPMYQYIERGLFKEAYQIA----CLG--VTDTDWRELAMEALEALDFETARKAYIRVRD------------------  613 (1081)
T ss_pred             cccccchhhhhccchhhhhccc----ccc--eecchHHHHHHHHHhhhhhHHHHHHHHHHhc------------------
Confidence            3344455566777777765431    112  2333344444433344445555554444432                  


Q ss_pred             CcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHH
Q 048394          158 LMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQ  204 (485)
Q Consensus       158 ~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  204 (485)
                      -.+-+.+.-+++++++|-.|+...   +...++-.|.+.+|-++|.+
T Consensus       614 l~~L~li~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~  657 (1081)
T KOG1538|consen  614 LRYLELISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKR  657 (1081)
T ss_pred             cHHHHHHHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHH
Confidence            112223334566777776666543   33445555666666666543

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.27  E-value=0.14  Score=46.60  Aligned_cols=371  Identities=12%  Similarity=0.102  Sum_probs=205.7

Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCC
Q 048394           97 EVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMTERALALFEKMDELKF  175 (485)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~  175 (485)
                      ++=+++++.  +-|..+|-.|+.-+...|..++.+++++++.. .+--..+|..-+++-...+++.....+|.+.+....
T Consensus        30 rLRerIkdN--PtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l  107 (660)
T COG5107          30 RLRERIKDN--PTNILSYFQLIQYLETQESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSL  107 (660)
T ss_pred             HHHHHhhcC--chhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhc
Confidence            444444443  46788999999999999999999999999998 444567899889888888999999999999987654


Q ss_pred             CCChhhHHHHHHHHHhCCCcc------cHHHHHHHHHH-cCCCccH-HHHHHHHH---HHHhcC------CHhHHHHHHH
Q 048394          176 LGNTVAFNNLSTMYLRLGQPE------KVRPLVNQMKQ-RNISLDN-LTYIVWMQ---SYSHLN------DIDGVERVFY  238 (485)
Q Consensus       176 ~p~~~~~~~l~~~~~~~g~~~------~a~~~~~~~~~-~~~~p~~-~~~~~l~~---~~~~~~------~~~~a~~~~~  238 (485)
                      .  ...|...+..-.+.+..-      ...+.|+-... .++.|-. ..|+..+.   ..-..|      ++|.....+.
T Consensus       108 ~--ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~  185 (660)
T COG5107         108 N--LDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYM  185 (660)
T ss_pred             c--HhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHH
Confidence            4  556666665444433211      12223333222 2344432 22333222   211223      3444555555


Q ss_pred             HHHhccCCCC---cHHHHHHH---HHHHH-------hcccHHHHHHHHHHHHh-------cCCC----------------
Q 048394          239 EMCNECEDKC---RWTTYSNL---ASIYV-------KAELFEKAELALKKLEE-------MKPR----------------  282 (485)
Q Consensus       239 ~~~~~~~~~~---~~~~~~~l---~~~~~-------~~~~~~~A~~~~~~~~~-------~~~~----------------  282 (485)
                      ++.... ...   -+.-|...   ++-..       ..--+-.|...++++..       ..|.                
T Consensus       186 ral~tP-~~nleklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~W  264 (660)
T COG5107         186 RALQTP-MGNLEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSDSNW  264 (660)
T ss_pred             HHHcCc-cccHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccccchh
Confidence            555411 000   01111000   00000       00012223333333222       0111                


Q ss_pred             ------------------------------------ChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHH
Q 048394          283 ------------------------------------DRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQ  326 (485)
Q Consensus       283 ------------------------------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  326 (485)
                                                          .+..|..-...+...++-..|+...+......|   ..-..+..
T Consensus       265 lNwIkwE~en~l~L~~~~~~qRi~y~~~q~~~y~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~sp---sL~~~lse  341 (660)
T COG5107         265 LNWIKWEMENGLKLGGRPHEQRIHYIHNQILDYFYYAEEVWFDYSEYLIGISDKQKALKTVERGIEMSP---SLTMFLSE  341 (660)
T ss_pred             hhHhhHhhcCCcccCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccCCC---chheeHHH
Confidence                                                111111112222233344444444433322221   11111222


Q ss_pred             HHHhcCChhHHHHHHHHHHH--------------ccCC---------------CCHHhHHHHHHHHHhcCcHHHHHHHHH
Q 048394          327 ALAKLNAIDILKQCFEEWES--------------RCSS---------------YDMRLADVIIRAYLQKDMYEEAALIFN  377 (485)
Q Consensus       327 ~~~~~~~~~~a~~~~~~~~~--------------~~~~---------------~~~~~~~~l~~~~~~~~~~~~A~~~~~  377 (485)
                      .|.-.++-+.....|+...+              .+..               --..+|...+....+...++.|..+|-
T Consensus       342 ~yel~nd~e~v~~~fdk~~q~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~~Gl~aaR~~F~  421 (660)
T COG5107         342 YYELVNDEEAVYGCFDKCTQDLKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRKRGLEAARKLFI  421 (660)
T ss_pred             HHhhcccHHHHhhhHHHHHHHHHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHH
Confidence            23333333333333322211              0110               013345566777777888999999999


Q ss_pred             HHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhh
Q 048394          378 NAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKS  457 (485)
Q Consensus       378 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  457 (485)
                      ++.+.++. .++...++.++..++ .|+..-|..+|+--+..     ++.+.......+.-+...+|-+.|..+|+..++
T Consensus       422 k~rk~~~~-~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~-----f~d~~~y~~kyl~fLi~inde~naraLFetsv~  494 (660)
T COG5107         422 KLRKEGIV-GHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK-----FPDSTLYKEKYLLFLIRINDEENARALFETSVE  494 (660)
T ss_pred             HHhccCCC-CcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh-----CCCchHHHHHHHHHHHHhCcHHHHHHHHHHhHH
Confidence            99998842 788888999887654 67889999999988776     555555667777888889999999999997766


Q ss_pred             cCCCC--HHHHHHHHHHHHHhCCCcch
Q 048394          458 LNCLD--FSAYSLLIKTYIAAGKLASD  482 (485)
Q Consensus       458 ~~~~~--~~~~~~l~~~~~~~g~~~~A  482 (485)
                      .-..+  ..+|..++.--..-|+.+.|
T Consensus       495 r~~~~q~k~iy~kmi~YEs~~G~lN~v  521 (660)
T COG5107         495 RLEKTQLKRIYDKMIEYESMVGSLNNV  521 (660)
T ss_pred             HHHHhhhhHHHHHHHHHHHhhcchHHH
Confidence            43333  56777777776666766544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.26  E-value=0.0019  Score=43.67  Aligned_cols=58  Identities=17%  Similarity=0.177  Sum_probs=30.0

Q ss_pred             HHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC
Q 048394          259 IYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP  316 (485)
Q Consensus       259 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  316 (485)
                      .|.+.+++++|.++++.+....|.++..|.....++...|++++|...++...+..|.
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~   61 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPD   61 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCC
Confidence            3444555555555555555555545555555555555555555555555555544443

>PRK15331 chaperone protein SicA; Provisional

Probab=97.26  E-value=0.0028  Score=49.40  Aligned_cols=96  Identities=9%  Similarity=-0.082  Sum_probs=73.8

Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHH
Q 048394          359 IIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRF  438 (485)
Q Consensus       359 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  438 (485)
                      ...-+...|++++|..+|.-+...+   .-+..-|..|...+-..+++++|+..|......+     ..|+..+.....+
T Consensus        43 ~Ay~~y~~Gk~~eA~~~F~~L~~~d---~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-----~~dp~p~f~agqC  114 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCIYD---FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-----KNDYRPVFFTGQC  114 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC---cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-----cCCCCccchHHHH
Confidence            3444567899999999999888765   3445556677777778899999999999988764     3445556667788


Q ss_pred             HhhcCChhhHHHHHHHHhhcCCCCH
Q 048394          439 FEEEKDVDGAEEFCKVLKSLNCLDF  463 (485)
Q Consensus       439 ~~~~~~~~~A~~~~~~~~~~~~~~~  463 (485)
                      +...|+.+.|...|+.+.+. |.+.
T Consensus       115 ~l~l~~~~~A~~~f~~a~~~-~~~~  138 (165)
T PRK15331        115 QLLMRKAAKARQCFELVNER-TEDE  138 (165)
T ss_pred             HHHhCCHHHHHHHHHHHHhC-cchH
Confidence            89999999999999999883 4443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.18  E-value=0.11  Score=43.67  Aligned_cols=133  Identities=10%  Similarity=-0.009  Sum_probs=83.9

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHh-cCCC-----ChHHHHH
Q 048394          216 TYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEE-MKPR-----DRKAYHF  289 (485)
Q Consensus       216 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~~-----~~~~~~~  289 (485)
                      +.+.++..+.-.|.+.-....+.+.++ ...+.++.....+++.-.+.||.+.|...|+..++ ....     .......
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~-~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n  257 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIK-YYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHH-hCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhh
Confidence            345566666666777777777777777 44566666677777777777888887777776655 1111     2222233


Q ss_pred             HHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccC
Q 048394          290 LISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCS  349 (485)
Q Consensus       290 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  349 (485)
                      ....|.-.+++..|...+.++....+.+....|.-.-+....|+..+|.+.++.|.+..+
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P  317 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDP  317 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence            334455566666777777767666666666666555556666777777777777766533

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.15  E-value=0.12  Score=43.50  Aligned_cols=136  Identities=11%  Similarity=0.043  Sum_probs=110.1

Q ss_pred             hHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhcc----CCCCcHHHHHHH
Q 048394          181 AFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNEC----EDKCRWTTYSNL  256 (485)
Q Consensus       181 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~~l  256 (485)
                      ..+.++..+.-.|.+.-...++++.++...+-++.....+.+.-.+.||.+.|...|+...+..    +......+....
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            4467777778888899999999999987666678888888999999999999999999777622    223333334444


Q ss_pred             HHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC
Q 048394          257 ASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP  316 (485)
Q Consensus       257 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  316 (485)
                      ...|.-.+++..|...+.++...++.++...|.-.-+..-.|+...|.+.++.|....|.
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~  318 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPR  318 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCc
Confidence            556677889999999999998888889999998888888899999999999999988776

>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=97.14  E-value=0.026  Score=44.43  Aligned_cols=56  Identities=16%  Similarity=0.183  Sum_probs=26.8

Q ss_pred             HHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 048394          289 FLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEW  344 (485)
Q Consensus       289 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  344 (485)
                      .++..+...|+++.|..+...+....|.+...+..++.++...|+...|.++|+.+
T Consensus        67 ~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   67 RLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            34444444555555555555555555445555555555555555555555555443

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.13  E-value=0.0026  Score=43.74  Aligned_cols=67  Identities=19%  Similarity=0.170  Sum_probs=43.4

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcC-CCcc-HHHHHHHHHHHhhcCChhhHHHHHHHHhh
Q 048394          391 KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFH-WRPM-QVTVDTFFRFFEEEKDVDGAEEFCKVLKS  457 (485)
Q Consensus       391 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  457 (485)
                      .+|+.+...|...|++++|+..|++.++.....+ ..|+ ..++..+..++...|++++|++++++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3566677777777777777777777776522211 1122 44666777777788888888888777665

...

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.11  E-value=0.19  Score=45.63  Aligned_cols=77  Identities=13%  Similarity=-0.025  Sum_probs=51.3

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHhhcccC-C----CHhHHHHHHHHHHh---cCcHHHHHHHHHHHHhCCCCCChhhHHHH
Q 048394          114 FAVYLDLTAKTNGIAAAEKYFNGLSEYA-K----NRYTYGALLNCYCK---ELMTERALALFEKMDELKFLGNTVAFNNL  185 (485)
Q Consensus       114 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~----~~~~~~~li~~~~~---~~~~~~A~~~~~~m~~~~~~p~~~~~~~l  185 (485)
                      ...++-.|....+++...++++.+...+ .    ...+--...-++-+   .|+.++|++++..+......+++.+|..+
T Consensus       144 v~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~  223 (374)
T PF13281_consen  144 VINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLL  223 (374)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHH
Confidence            3345556778888888888888887721 1    11122233344556   78889999998886666666778888877


Q ss_pred             HHHHH
Q 048394          186 STMYL  190 (485)
Q Consensus       186 ~~~~~  190 (485)
                      .+.|-
T Consensus       224 GRIyK  228 (374)
T PF13281_consen  224 GRIYK  228 (374)
T ss_pred             HHHHH
Confidence            77663

>PRK15331 chaperone protein SicA; Provisional

Probab=97.08  E-value=0.0092  Score=46.57  Aligned_cols=86  Identities=10%  Similarity=0.047  Sum_probs=48.5

Q ss_pred             HhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHH
Q 048394          261 VKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQC  340 (485)
Q Consensus       261 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  340 (485)
                      ...|++++|..+|.-+...++.+..-|..|..++-..+++++|...|...-...+.|+..+.....++...|+.+.|...
T Consensus        48 y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~~~A~~~  127 (165)
T PRK15331         48 YNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAKARQC  127 (165)
T ss_pred             HHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHHHHHH
Confidence            34556666666655555555555555555555555556666666655555544444555555555555556666666665


Q ss_pred             HHHHHH
Q 048394          341 FEEWES  346 (485)
Q Consensus       341 ~~~~~~  346 (485)
                      |....+
T Consensus       128 f~~a~~  133 (165)
T PRK15331        128 FELVNE  133 (165)
T ss_pred             HHHHHh
Confidence            555544

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=97.05  E-value=0.17  Score=43.38  Aligned_cols=204  Identities=17%  Similarity=0.019  Sum_probs=115.9

Q ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHh--cCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHH-
Q 048394          250 WTTYSNLASIYVKAELFEKAELALKKLEE--MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQ-  326 (485)
Q Consensus       250 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~-  326 (485)
                      ...+......+...+++..+...+.....  ..+.....+......+...+++..+...+.........+......... 
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALG  138 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHH
Confidence            34444555556666666666666655554  344445555555556666666666666666665544443222222233 


Q ss_pred             HHHhcCChhHHHHHHHHHHHccC--CCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCC-chhHHHHHHHHHHhc
Q 048394          327 ALAKLNAIDILKQCFEEWESRCS--SYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASAR-FFKSRESFMIYYLRS  403 (485)
Q Consensus       327 ~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~  403 (485)
                      .+...|+++.|...+........  ......+......+...++.+.+...+.+.....   .. ....+..+...+...
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~  215 (291)
T COG0457         139 ALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLN---PDDDAEALLNLGLLYLKL  215 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhC---cccchHHHHHhhHHHHHc
Confidence            56667777777777776644221  1123333334444556677777777777776653   22 245566666667777


Q ss_pred             ccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCC
Q 048394          404 RQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL  461 (485)
Q Consensus       404 g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  461 (485)
                      ++++.|...+.......     +.....+..+...+...+..+.+...+.+..+..|.
T Consensus       216 ~~~~~a~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         216 GKYEEALEYYEKALELD-----PDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             ccHHHHHHHHHHHHhhC-----cccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            77777777777777653     222334444444444556677777777777766554

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=97.03  E-value=0.32  Score=46.20  Aligned_cols=85  Identities=13%  Similarity=0.156  Sum_probs=49.0

Q ss_pred             HHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHH-hhCCHHHHHHHHHhhcc----cCCCHhHHHHHHHHHHhcCcHH
Q 048394           87 RKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTA-KTNGIAAAEKYFNGLSE----YAKNRYTYGALLNCYCKELMTE  161 (485)
Q Consensus        87 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~a~~~~~~~~~----~~~~~~~~~~li~~~~~~~~~~  161 (485)
                      .+.|..+.+.++|++-... ++.+...|...+..+. ..|+.+.....|+....    .--+...|...|.--..++++.
T Consensus        90 ~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y~~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k  168 (577)
T KOG1258|consen   90 YKLGNAENSVKVFERGVQA-IPLSVDLWLSYLAFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWK  168 (577)
T ss_pred             HHhhhHHHHHHHHHHHHHh-hhhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHH
Confidence            4456666667777665442 3445555555544333 34566666666666555    1223445666666666666677


Q ss_pred             HHHHHHHHHHh
Q 048394          162 RALALFEKMDE  172 (485)
Q Consensus       162 ~A~~~~~~m~~  172 (485)
                      ....++++.++
T Consensus       169 ~v~~iyeRile  179 (577)
T KOG1258|consen  169 RVANIYERILE  179 (577)
T ss_pred             HHHHHHHHHHh
Confidence            77777766665

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.92  E-value=0.29  Score=43.97  Aligned_cols=281  Identities=16%  Similarity=0.079  Sum_probs=152.9

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHh
Q 048394           78 MLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCK  156 (485)
Q Consensus        78 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~  156 (485)
                      +|..+.......|+.+-|..+++.      +|+..   .-+..+.+.|+.+.|+.   +..+ ..|| -+|..|++.--+
T Consensus         2 S~a~IA~~A~~~GR~~LA~~LL~~------Ep~~~---~qVplLL~m~e~e~AL~---kAi~SgD~D-Li~~vLl~L~~~   68 (319)
T PF04840_consen    2 SYAEIARKAYEEGRPKLATKLLEL------EPRAS---KQVPLLLKMGEDELALN---KAIESGDTD-LIYLVLLHLKRK   68 (319)
T ss_pred             CHHHHHHHHHHcChHHHHHHHHHc------CCChH---HHHHHHhcCCchHHHHH---HHHHcCCcc-HHHHHHHHHHHh
Confidence            467778888899999999998764      34442   23555666777777643   2222 2233 244445543222


Q ss_pred             cCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHH
Q 048394          157 ELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERV  236 (485)
Q Consensus       157 ~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  236 (485)
                      . ...   +++ .+....  |.  . ..+...|++..+.+....+|.+--+.    .......+-.++.. .+.+.-...
T Consensus        69 l-~~s---~f~-~il~~~--p~--a-~~l~~~~~r~~~~~~L~~~y~q~d~~----~~~a~~~l~~~~~~-~~~~~~~~~  133 (319)
T PF04840_consen   69 L-SLS---QFF-KILNQN--PV--A-SNLYKKYCREQDRELLKDFYYQEDRF----QELANLHLQEALSQ-KDVEEKISF  133 (319)
T ss_pred             C-CHH---HHH-HHHHhC--cc--h-HHHHHHHHHhccHHHHHHHHHhcchH----HHHHHHHHHHHHhC-CChHHHHHH
Confidence            2 111   223 333321  22  1 33444566655555555555432111    11112222222222 444444444


Q ss_pred             HHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHH---HHh--cCCCChHHHHHHHHHHHhcCChhhHHHHHHHhh
Q 048394          237 FYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKK---LEE--MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILK  311 (485)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~---~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  311 (485)
                      +..+.+..+...+......++.         +..++++.   +..  .......+.+.-+.-+...|+...|.++-.+. 
T Consensus       134 L~~a~~~y~~~k~~~f~~~~~e---------~q~~Ll~~Q~~Le~~~~~~f~~~Sl~~Ti~~li~~~~~k~A~kl~k~F-  203 (319)
T PF04840_consen  134 LKQAQKLYSKSKNDAFEAKLIE---------EQIKLLEYQKELEEKYNTNFVGLSLNDTIRKLIEMGQEKQAEKLKKEF-  203 (319)
T ss_pred             HHHHHHHHHhcchhHHHHHHHH---------HHHHHHHHHHHHHHHhccchhcCCHHHHHHHHHHCCCHHHHHHHHHHc-
Confidence            4444331111112111111111         11122211   111  11112335555667777888888877775554 


Q ss_pred             hcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchh
Q 048394          312 STFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFK  391 (485)
Q Consensus       312 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~  391 (485)
                        .+++..-|...+.+++..+++++..++-..      +-++.-|..++.+|.+.|+..+|..+..++       .    
T Consensus       204 --kv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~eA~~yI~k~-------~----  264 (319)
T PF04840_consen  204 --KVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKKEASKYIPKI-------P----  264 (319)
T ss_pred             --CCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHHHHHHHHHhC-------C----
Confidence              355788889999999999999887776432      125577888999999999999999888762       2    


Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHH
Q 048394          392 SRESFMIYYLRSRQLDLALNEMEAA  416 (485)
Q Consensus       392 ~~~~l~~~~~~~g~~~~A~~~~~~~  416 (485)
                       +..-+..|.+.|++.+|.+.--+.
T Consensus       265 -~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  265 -DEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             -hHHHHHHHHHCCCHHHHHHHHHHc
Confidence             234567788999999988765443

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

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=96.91  E-value=0.01  Score=48.50  Aligned_cols=36  Identities=8%  Similarity=0.036  Sum_probs=31.7

Q ss_pred             cHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhccc
Q 048394          368 MYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQ  405 (485)
Q Consensus       368 ~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  405 (485)
                      +-+-|++++++|...|+  -||..++..+++.|.+.+.
T Consensus       118 Qq~c~i~lL~qME~~gV--~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  118 QQECAIDLLEQMENNGV--MPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHHHHHHHcCC--CCcHHHHHHHHHHhccccH
Confidence            45778999999999999  9999999999999977664

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.88  E-value=0.05  Score=47.89  Aligned_cols=233  Identities=12%  Similarity=0.019  Sum_probs=107.3

Q ss_pred             HhcCCHhHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHh--cCC----CChHHHHHHHHHHHhc
Q 048394          225 SHLNDIDGVERVFYEMCNEC-EDKCRWTTYSNLASIYVKAELFEKAELALKKLEE--MKP----RDRKAYHFLISLYCNT  297 (485)
Q Consensus       225 ~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~----~~~~~~~~l~~~~~~~  297 (485)
                      ....+.++|+..+......- ....-..+|..+..+.++.|.+++++..--.-.+  ...    .--.+|..+.+++-+.
T Consensus        17 y~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l   96 (518)
T KOG1941|consen   17 YQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKL   96 (518)
T ss_pred             hcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566777776666554411 1222334555666666777766666543322211  000    1123344444444444


Q ss_pred             CChhhHHHHHHHhhhcCCC-----ChhhHHHHHHHHHhcCChhHHHHHHHHHHHcc-----CCCCHHhHHHHHHHHHhcC
Q 048394          298 SNLDAVNRVWGILKSTFPP-----TNTSYLVLLQALAKLNAIDILKQCFEEWESRC-----SSYDMRLADVIIRAYLQKD  367 (485)
Q Consensus       298 ~~~~~a~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~  367 (485)
                      .++.+++.+-..-......     ......++..++...+.++++++.|+...+-.     ......++-.|...|.+..
T Consensus        97 ~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~  176 (518)
T KOG1941|consen   97 CEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLK  176 (518)
T ss_pred             HHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHH
Confidence            4444444433322211110     11223344555555556666666666554321     1112334555666666666


Q ss_pred             cHHHHHHHHHHHHhc--ccccCCchhHHHHHHH-----HHHhcccHHHHHHHHHHHHHHhhhcCCCcc-HHHHHHHHHHH
Q 048394          368 MYEEAALIFNNAKKR--ANASARFFKSRESFMI-----YYLRSRQLDLALNEMEAALSEAKQFHWRPM-QVTVDTFFRFF  439 (485)
Q Consensus       368 ~~~~A~~~~~~~~~~--~~~~~p~~~~~~~l~~-----~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~  439 (485)
                      ++++|.-+..+..+.  .+....-..-|..++.     ++...|....|.+..++..+.....+..+. ......+...|
T Consensus       177 D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIy  256 (518)
T KOG1941|consen  177 DYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIY  256 (518)
T ss_pred             hhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHH
Confidence            666666665555443  1100111122333321     223456666666666666665544333332 22334445556


Q ss_pred             hhcCChhhHHHHHHHHhh
Q 048394          440 EEEKDVDGAEEFCKVLKS  457 (485)
Q Consensus       440 ~~~~~~~~A~~~~~~~~~  457 (485)
                      ...|+.+.|..-|+.+..
T Consensus       257 R~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  257 RSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HhcccHhHHHHHHHHHHH
Confidence            666666665555555544

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.85  E-value=0.024  Score=50.84  Aligned_cols=109  Identities=14%  Similarity=0.077  Sum_probs=59.2

Q ss_pred             HHHHhcCCHhHHHHHHHHHHhcc----CCC---------CcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHH
Q 048394          222 QSYSHLNDIDGVERVFYEMCNEC----EDK---------CRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYH  288 (485)
Q Consensus       222 ~~~~~~~~~~~a~~~~~~~~~~~----~~~---------~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  288 (485)
                      +.|.+.|++..|...|+.....-    ..+         .-..++..+..+|.+.+++..|+...+......|+|.....
T Consensus       216 n~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALy  295 (397)
T KOG0543|consen  216 NVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALY  295 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHH
Confidence            34566677777777666654410    011         11223444555566666666666666666665555666555


Q ss_pred             HHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHh
Q 048394          289 FLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAK  330 (485)
Q Consensus       289 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  330 (485)
                      --..+|...|+++.|...|+++.+..|.|..+-+.++.+--+
T Consensus       296 RrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k  337 (397)
T KOG0543|consen  296 RRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQK  337 (397)
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence            556666666666666666666665555554444444444333

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.83  E-value=0.051  Score=41.49  Aligned_cols=68  Identities=18%  Similarity=0.259  Sum_probs=32.8

Q ss_pred             HhcccHHHHHHHHHHHHhcCC---CChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC-ChhhHHHHHHHH
Q 048394          261 VKAELFEKAELALKKLEEMKP---RDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-TNTSYLVLLQAL  328 (485)
Q Consensus       261 ~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~  328 (485)
                      .+.|++++|.+.|+.+....|   -...+...++.+|.+.+++++|...+++..+..|. ....|...+.++
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL   92 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGL   92 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHH
Confidence            345555555555555555222   22334444555555555555555555555555554 333344344433

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.80  E-value=0.0069  Score=41.57  Aligned_cols=67  Identities=18%  Similarity=0.143  Sum_probs=45.8

Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcc--c-ccCCc-hhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          353 MRLADVIIRAYLQKDMYEEAALIFNNAKKRA--N-ASARF-FKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       353 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~-~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      ..+++.+...|...|++++|+..|++..+..  . ...|+ ..++..+...|...|++++|++++++..+.
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            3466777888888888888888888776431  1 00222 445677777888888888888888887664

...

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.77  E-value=0.31  Score=42.12  Aligned_cols=145  Identities=14%  Similarity=0.009  Sum_probs=83.9

Q ss_pred             HHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhH
Q 048394          153 CYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDG  232 (485)
Q Consensus       153 ~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  232 (485)
                      .....|++.+|..+|+........ +...--.++.+|...|+.+.|..++..+...--.........-|..+.+.....+
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            345677777888777777765544 4455666777777788888887777776543211122222223444444444444


Q ss_pred             HHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHh--cCCCChHHHHHHHHHHHhcCChh
Q 048394          233 VERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEE--MKPRDRKAYHFLISLYCNTSNLD  301 (485)
Q Consensus       233 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~  301 (485)
                      ...+-...-.   .+.|...-..+...+...|+.+.|.+.+-.+..  ..-.+...-..+++.+.--|.-+
T Consensus       222 ~~~l~~~~aa---dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~D  289 (304)
T COG3118         222 IQDLQRRLAA---DPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPAD  289 (304)
T ss_pred             HHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCC
Confidence            4444444433   555666666677777777777777766655555  23334555555665555555333

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.77  E-value=0.017  Score=51.72  Aligned_cols=76  Identities=14%  Similarity=-0.003  Sum_probs=36.9

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHH
Q 048394          393 RESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKT  472 (485)
Q Consensus       393 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  472 (485)
                      +..+..+|.+.+++..|++..++.+..     -+++...+..=..+|...|+++.|+..|+++.+..|.|..+-..|+.+
T Consensus       260 ~lNlA~c~lKl~~~~~Ai~~c~kvLe~-----~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l  334 (397)
T KOG0543|consen  260 HLNLAACYLKLKEYKEAIESCNKVLEL-----DPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKL  334 (397)
T ss_pred             hhHHHHHHHhhhhHHHHHHHHHHHHhc-----CCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            334444445555555555555555544     233444444444455555555555555555555555554444444443


Q ss_pred             H
Q 048394          473 Y  473 (485)
Q Consensus       473 ~  473 (485)
                      -
T Consensus       335 ~  335 (397)
T KOG0543|consen  335 K  335 (397)
T ss_pred             H
Confidence            3

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.77  E-value=0.048  Score=46.38  Aligned_cols=61  Identities=15%  Similarity=0.112  Sum_probs=25.8

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCC---CChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC
Q 048394          256 LASIYVKAELFEKAELALKKLEEMKP---RDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP  316 (485)
Q Consensus       256 l~~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  316 (485)
                      |..++...|+++.|..+|..+.+..|   .-+.++..+..+..+.|+.++|..+|+++.+..|.
T Consensus       184 LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k~YP~  247 (262)
T COG1729         184 LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIKRYPG  247 (262)
T ss_pred             HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCC
Confidence            44444444444444444444444111   22333444444444444444444444444444433

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.76  E-value=0.082  Score=45.01  Aligned_cols=110  Identities=10%  Similarity=-0.095  Sum_probs=80.0

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHH
Q 048394          355 LADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDT  434 (485)
Q Consensus       355 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  434 (485)
                      .|+.-+.. .+.|++..|..-|...++......-....+-.|..++...|++++|...|..+.+..+.  .+.-++.+..
T Consensus       144 ~Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~--s~KApdallK  220 (262)
T COG1729         144 LYNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPK--SPKAPDALLK  220 (262)
T ss_pred             HHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCC--CCCChHHHHH
Confidence            57755554 45677999999999888763211222334556888899999999999999998886421  2233567777


Q ss_pred             HHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHH
Q 048394          435 FFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYS  467 (485)
Q Consensus       435 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  467 (485)
                      |..+..+.|+.++|...|+++.+..|..+.+-.
T Consensus       221 lg~~~~~l~~~d~A~atl~qv~k~YP~t~aA~~  253 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQVIKRYPGTDAAKL  253 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHCCCCHHHHH
Confidence            788888899999999999999998887765543

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.73  E-value=0.27  Score=41.01  Aligned_cols=202  Identities=17%  Similarity=0.195  Sum_probs=91.7

Q ss_pred             hHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 048394          113 DFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLR  191 (485)
Q Consensus       113 ~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~  191 (485)
                      .|.....+|....++++|...+.+..+ ...|...|.+       ...++.|.-+.++|....-  -+..|+-....|..
T Consensus        33 ~yekAAvafRnAk~feKakdcLlkA~~~yEnnrslfhA-------AKayEqaamLake~~klsE--vvdl~eKAs~lY~E  103 (308)
T KOG1585|consen   33 LYEKAAVAFRNAKKFEKAKDCLLKASKGYENNRSLFHA-------AKAYEQAAMLAKELSKLSE--VVDLYEKASELYVE  103 (308)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcccHHHH-------HHHHHHHHHHHHHHHHhHH--HHHHHHHHHHHHHH
Confidence            344445556666667776666665554 2222222221       2334555555555554321  12345555666677


Q ss_pred             CCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHh----ccCCCCcHHHHHHHHHHHHhcccHH
Q 048394          192 LGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCN----ECEDKCRWTTYSNLASIYVKAELFE  267 (485)
Q Consensus       192 ~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~  267 (485)
                      .|.++.|-..+++.-+.                ...-+++.|++++++...    .....--...+......+++...++
T Consensus       104 ~GspdtAAmaleKAak~----------------lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~  167 (308)
T KOG1585|consen  104 CGSPDTAAMALEKAAKA----------------LENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFT  167 (308)
T ss_pred             hCCcchHHHHHHHHHHH----------------hhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhh
Confidence            77776666665554331                112233333333333221    0011112223333445555556665


Q ss_pred             HHHHHHHHHHh------cCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhc---CCC-ChhhHHHHHHHHHhcCChhHH
Q 048394          268 KAELALKKLEE------MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKST---FPP-TNTSYLVLLQALAKLNAIDIL  337 (485)
Q Consensus       268 ~A~~~~~~~~~------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~-~~~~~~~l~~~~~~~~~~~~a  337 (485)
                      +|-..+.+-..      ..+..-..|...|-.+....++..|...++.-.+.   ..+ +..+...|+.+| ..|+.+++
T Consensus       168 Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~  246 (308)
T KOG1585|consen  168 EAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEI  246 (308)
T ss_pred             HHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHH
Confidence            55544433222      11111223444444555555666666666653221   112 445555555554 23555554


Q ss_pred             HHH
Q 048394          338 KQC  340 (485)
Q Consensus       338 ~~~  340 (485)
                      .++
T Consensus       247 ~kv  249 (308)
T KOG1585|consen  247 KKV  249 (308)
T ss_pred             HHH
Confidence            443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.72  E-value=0.3  Score=41.33  Aligned_cols=51  Identities=24%  Similarity=0.257  Sum_probs=23.4

Q ss_pred             hhCCHHHHHHHHHhhcccCC----CHhHHHHHHHHHHhcCcHHHHHHHHHHHHhC
Q 048394          123 KTNGIAAAEKYFNGLSEYAK----NRYTYGALLNCYCKELMTERALALFEKMDEL  173 (485)
Q Consensus       123 ~~g~~~~a~~~~~~~~~~~~----~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  173 (485)
                      +.|++++|.+.|+.+....|    ...+--.++.++.+.++++.|+..+++....
T Consensus        46 ~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~l  100 (254)
T COG4105          46 QKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRL  100 (254)
T ss_pred             hcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            34555555555555444111    1223334444445555555555555555443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.72  E-value=0.32  Score=41.57  Aligned_cols=211  Identities=14%  Similarity=0.039  Sum_probs=156.0

Q ss_pred             cccHHHHHHHHHHHHhcCCC--ChHHHHHHHHHHHhcCChhhHHHHHHHhhh--cCCCChhhHHHHHHHHHhcCChhHHH
Q 048394          263 AELFEKAELALKKLEEMKPR--DRKAYHFLISLYCNTSNLDAVNRVWGILKS--TFPPTNTSYLVLLQALAKLNAIDILK  338 (485)
Q Consensus       263 ~~~~~~A~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~  338 (485)
                      .+....+...+.......+.  ....+......+...+.+..+...+.....  ........+......+...++...+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            35555666666665554432  367788888889999999999998888776  33446777778888888889999999


Q ss_pred             HHHHHHHHccCCCCHHhHHHHHH-HHHhcCcHHHHHHHHHHHHhcccccCC----chhHHHHHHHHHHhcccHHHHHHHH
Q 048394          339 QCFEEWESRCSSYDMRLADVIIR-AYLQKDMYEEAALIFNNAKKRANASAR----FFKSRESFMIYYLRSRQLDLALNEM  413 (485)
Q Consensus       339 ~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~A~~~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~A~~~~  413 (485)
                      +.+.........+ ......... .+...|+++.|...+.+....    .|    ....+......+...++.+.+...+
T Consensus       116 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  190 (291)
T COG0457         116 ELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALEL----DPELNELAEALLALGALLEALGRYEEALELL  190 (291)
T ss_pred             HHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhc----CCCccchHHHHHHhhhHHHHhcCHHHHHHHH
Confidence            9999988765543 222222333 788999999999999998653    33    2233334444467789999999999


Q ss_pred             HHHHHHhhhcCCCc-cHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchh
Q 048394          414 EAALSEAKQFHWRP-MQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDM  483 (485)
Q Consensus       414 ~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  483 (485)
                      ......     .+. ....+..+...+...++++.|...+.......|.....+..+...+...|.++++.
T Consensus       191 ~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  256 (291)
T COG0457         191 EKALKL-----NPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEAL  256 (291)
T ss_pred             HHHHhh-----CcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHH
Confidence            999987     444 47788888889999999999999999999988876667777777776555555543

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.72  E-value=0.068  Score=49.20  Aligned_cols=69  Identities=12%  Similarity=-0.021  Sum_probs=53.4

Q ss_pred             CCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCh---HHHHHHHHHHHhcCChhhHHHHHHHhhhc
Q 048394          245 EDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDR---KAYHFLISLYCNTSNLDAVNRVWGILKST  313 (485)
Q Consensus       245 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  313 (485)
                      ..+.+...++.+..+|.+.|++++|+..|++..+..|.+.   .+|..+..+|...|+.++|...+++..+.
T Consensus        70 ~dP~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         70 ADVKTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3555677778888888888888888888888887777665   34888888888888888888888887664

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=96.70  E-value=0.4  Score=42.47  Aligned_cols=165  Identities=12%  Similarity=0.074  Sum_probs=79.9

Q ss_pred             HHHHHHHHHHHhcCChh---hHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHH
Q 048394          285 KAYHFLISLYCNTSNLD---AVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIR  361 (485)
Q Consensus       285 ~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  361 (485)
                      .+...++.+|...+..+   +|..+++.+....+..+..+..-+..+.+.++.+.+.+++..|...-.. ....+...+.
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~-~e~~~~~~l~  163 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLESEYGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDH-SESNFDSILH  163 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhccc-ccchHHHHHH
Confidence            34555666666655543   4455555555555555555555666666667777777777777665221 2223333333


Q ss_pred             HH---HhcCcHHHHHHHHHHHHhcccccCCchh-HHHHH-HHH-H--Hhc------ccHHHHHHHHHHHHHHhhhcCCCc
Q 048394          362 AY---LQKDMYEEAALIFNNAKKRANASARFFK-SRESF-MIY-Y--LRS------RQLDLALNEMEAALSEAKQFHWRP  427 (485)
Q Consensus       362 ~~---~~~~~~~~A~~~~~~~~~~~~~~~p~~~-~~~~l-~~~-~--~~~------g~~~~A~~~~~~~~~~~~~~~~~~  427 (485)
                      .+   .. .....|...++.+....+  .|... ....+ +.. +  .+.      +..+...++++...+..   ..+.
T Consensus       164 ~i~~l~~-~~~~~a~~~ld~~l~~r~--~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~---~~~l  237 (278)
T PF08631_consen  164 HIKQLAE-KSPELAAFCLDYLLLNRF--KSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSL---GKQL  237 (278)
T ss_pred             HHHHHHh-hCcHHHHHHHHHHHHHHh--CCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHh---cCCC
Confidence            32   32 233455555555554444  33332 11111 111 1  111      11344444455333221   1222


Q ss_pred             cHHH---HHHHH----HHHhhcCChhhHHHHHHHHh
Q 048394          428 MQVT---VDTFF----RFFEEEKDVDGAEEFCKVLK  456 (485)
Q Consensus       428 ~~~~---~~~l~----~~~~~~~~~~~A~~~~~~~~  456 (485)
                      +..+   ..+++    ..+.+.++++.|..+|+-..
T Consensus       238 s~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  238 SAEAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             CHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            3333   33333    34567789999999887654

It is also involved in sporulation [].

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.69  E-value=0.2  Score=47.98  Aligned_cols=179  Identities=11%  Similarity=-0.040  Sum_probs=114.5

Q ss_pred             HHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-CCCh------HHHHHHHHHHHh----cCChhh
Q 048394          234 ERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMK-PRDR------KAYHFLISLYCN----TSNLDA  302 (485)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~------~~~~~l~~~~~~----~~~~~~  302 (485)
                      .-+|.-+..  -.||...-   +++...-.||-+.+++.+....+.. -..+      ..|...+..++.    ....+.
T Consensus       177 ~G~f~L~lS--lLPp~~~k---ll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~  251 (468)
T PF10300_consen  177 FGLFNLVLS--LLPPKVLK---LLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEE  251 (468)
T ss_pred             HHHHHHHHH--hCCHHHHH---HHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHH
Confidence            345555555  45555554   6777777788888888887766521 1111      233444443333    345678


Q ss_pred             HHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHcc---CCCCHHhHHHHHHHHHhcCcHHHHHHHHHHH
Q 048394          303 VNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRC---SSYDMRLADVIIRAYLQKDMYEEAALIFNNA  379 (485)
Q Consensus       303 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  379 (485)
                      |.+++..+....|....-...-...+...|++++|.+.|+......   .+.....+--+.-.+.-..+|++|...|..+
T Consensus       252 a~~lL~~~~~~yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L  331 (468)
T PF10300_consen  252 AEELLEEMLKRYPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRL  331 (468)
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHH
Confidence            8888988888888766666666677778899999999998755321   1112233344566677788999999999998


Q ss_pred             HhcccccCCchhHHHHHHHHH-HhcccH-------HHHHHHHHHHHHHh
Q 048394          380 KKRANASARFFKSRESFMIYY-LRSRQL-------DLALNEMEAALSEA  420 (485)
Q Consensus       380 ~~~~~~~~p~~~~~~~l~~~~-~~~g~~-------~~A~~~~~~~~~~~  420 (485)
                      .+.+   ......|.-+..+| ...|+.       ++|.+++.+.....
T Consensus       332 ~~~s---~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~l~  377 (468)
T PF10300_consen  332 LKES---KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPKLK  377 (468)
T ss_pred             Hhcc---ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHHHH
Confidence            8865   33444554444333 456666       88888888876543

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.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=96.62  E-value=0.57  Score=43.25  Aligned_cols=125  Identities=8%  Similarity=-0.061  Sum_probs=68.0

Q ss_pred             CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhccccc-CCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCC-----
Q 048394          352 DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANAS-ARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHW-----  425 (485)
Q Consensus       352 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-----  425 (485)
                      ...+|..++..+.+.|.++.|...+.++...+... ...+.....-+...-..|+..+|+..++...........     
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~~~~~~~~  224 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSKNIDSISN  224 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhccccccH
Confidence            34455566666666666666666666665532100 002222223344445566666666666665552111000     


Q ss_pred             ------------------------CccHHHHHHHHHHHhhc------CChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHH
Q 048394          426 ------------------------RPMQVTVDTFFRFFEEE------KDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIA  475 (485)
Q Consensus       426 ------------------------~~~~~~~~~l~~~~~~~------~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  475 (485)
                                              ..-...+..+...+...      ++.+++.+.|+.+.+..|....+|..++..+.+
T Consensus       225 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~~~~~  304 (352)
T PF02259_consen  225 AELKSGLLESLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHSWALFNDK  304 (352)
T ss_pred             HHHhhccccccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHHHHHHHHH
Confidence                                    00012233333333344      777888888888888888887888888877766


Q ss_pred             h
Q 048394          476 A  476 (485)
Q Consensus       476 ~  476 (485)
                      .
T Consensus       305 ~  305 (352)
T PF02259_consen  305 L  305 (352)
T ss_pred             H
Confidence            4

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.60  E-value=0.21  Score=47.78  Aligned_cols=163  Identities=13%  Similarity=0.088  Sum_probs=112.7

Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHH-----HHHHHHHHHHh----cccHHHHHHHHHHHHhcCCCChHHHH
Q 048394          218 IVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWT-----TYSNLASIYVK----AELFEKAELALKKLEEMKPRDRKAYH  288 (485)
Q Consensus       218 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~  288 (485)
                      ..++....-.||-+.+++.+....+..+..-...     .|...+..++.    ..+.+.|.+++..+.+..|....-..
T Consensus       192 ~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~yP~s~lfl~  271 (468)
T PF10300_consen  192 LKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRYPNSALFLF  271 (468)
T ss_pred             HHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhCCCcHHHHH
Confidence            4466666778999999999998877333322222     23333333332    45788899999999988886666666


Q ss_pred             HHHHHHHhcCChhhHHHHHHHhhhcCC--C--ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHH-HHH
Q 048394          289 FLISLYCNTSNLDAVNRVWGILKSTFP--P--TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVII-RAY  363 (485)
Q Consensus       289 ~l~~~~~~~~~~~~a~~~~~~~~~~~~--~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~  363 (485)
                      .-.+.+...|++++|.+.|+.......  +  ....+--+...+.-..++++|.+.|..+.+.. ..+..+|.-+. .++
T Consensus       272 ~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c~  350 (468)
T PF10300_consen  272 FEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAACL  350 (468)
T ss_pred             HHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHH
Confidence            677788899999999999997654222  2  44556677778888999999999999998753 22444444333 334


Q ss_pred             HhcCcH-------HHHHHHHHHHHh
Q 048394          364 LQKDMY-------EEAALIFNNAKK  381 (485)
Q Consensus       364 ~~~~~~-------~~A~~~~~~~~~  381 (485)
                      ...|+.       ++|..+|.+...
T Consensus       351 ~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  351 LMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HhhccchhhhhhHHHHHHHHHHHHH
Confidence            566777       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.

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=96.59  E-value=0.31  Score=39.90  Aligned_cols=82  Identities=15%  Similarity=0.101  Sum_probs=38.1

Q ss_pred             cHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 048394          265 LFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEW  344 (485)
Q Consensus       265 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  344 (485)
                      -+.-|.--|.+...+.|.-+.+||-+.--+...|+++.|.+.|+...+..|....+...-.-++.-.|++.-|.+=+...
T Consensus        80 L~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~LAq~d~~~f  159 (297)
T COG4785          80 LRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQDDLLAF  159 (297)
T ss_pred             HHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHhhHHHHHHH
Confidence            33334444444444445455555555555555555555555555555555442222222222233345555555444444


Q ss_pred             HH
Q 048394          345 ES  346 (485)
Q Consensus       345 ~~  346 (485)
                      -+
T Consensus       160 YQ  161 (297)
T COG4785         160 YQ  161 (297)
T ss_pred             Hh
Confidence            33

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.59  E-value=0.4  Score=45.86  Aligned_cols=218  Identities=13%  Similarity=0.128  Sum_probs=110.6

Q ss_pred             HHHHHHHHHHcCC--hHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHH-----HH
Q 048394           79 LEYCVRSLRKFGR--YRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGA-----LL  151 (485)
Q Consensus        79 ~~~l~~~~~~~~~--~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~-----li  151 (485)
                      ++..=++|.+-++  +-+-+--+++++++|-.|+..   .+...++-.|++.+|-++|.+-.....-...|+.     +.
T Consensus       601 f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~i---LlA~~~Ay~gKF~EAAklFk~~G~enRAlEmyTDlRMFD~a  677 (1081)
T KOG1538|consen  601 FETARKAYIRVRDLRYLELISELEERKKRGETPNDL---LLADVFAYQGKFHEAAKLFKRSGHENRALEMYTDLRMFDYA  677 (1081)
T ss_pred             hHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHH---HHHHHHHhhhhHHHHHHHHHHcCchhhHHHHHHHHHHHHHH
Confidence            3444455555444  334445556677777667763   3445566678888888888766541111222221     22


Q ss_pred             HHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHH------HHHcCCCc---cHHHHHHHHH
Q 048394          152 NCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQ------MKQRNISL---DNLTYIVWMQ  222 (485)
Q Consensus       152 ~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~------~~~~~~~p---~~~~~~~l~~  222 (485)
                      .-+...|..++-..+.++-.+.  ..|..-=.+....+...|+.++|..+.-+      +.+.+.+.   +..+...+..
T Consensus       678 QE~~~~g~~~eKKmL~RKRA~W--Ar~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~  755 (1081)
T KOG1538|consen  678 QEFLGSGDPKEKKMLIRKRADW--ARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCAT  755 (1081)
T ss_pred             HHHhhcCChHHHHHHHHHHHHH--hhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHH
Confidence            3344555555544444332211  11111113344555667777777665321      12222122   2333444444


Q ss_pred             HHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCC----------ChHHHHHHHH
Q 048394          223 SYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPR----------DRKAYHFLIS  292 (485)
Q Consensus       223 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~----------~~~~~~~l~~  292 (485)
                      -+.+...+..|-++|..|-.          ...+++.....++|++|..+-++..+..+.          ...-|...-.
T Consensus       756 ylk~l~~~gLAaeIF~k~gD----------~ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqk  825 (1081)
T KOG1538|consen  756 YLKKLDSPGLAAEIFLKMGD----------LKSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQK  825 (1081)
T ss_pred             HHhhccccchHHHHHHHhcc----------HHHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHHH
Confidence            44555666777777777654          122677777888888888887775442221          0111222233


Q ss_pred             HHHhcCChhhHHHHHHHhh
Q 048394          293 LYCNTSNLDAVNRVWGILK  311 (485)
Q Consensus       293 ~~~~~~~~~~a~~~~~~~~  311 (485)
                      +|.+.|+-.+|.++++++.
T Consensus       826 AfhkAGr~~EA~~vLeQLt  844 (1081)
T KOG1538|consen  826 AFHKAGRQREAVQVLEQLT  844 (1081)
T ss_pred             HHHHhcchHHHHHHHHHhh
Confidence            4555555555555555543

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.58  E-value=0.35  Score=40.38  Aligned_cols=210  Identities=12%  Similarity=0.107  Sum_probs=114.3

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Q 048394          216 TYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYC  295 (485)
Q Consensus       216 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  295 (485)
                      .|.-...+|....++++|...+....+  +...+...|. .      .+.++.|.-+.+++.+... -...|+.....|.
T Consensus        33 ~yekAAvafRnAk~feKakdcLlkA~~--~yEnnrslfh-A------AKayEqaamLake~~klsE-vvdl~eKAs~lY~  102 (308)
T KOG1585|consen   33 LYEKAAVAFRNAKKFEKAKDCLLKASK--GYENNRSLFH-A------AKAYEQAAMLAKELSKLSE-VVDLYEKASELYV  102 (308)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHH--HHHhcccHHH-H------HHHHHHHHHHHHHHHHhHH-HHHHHHHHHHHHH
Confidence            344455566667777777776666665  2222222111 1      2233444444444443222 2345556666677


Q ss_pred             hcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHc---cC--CCCHHhHHHHHHHHHhcCcHH
Q 048394          296 NTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESR---CS--SYDMRLADVIIRAYLQKDMYE  370 (485)
Q Consensus       296 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~--~~~~~~~~~l~~~~~~~~~~~  370 (485)
                      ..|.++.|-..+++.-+               .....+++.|+++|++....   +-  +--...+....+++.+...++
T Consensus       103 E~GspdtAAmaleKAak---------------~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~  167 (308)
T KOG1585|consen  103 ECGSPDTAAMALEKAAK---------------ALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFT  167 (308)
T ss_pred             HhCCcchHHHHHHHHHH---------------HhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhh
Confidence            77777766666655422               23456677777777765432   11  112344556667777888888


Q ss_pred             HHHHHHHHHHhcc--cccCCch-hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhh
Q 048394          371 EAALIFNNAKKRA--NASARFF-KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDG  447 (485)
Q Consensus       371 ~A~~~~~~~~~~~--~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  447 (485)
                      +|-..|.+-....  +...|+. ..|...|-.+.-..++..|..+++.-.+.+... -.-+..+...|+.+|- .||.++
T Consensus       168 Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~-~sed~r~lenLL~ayd-~gD~E~  245 (308)
T KOG1585|consen  168 EAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFL-KSEDSRSLENLLTAYD-EGDIEE  245 (308)
T ss_pred             HHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCcccc-ChHHHHHHHHHHHHhc-cCCHHH
Confidence            7777665543321  1001111 124445556667778888888888876653111 1224566777777665 577777


Q ss_pred             HHHHH
Q 048394          448 AEEFC  452 (485)
Q Consensus       448 A~~~~  452 (485)
                      +.+++
T Consensus       246 ~~kvl  250 (308)
T KOG1585|consen  246 IKKVL  250 (308)
T ss_pred             HHHHH
Confidence            66655

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=96.57  E-value=0.081  Score=41.56  Aligned_cols=61  Identities=21%  Similarity=0.319  Sum_probs=50.9

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhh
Q 048394          252 TYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKS  312 (485)
Q Consensus       252 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  312 (485)
                      +...++..+...|+++.|...+..+....|.+...|..++.+|...|+...|.++|+.+..
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~  124 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRR  124 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            3445777788899999999999999999999999999999999999999999999987743

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PRK11906 transcriptional regulator; Provisional

Probab=96.56  E-value=0.27  Score=45.51  Aligned_cols=148  Identities=11%  Similarity=0.065  Sum_probs=98.0

Q ss_pred             HhHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhc---------ccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCC
Q 048394          230 IDGVERVFYEMCNEC-EDKCRWTTYSNLASIYVKA---------ELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSN  299 (485)
Q Consensus       230 ~~~a~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~---------~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  299 (485)
                      .+.|..+|.+..... ..|.....|..+..++...         .+..+|.+..++..+.++.|+.+...+..+....++
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~~Da~a~~~~g~~~~~~~~  353 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITTVDGKILAIMGLITGLSGQ  353 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhhcc
Confidence            467788888887312 3344456665555555432         345667777777777888888888888888888888


Q ss_pred             hhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCC-HHhHHHHHHHHHhcCcHHHHHHHHHH
Q 048394          300 LDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYD-MRLADVIIRAYLQKDMYEEAALIFNN  378 (485)
Q Consensus       300 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~  378 (485)
                      .+.|...|++....+|....+|......+.-.|+.++|.+.+++..+..+.-- .......++.|+.. ..++|.+++-+
T Consensus       354 ~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  432 (458)
T PRK11906        354 AKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPN-PLKNNIKLYYK  432 (458)
T ss_pred             hhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCC-chhhhHHHHhh
Confidence            88888888888888888666666666666778888888888888766533211 22222233355543 45666666543

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.54  E-value=0.023  Score=48.11  Aligned_cols=100  Identities=13%  Similarity=0.146  Sum_probs=67.1

Q ss_pred             HHHHHhhcccCCCHhHHHHHHHHHHh-----cCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCC------------
Q 048394          131 EKYFNGLSEYAKNRYTYGALLNCYCK-----ELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLG------------  193 (485)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~li~~~~~-----~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g------------  193 (485)
                      +..|........|-.+|...+..+..     .+.++-....++.|.+-|+..|..+|+.|++.+-+..            
T Consensus        54 e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~  133 (406)
T KOG3941|consen   54 EKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFL  133 (406)
T ss_pred             hhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHh
Confidence            34444444334455666666655543     3566767777888888888888888888887765432            


Q ss_pred             ----CcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCH
Q 048394          194 ----QPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDI  230 (485)
Q Consensus       194 ----~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  230 (485)
                          +-+-+++++++|...|+.||..+-..|++++.+.+-.
T Consensus       134 HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  134 HYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             hCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence                2345677777787778888877777777777766643

>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=96.53  E-value=0.074  Score=50.06  Aligned_cols=152  Identities=19%  Similarity=0.183  Sum_probs=99.3

Q ss_pred             CcHHHHHHHHHHhCCC--CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHH
Q 048394           58 GSVTGALNAYIMEGKT--VRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFN  135 (485)
Q Consensus        58 ~~~~~~~~~~~~~g~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  135 (485)
                      ++..++++........  .+......+++-+-+.|.++.|+++-..         +   ..-.....+.|+++.|.++.+
T Consensus       275 ~d~~~v~~~i~~~~ll~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D---------~---~~rFeLAl~lg~L~~A~~~a~  342 (443)
T PF04053_consen  275 GDFEEVLRMIAASNLLPNIPKDQGQSIARFLEKKGYPELALQFVTD---------P---DHRFELALQLGNLDIALEIAK  342 (443)
T ss_dssp             T-HHH-----HHHHTGGG--HHHHHHHHHHHHHTT-HHHHHHHSS----------H---HHHHHHHHHCT-HHHHHHHCC
T ss_pred             CChhhhhhhhhhhhhcccCChhHHHHHHHHHHHCCCHHHHHhhcCC---------h---HHHhHHHHhcCCHHHHHHHHH
Confidence            4555544444322222  2355677788888888888888887443         2   233556668899999888877


Q ss_pred             hhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHH
Q 048394          136 GLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNL  215 (485)
Q Consensus       136 ~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  215 (485)
                      +..    +...|..|.....+.|+++-|.+.|++..+         |..|+-.|.-.|+.+...++.+.....|-     
T Consensus       343 ~~~----~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~-----  404 (443)
T PF04053_consen  343 ELD----DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERGD-----  404 (443)
T ss_dssp             CCS----THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT------
T ss_pred             hcC----cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHccC-----
Confidence            664    677899999999999999999998877553         66777778888888887777777776652     


Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHH
Q 048394          216 TYIVWMQSYSHLNDIDGVERVFYEM  240 (485)
Q Consensus       216 ~~~~l~~~~~~~~~~~~a~~~~~~~  240 (485)
                       ++....++...|+.++..+++...
T Consensus       405 -~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  405 -INIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             -HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             -HHHHHHHHHHcCCHHHHHHHHHHc
Confidence             455566666778888777777654

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.

>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=96.52  E-value=0.036  Score=41.86  Aligned_cols=49  Identities=10%  Similarity=0.009  Sum_probs=30.6

Q ss_pred             CCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHH
Q 048394          210 ISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLAS  258 (485)
Q Consensus       210 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  258 (485)
                      ..|+..+..+++.+|+..|++..|.++++...+..+++.+..++..|+.
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            4566666666666666666666666666666665555555555555554

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.52  E-value=0.081  Score=48.72  Aligned_cols=67  Identities=13%  Similarity=-0.091  Sum_probs=56.9

Q ss_pred             CccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcH---HHHHHHHHHHHhcccHHHHHHHHHHHHhc
Q 048394          211 SLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRW---TTYSNLASIYVKAELFEKAELALKKLEEM  279 (485)
Q Consensus       211 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  279 (485)
                      +.+...++.+..+|...|++++|+..|++..+  -.+.+.   .+|..+..+|...|+.++|+..++++.+.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALe--L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALE--LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34577889999999999999999999999988  333333   35889999999999999999999998874

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=96.47  E-value=0.57  Score=41.46  Aligned_cols=165  Identities=13%  Similarity=0.164  Sum_probs=95.4

Q ss_pred             HHHHHHHHHHHhcccH---HHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHH
Q 048394          251 TTYSNLASIYVKAELF---EKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQA  327 (485)
Q Consensus       251 ~~~~~l~~~~~~~~~~---~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  327 (485)
                      .++..++.+|...+..   ++|..+++.+....+..+..+..-++.+.+.++.+.+.+++.+|.....-....+...+..
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~~~~~~l~~  164 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLESEYGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDHSESNFDSILHH  164 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcccccchHHHHHHH
Confidence            3556677777776654   4566666666665555567777778888888889999999999888765444444444444


Q ss_pred             H---HhcCChhHHHHHHHHHHHccCCCCHH-hH-HHHHHH-HH--hcC------cHHHHHHHHHHHHhc-ccccCCchhH
Q 048394          328 L---AKLNAIDILKQCFEEWESRCSSYDMR-LA-DVIIRA-YL--QKD------MYEEAALIFNNAKKR-ANASARFFKS  392 (485)
Q Consensus       328 ~---~~~~~~~~a~~~~~~~~~~~~~~~~~-~~-~~l~~~-~~--~~~------~~~~A~~~~~~~~~~-~~~~~p~~~~  392 (485)
                      +   .. .....+...+..+....+.|... .. ..++.. +.  +.+      ..+....+++...+. +.  +.+..+
T Consensus       165 i~~l~~-~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~--~ls~~~  241 (278)
T PF08631_consen  165 IKQLAE-KSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGK--QLSAEA  241 (278)
T ss_pred             HHHHHh-hCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcC--CCCHHH
Confidence            4   33 33456666666665554554443 11 111111 11  111      144455555543332 21  223223


Q ss_pred             HH---HH----HHHHHhcccHHHHHHHHHHHHH
Q 048394          393 RE---SF----MIYYLRSRQLDLALNEMEAALS  418 (485)
Q Consensus       393 ~~---~l----~~~~~~~g~~~~A~~~~~~~~~  418 (485)
                      -.   ++    ...+.+.++++.|.++|+-...
T Consensus       242 ~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al~  274 (278)
T PF08631_consen  242 ASAIHTLLWNKGKKHYKAKNYDEAIEWYELALH  274 (278)
T ss_pred             HHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHH
Confidence            22   22    3446789999999999987653

It is also involved in sporulation [].

>PRK11906 transcriptional regulator; Provisional

Probab=96.44  E-value=0.41  Score=44.38  Aligned_cols=146  Identities=8%  Similarity=0.040  Sum_probs=104.8

Q ss_pred             cHHHHHHHHHHHH---hcCCCChHHHHHHHHHHHhc---------CChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcC
Q 048394          265 LFEKAELALKKLE---EMKPRDRKAYHFLISLYCNT---------SNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLN  332 (485)
Q Consensus       265 ~~~~A~~~~~~~~---~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  332 (485)
                      +.+.|..+|.+..   ...|.....|..+..++...         .+..+|.++-++..+.++.|..+...+..+..-.+
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~~Da~a~~~~g~~~~~~~  352 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITTVDGKILAIMGLITGLSG  352 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhhc
Confidence            4678889999999   57776777777777665532         23456777888888888888888888888888888


Q ss_pred             ChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchh---HHHHHHHHHHhcccHHHH
Q 048394          333 AIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFK---SRESFMIYYLRSRQLDLA  409 (485)
Q Consensus       333 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~---~~~~l~~~~~~~g~~~~A  409 (485)
                      +.+.|...|++....++. ...+|....-.+.-+|+.++|.+.+++..+.    .|...   .....++.|+.. ..+.|
T Consensus       353 ~~~~a~~~f~rA~~L~Pn-~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL----sP~~~~~~~~~~~~~~~~~~-~~~~~  426 (458)
T PRK11906        353 QAKVSHILFEQAKIHSTD-IASLYYYRALVHFHNEKIEEARICIDKSLQL----EPRRRKAVVIKECVDMYVPN-PLKNN  426 (458)
T ss_pred             chhhHHHHHHHHhhcCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc----CchhhHHHHHHHHHHHHcCC-chhhh
Confidence            899999999999887654 4556655666667789999999999987766    34332   222333344444 45777


Q ss_pred             HHHHHHH
Q 048394          410 LNEMEAA  416 (485)
Q Consensus       410 ~~~~~~~  416 (485)
                      +.+|-+-
T Consensus       427 ~~~~~~~  433 (458)
T PRK11906        427 IKLYYKE  433 (458)
T ss_pred             HHHHhhc
Confidence            7776553

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=96.44  E-value=0.37  Score=39.48  Aligned_cols=78  Identities=14%  Similarity=-0.005  Sum_probs=42.5

Q ss_pred             HHHHHHhhcccCCC-HhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHc
Q 048394          130 AEKYFNGLSEYAKN-RYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQR  208 (485)
Q Consensus       130 a~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  208 (485)
                      |+-=|.+...+.|+ +.+||-|.--+...|+++.|.+.|+...+.++.-+-...|.-| ++.-.|++.-|.+-+...-+.
T Consensus        84 AR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi-~~YY~gR~~LAq~d~~~fYQ~  162 (297)
T COG4785          84 ARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGI-ALYYGGRYKLAQDDLLAFYQD  162 (297)
T ss_pred             HhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccce-eeeecCchHhhHHHHHHHHhc
Confidence            33334444343333 4567777777777778888887777777765432211122222 233456777776665555443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.43  E-value=0.3  Score=37.96  Aligned_cols=125  Identities=10%  Similarity=0.113  Sum_probs=66.6

Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhc
Q 048394          148 GALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHL  227 (485)
Q Consensus       148 ~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  227 (485)
                      ..++..+...+.......+++.+...+. .+...++.++..|++.+. .+..+.+..      ..+......+++.|.+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~-~~ll~~l~~------~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDP-QKEIERLDN------KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCH-HHHHHHHHh------ccccCCHHHHHHHHHHc
Confidence            3455556666667777777777666653 355566777777765432 333333331      12223334456666666


Q ss_pred             CCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhc-ccHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Q 048394          228 NDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKA-ELFEKAELALKKLEEMKPRDRKAYHFLISLYC  295 (485)
Q Consensus       228 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  295 (485)
                      +.++++.-++..+..          +...+..+... ++++.|.+.+.+     ..++..|..++..+.
T Consensus        83 ~l~~~~~~l~~k~~~----------~~~Al~~~l~~~~d~~~a~~~~~~-----~~~~~lw~~~~~~~l  136 (140)
T smart00299       83 KLYEEAVELYKKDGN----------FKDAIVTLIEHLGNYEKAIEYFVK-----QNNPELWAEVLKALL  136 (140)
T ss_pred             CcHHHHHHHHHhhcC----------HHHHHHHHHHcccCHHHHHHHHHh-----CCCHHHHHHHHHHHH
Confidence            666666666655433          11123333333 566666666654     224556666665554

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=96.42  E-value=1.4  Score=45.56  Aligned_cols=25  Identities=32%  Similarity=0.317  Sum_probs=14.5

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHH
Q 048394           77 DMLEYCVRSLRKFGRYRHALEVIEW  101 (485)
Q Consensus        77 ~~~~~l~~~~~~~~~~~~A~~~~~~  101 (485)
                      ......++-++..+++.+|+++..+
T Consensus       678 ~lVLa~vr~~l~~~~y~~AF~~~Rk  702 (1265)
T KOG1920|consen  678 ILVLAKVRTLLDRLRYKEAFEVMRK  702 (1265)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344445556677777777655443

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.41  E-value=0.76  Score=42.20  Aligned_cols=195  Identities=11%  Similarity=0.030  Sum_probs=110.6

Q ss_pred             hHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC-C--h---hhHHHHHHHHHh----cCChhHHHHHHHHHHHccCCCCH
Q 048394          284 RKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-T--N---TSYLVLLQALAK----LNAIDILKQCFEEWESRCSSYDM  353 (485)
Q Consensus       284 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~--~---~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~  353 (485)
                      ..++..++....+.++...|.+.+.-+..-.|. .  .   .+-..+-+..+.    .-+...-+.+|..+....+. ..
T Consensus       298 i~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ldp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiD-rq  376 (549)
T PF07079_consen  298 IDRFGNLLSFKVKQVQTEEAKQYLALLKILDPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDID-RQ  376 (549)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhccc-HH
Confidence            456777777777778777777777766554443 1  0   111223333331    11222334455555544332 11


Q ss_pred             HhHHHH---HHHHHhcCc-HHHHHHHHHHHHhcccccCCchhH----HHHHHHHHH---hcccHHHHHHHHHHHHHHhhh
Q 048394          354 RLADVI---IRAYLQKDM-YEEAALIFNNAKKRANASARFFKS----RESFMIYYL---RSRQLDLALNEMEAALSEAKQ  422 (485)
Q Consensus       354 ~~~~~l---~~~~~~~~~-~~~A~~~~~~~~~~~~~~~p~~~~----~~~l~~~~~---~~g~~~~A~~~~~~~~~~~~~  422 (485)
                      .....|   ..-+.+.|. -++|..+++.+++-.   .-|...    +..+=.+|.   ....+.+-+.+-+-+.+.|..
T Consensus       377 QLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft---~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~  453 (549)
T PF07079_consen  377 QLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFT---NYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLT  453 (549)
T ss_pred             HHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhc---cccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCC
Confidence            112222   233555555 677888888777652   222222    222223332   234556666665556666665


Q ss_pred             cCCCccHHHHHHHHH--HHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchh
Q 048394          423 FHWRPMQVTVDTFFR--FFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDM  483 (485)
Q Consensus       423 ~~~~~~~~~~~~l~~--~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  483 (485)
                      +-...+...-+.|..  .+..+|++.++.-.-..+.+..| ++.+|..++-++....++++|.
T Consensus       454 ~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~  515 (549)
T PF07079_consen  454 PITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAW  515 (549)
T ss_pred             cccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHH
Confidence            544445555555553  45678888888777777777766 8888888888888888888875

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>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=96.35  E-value=0.1  Score=39.42  Aligned_cols=52  Identities=4%  Similarity=-0.186  Sum_probs=42.6

Q ss_pred             CCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhh
Q 048394          387 ARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEE  441 (485)
Q Consensus       387 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  441 (485)
                      .|+..+..+++.+|+..|++..|+++++...+.-   +++.+..+|..|+.-+..
T Consensus        49 ~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y---~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   49 YPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKY---PIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             CCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHH
Confidence            7888889999999999999999999999988874   366678889888865443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.34  E-value=0.41  Score=44.52  Aligned_cols=150  Identities=13%  Similarity=0.057  Sum_probs=76.5

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChh
Q 048394          256 LASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAID  335 (485)
Q Consensus       256 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  335 (485)
                      ++.-.-+..+...-.+.-+++.+..|.....|..|.+-  ......++.+++++..+.+....          .+....+
T Consensus       174 IMq~AWRERnp~aRIkaA~eALei~pdCAdAYILLAEE--eA~Ti~Eae~l~rqAvkAgE~~l----------g~s~~~~  241 (539)
T PF04184_consen  174 IMQKAWRERNPQARIKAAKEALEINPDCADAYILLAEE--EASTIVEAEELLRQAVKAGEASL----------GKSQFLQ  241 (539)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhhhhhhHHHhhcccc--cccCHHHHHHHHHHHHHHHHHhh----------chhhhhh
Confidence            44444556666666666666666666555666555432  23446677777777654433200          0000000


Q ss_pred             HHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHH
Q 048394          336 ILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEA  415 (485)
Q Consensus       336 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  415 (485)
                      ..-..++.+......+-..+-..+..+..+.|+.++|.+.+++|.+... ...+......|+.++...+.+.++..++.+
T Consensus       242 ~~g~~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p-~~~~l~IrenLie~LLelq~Yad~q~lL~k  320 (539)
T PF04184_consen  242 HHGHFWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFP-NLDNLNIRENLIEALLELQAYADVQALLAK  320 (539)
T ss_pred             cccchhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCC-ccchhhHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            0001111122222222233334455566667777777777777765421 012233455667777777777777777777


Q ss_pred             HHH
Q 048394          416 ALS  418 (485)
Q Consensus       416 ~~~  418 (485)
                      --+
T Consensus       321 YdD  323 (539)
T PF04184_consen  321 YDD  323 (539)
T ss_pred             hcc
Confidence            543

The molecular function of this protein is uncertain.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.25  E-value=0.13  Score=38.12  Aligned_cols=93  Identities=14%  Similarity=-0.005  Sum_probs=58.3

Q ss_pred             HHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHH---HHHHHHHH
Q 048394          362 AYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQV---TVDTFFRF  438 (485)
Q Consensus       362 ~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~---~~~~l~~~  438 (485)
                      +....|+.+.|++.|.+.+..-   +.....||.-..++.-.|+.++|++-+++.++..    -.....   .|..-...
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~---P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLa----g~~trtacqa~vQRg~l  124 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLA---PERASAYNNRAQALRLQGDDEEALDDLNKALELA----GDQTRTACQAFVQRGLL  124 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhc---ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhc----CccchHHHHHHHHHHHH
Confidence            3556677777777777766542   3345667777777777777777777777777653    111111   22222345


Q ss_pred             HhhcCChhhHHHHHHHHhhcCCC
Q 048394          439 FEEEKDVDGAEEFCKVLKSLNCL  461 (485)
Q Consensus       439 ~~~~~~~~~A~~~~~~~~~~~~~  461 (485)
                      |...|+.+.|..-|+.+-+++.+
T Consensus       125 yRl~g~dd~AR~DFe~AA~LGS~  147 (175)
T KOG4555|consen  125 YRLLGNDDAARADFEAAAQLGSK  147 (175)
T ss_pred             HHHhCchHHHHHhHHHHHHhCCH
Confidence            66677777777777777776654

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.23  E-value=0.81  Score=40.71  Aligned_cols=55  Identities=20%  Similarity=0.128  Sum_probs=25.6

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHc----cCCC-CHHhHHHHHHHHHhcCcHHHHHHHHHHH
Q 048394          325 LQALAKLNAIDILKQCFEEWESR----CSSY-DMRLADVIIRAYLQKDMYEEAALIFNNA  379 (485)
Q Consensus       325 ~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~  379 (485)
                      .-++...|.+-.|.+.-++..+.    |-.+ .......+.+.|...|+.+.|+.-|++.
T Consensus       213 aValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  213 AVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence            33444555555555555544332    2111 1222334555566666666666555543

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.19  E-value=0.25  Score=43.29  Aligned_cols=117  Identities=8%  Similarity=-0.042  Sum_probs=61.6

Q ss_pred             hcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccH----HHHHHHHHHHHhcCCHh
Q 048394          156 KELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDN----LTYIVWMQSYSHLNDID  231 (485)
Q Consensus       156 ~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~~~~~  231 (485)
                      -.|+..+|-..++++++.-+ .|..+++..=.+|.-.|+.+.-...++++... ..||.    ..-..+.-++...|-++
T Consensus       115 ~~g~~h~a~~~wdklL~d~P-tDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDDYP-TDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             ccccccHHHHHHHHHHHhCc-hhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            34555555555666555432 25555555555666666666666666555543 12222    22222233444556666


Q ss_pred             HHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHH
Q 048394          232 GVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKL  276 (485)
Q Consensus       232 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  276 (485)
                      +|++.-++..+  -++.|...-.+....+-..|++.++.+...+-
T Consensus       193 dAEk~A~ralq--iN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~t  235 (491)
T KOG2610|consen  193 DAEKQADRALQ--INRFDCWASHAKAHVLEMNGRHKEGKEFMYKT  235 (491)
T ss_pred             hHHHHHHhhcc--CCCcchHHHHHHHHHHHhcchhhhHHHHHHhc
Confidence            66666666555  44445555555555555566666666555543

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.19  E-value=0.18  Score=37.44  Aligned_cols=87  Identities=11%  Similarity=-0.042  Sum_probs=38.0

Q ss_pred             HhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC-C---hhhHHHHHHHHHhcCChhH
Q 048394          261 VKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-T---NTSYLVLLQALAKLNAIDI  336 (485)
Q Consensus       261 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~---~~~~~~l~~~~~~~~~~~~  336 (485)
                      ...|+.+.|++.|.+.....|.....||.-..++.-.|+.++|++=+++..+...+ .   ..+|..-...|...|+-+.
T Consensus        54 aE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~dd~  133 (175)
T KOG4555|consen   54 AEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGNDDA  133 (175)
T ss_pred             HhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCchHH
Confidence            34444455555544444444444444555444544445554444444444332211 1   1222222333444455555


Q ss_pred             HHHHHHHHHHc
Q 048394          337 LKQCFEEWESR  347 (485)
Q Consensus       337 a~~~~~~~~~~  347 (485)
                      |..=|....+.
T Consensus       134 AR~DFe~AA~L  144 (175)
T KOG4555|consen  134 ARADFEAAAQL  144 (175)
T ss_pred             HHHhHHHHHHh
Confidence            55544444443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.10  E-value=0.018  Score=34.15  Aligned_cols=39  Identities=26%  Similarity=0.375  Sum_probs=22.2

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHH
Q 048394          253 YSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLI  291 (485)
Q Consensus       253 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  291 (485)
                      +..+...|...|++++|.++|+++.+..|.+...+..+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La   42 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALA   42 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhh
Confidence            344555666666666666666666665555555554443

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.10  E-value=1.7  Score=43.24  Aligned_cols=15  Identities=13%  Similarity=0.195  Sum_probs=7.9

Q ss_pred             hCCCcccHHHHHHHH
Q 048394          191 RLGQPEKVRPLVNQM  205 (485)
Q Consensus       191 ~~g~~~~a~~~~~~~  205 (485)
                      ..+++++|++.+..+
T Consensus       502 ~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  502 DLHNYEEALRYISSL  516 (933)
T ss_pred             HhcCHHHHHHHHhcC
Confidence            345555555555544

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.09  E-value=0.83  Score=39.57  Aligned_cols=146  Identities=14%  Similarity=0.103  Sum_probs=89.8

Q ss_pred             HHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC-ChhhHHHHHHHHHhcCChh
Q 048394          257 ASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-TNTSYLVLLQALAKLNAID  335 (485)
Q Consensus       257 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~  335 (485)
                      .......|++.+|...|+......+.+...-..++.+|...|+.+.|..++..+...... .......-+..+.+.....
T Consensus       141 ~~~~~~~e~~~~a~~~~~~al~~~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         141 AKELIEAEDFGEAAPLLKQALQAAPENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhhhccchhhHHHHHHHHHHhCcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            334556788888888888887766667777778888888888888888888877554443 2222233344444444444


Q ss_pred             HHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhccc
Q 048394          336 ILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQ  405 (485)
Q Consensus       336 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  405 (485)
                      +...+-...-.. +. |...--.+...+...|+.++|.+.+-.+.+++.. .-|...-..|+..+.-.|.
T Consensus       221 ~~~~l~~~~aad-Pd-d~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~-~~d~~~Rk~lle~f~~~g~  287 (304)
T COG3118         221 EIQDLQRRLAAD-PD-DVEAALALADQLHLVGRNEAALEHLLALLRRDRG-FEDGEARKTLLELFEAFGP  287 (304)
T ss_pred             CHHHHHHHHHhC-CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccc-ccCcHHHHHHHHHHHhcCC
Confidence            444444444332 22 5555566777788888888888777666654320 3333444555555555553

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.84  E-value=0.57  Score=44.25  Aligned_cols=129  Identities=12%  Similarity=0.002  Sum_probs=59.5

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHh
Q 048394          217 YIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCN  296 (485)
Q Consensus       217 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  296 (485)
                      .+.++.-+.+.|..+.|+++...-..             -.....+.|+++.|.++.++     .++...|..|.+....
T Consensus       298 ~~~i~~fL~~~G~~e~AL~~~~D~~~-------------rFeLAl~lg~L~~A~~~a~~-----~~~~~~W~~Lg~~AL~  359 (443)
T PF04053_consen  298 GQSIARFLEKKGYPELALQFVTDPDH-------------RFELALQLGNLDIALEIAKE-----LDDPEKWKQLGDEALR  359 (443)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHSS-HHH-------------HHHHHHHCT-HHHHHHHCCC-----CSTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHhhcCChHH-------------HhHHHHhcCCHHHHHHHHHh-----cCcHHHHHHHHHHHHH
Confidence            44455555555555555544332221             33444455555555554432     2245556666666666


Q ss_pred             cCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHH
Q 048394          297 TSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIF  376 (485)
Q Consensus       297 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  376 (485)
                      .|+++-|...|.+..        -+..|+-.|.-.|+.+...++.+.....|-      +|....++.-.|+.++..+++
T Consensus       360 ~g~~~lAe~c~~k~~--------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~lL  425 (443)
T PF04053_consen  360 QGNIELAEECYQKAK--------DFSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAALLLGDVEECVDLL  425 (443)
T ss_dssp             TTBHHHHHHHHHHCT---------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHH
T ss_pred             cCCHHHHHHHHHhhc--------CccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHHHHHH
Confidence            666666666555532        233444445555555555555444443321      233333344445555555544


Q ss_pred             H
Q 048394          377 N  377 (485)
Q Consensus       377 ~  377 (485)
                      .
T Consensus       426 ~  426 (443)
T PF04053_consen  426 I  426 (443)
T ss_dssp             H
T ss_pred             H
Confidence            3

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.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.83  E-value=0.74  Score=42.94  Aligned_cols=61  Identities=11%  Similarity=0.177  Sum_probs=38.0

Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHh
Q 048394          218 IVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEE  278 (485)
Q Consensus       218 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  278 (485)
                      ..+..++-+.|+.++|++.++++.+.........+...|+.++...+.+.++..++.+-.+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            3355556667777777777777765222222344556677777777777777777777554

The molecular function of this protein is uncertain.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.71  E-value=0.4  Score=36.72  Aligned_cols=55  Identities=13%  Similarity=0.133  Sum_probs=25.4

Q ss_pred             HHhcCChhhHHHHHHHhhhcCCC---ChhhHHHHHHHHHhcCChhHHHHHHHHHHHcc
Q 048394          294 YCNTSNLDAVNRVWGILKSTFPP---TNTSYLVLLQALAKLNAIDILKQCFEEWESRC  348 (485)
Q Consensus       294 ~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  348 (485)
                      ..+.|++++|.+.|+.+....|.   ...+...++.+|.+.++++.|...++..++..
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLh   77 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLH   77 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            33444555555555544444333   33333444444445555555555554444443

>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=95.68  E-value=0.62  Score=34.87  Aligned_cols=60  Identities=20%  Similarity=0.216  Sum_probs=28.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhccc
Q 048394          324 LLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRAN  384 (485)
Q Consensus       324 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  384 (485)
                      .+..+...|+-|+-.+++.++.+. -.+++...-.+..+|.+.|+..++.+++.++-+.|+
T Consensus        92 ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   92 ALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            344455555555555555555442 233555555555566666666666666665555553

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.65  E-value=0.76  Score=35.69  Aligned_cols=126  Identities=13%  Similarity=0.088  Sum_probs=72.6

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcC
Q 048394           79 LEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKEL  158 (485)
Q Consensus        79 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~  158 (485)
                      ...++..+...+.+......++.+...+ ..+...++.++..|++. +.....+.+..    ..+.......+..|.+.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~-~~~~ll~~l~~----~~~~yd~~~~~~~c~~~~   83 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKY-DPQKEIERLDN----KSNHYDIEKVGKLCEKAK   83 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHH-CHHHHHHHHHh----ccccCCHHHHHHHHHHcC
Confidence            3455666666677788888888877666 35666777778877765 33444455442    123334445666677777


Q ss_pred             cHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhC-CCcccHHHHHHHHHHcCCCccHHHHHHHHHHHH
Q 048394          159 MTERALALFEKMDELKFLGNTVAFNNLSTMYLRL-GQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYS  225 (485)
Q Consensus       159 ~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  225 (485)
                      .++++..++.++..         |...+..+... ++++.|.+++.+-      .+...|..++..+.
T Consensus        84 l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l  136 (140)
T smart00299       84 LYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALL  136 (140)
T ss_pred             cHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHH
Confidence            77777777766532         22233333333 6666666665541      14445655555443

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.58  E-value=0.18  Score=40.58  Aligned_cols=98  Identities=13%  Similarity=0.091  Sum_probs=56.5

Q ss_pred             HHhcCcHHHHHHHHHHHHhcccccCCch------hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHH
Q 048394          363 YLQKDMYEEAALIFNNAKKRANASARFF------KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFF  436 (485)
Q Consensus       363 ~~~~~~~~~A~~~~~~~~~~~~~~~p~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~  436 (485)
                      +...|++++|..-|...++.    .|..      ..|..-..++.+.+.++.|+.-..+.+..+     +.....+..-.
T Consensus       105 ~F~ngdyeeA~skY~~Ale~----cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~-----pty~kAl~RRA  175 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALES----CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN-----PTYEKALERRA  175 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHh----CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC-----chhHHHHHHHH
Confidence            45567777777777766654    2221      223333445566777777777777776653     21222333334


Q ss_pred             HHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHH
Q 048394          437 RFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLL  469 (485)
Q Consensus       437 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  469 (485)
                      .+|.+...+++|+.-|+++.+..|....+-...
T Consensus       176 eayek~ek~eealeDyKki~E~dPs~~ear~~i  208 (271)
T KOG4234|consen  176 EAYEKMEKYEEALEDYKKILESDPSRREAREAI  208 (271)
T ss_pred             HHHHhhhhHHHHHHHHHHHHHhCcchHHHHHHH
Confidence            566666777777777777777776554444333

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.39  E-value=1  Score=35.56  Aligned_cols=130  Identities=15%  Similarity=0.142  Sum_probs=85.3

Q ss_pred             CHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHH-----HHHHHhCCCcccHHHHHHHHHHcCCCccHHHH
Q 048394          143 NRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNL-----STMYLRLGQPEKVRPLVNQMKQRNISLDNLTY  217 (485)
Q Consensus       143 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l-----~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  217 (485)
                      +...|..-+. +.+.+..++|+.-|..+.+.|..    .|-.|     .......|+...|...|+++-...-.|...-=
T Consensus        58 sgd~flaAL~-lA~~~k~d~Alaaf~~lektg~g----~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd  132 (221)
T COG4649          58 SGDAFLAALK-LAQENKTDDALAAFTDLEKTGYG----SYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRD  132 (221)
T ss_pred             chHHHHHHHH-HHHcCCchHHHHHHHHHHhcCCC----cchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhH
Confidence            3445555444 45678888888888888877655    33322     23456678888888888888765444443311


Q ss_pred             HHHH---HHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHh
Q 048394          218 IVWM---QSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEE  278 (485)
Q Consensus       218 ~~l~---~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  278 (485)
                      ..-+   -.+...|.++......+.+.. .+.+.-...-..|.-+-.+.|++.+|...|..+..
T Consensus       133 ~ARlraa~lLvD~gsy~dV~srvepLa~-d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         133 LARLRAAYLLVDNGSYDDVSSRVEPLAG-DGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHHHHHHhccccHHHHHHHhhhccC-CCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            1111   234567888888777777765 55666666667777777788888888888888766

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=95.39  E-value=2.7  Score=40.28  Aligned_cols=364  Identities=10%  Similarity=0.040  Sum_probs=200.9

Q ss_pred             CCCcHHHHHHHHHHh--CCCCCHHHHHHHHHHHH-HcCChHHHHHHHHHHHhC-CCC-CChhhHHHHHHHHHhhCCHHHH
Q 048394           56 TGGSVTGALNAYIME--GKTVRKDMLEYCVRSLR-KFGRYRHALEVIEWMESR-KMH-FSYTDFAVYLDLTAKTNGIAAA  130 (485)
Q Consensus        56 ~~~~~~~~~~~~~~~--g~~~~~~~~~~l~~~~~-~~~~~~~A~~~~~~~~~~-~~~-~~~~~~~~l~~~~~~~g~~~~a  130 (485)
                      +-+.+......+.+.  |++.+...+......+. ..|+.+...+.|+..... |.. .+...|-..|..-..++++...
T Consensus        91 klg~~~~s~~Vfergv~aip~SvdlW~~Y~~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v  170 (577)
T KOG1258|consen   91 KLGNAENSVKVFERGVQAIPLSVDLWLSYLAFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRV  170 (577)
T ss_pred             HhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHH
Confidence            445555555555542  66666666666555444 457888888888887553 322 2445677788877888999999


Q ss_pred             HHHHHhhcccCCCHhHHHHHHHHHH---hc------CcHHHHHHHHHHHHhC---C-CCCChhhHHHHHHHHHh-CCCcc
Q 048394          131 EKYFNGLSEYAKNRYTYGALLNCYC---KE------LMTERALALFEKMDEL---K-FLGNTVAFNNLSTMYLR-LGQPE  196 (485)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~li~~~~---~~------~~~~~A~~~~~~m~~~---~-~~p~~~~~~~l~~~~~~-~g~~~  196 (485)
                      ..+++++.+.  ....|+..-.-|.   +.      ...+++.++-......   . ..+....+..-+.--.. .+..+
T Consensus       171 ~~iyeRilei--P~~~~~~~f~~f~~~l~~~~~~~l~~~d~~~~l~~~~~~~~~~~~~~~~~e~~~~~v~~~~~~s~~l~  248 (577)
T KOG1258|consen  171 ANIYERILEI--PLHQLNRHFDRFKQLLNQNEEKILLSIDELIQLRSDVAERSKITHSQEPLEELEIGVKDSTDPSKSLT  248 (577)
T ss_pred             HHHHHHHHhh--hhhHhHHHHHHHHHHHhcCChhhhcCHHHHHHHhhhHHhhhhcccccChhHHHHHHHhhccCccchhh
Confidence            9999999872  1223333322222   11      1223332222221110   0 00011111111111000 11111


Q ss_pred             cHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhc------cCCCCcHHHHHHHHHHHHhcccHHHHH
Q 048394          197 KVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNE------CEDKCRWTTYSNLASIYVKAELFEKAE  270 (485)
Q Consensus       197 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~~~~~~A~  270 (485)
                      ++.....+..           ..--..+...-...+....|+.-.+.      .-.+++..+|..-+..-...|+.+.+.
T Consensus       249 ~~~~~l~~~~-----------~~~~~~~~~s~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~  317 (577)
T KOG1258|consen  249 EEKTILKRIV-----------SIHEKVYQKSEEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVF  317 (577)
T ss_pred             HHHHHHHHHH-----------HHHHHHHHhhHhHHHHHHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHH
Confidence            1111111111           11111222222333333344433331      233445667777888888899999999


Q ss_pred             HHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHH-HhcCChhHHHHHHHHHHHccC
Q 048394          271 LALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQAL-AKLNAIDILKQCFEEWESRCS  349 (485)
Q Consensus       271 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~~~~  349 (485)
                      -.|++..--...-...|-..+.-....|+.+.|..++....+-..++......+-..+ -..|+++.|..+++.+.+.- 
T Consensus       318 ~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e~-  396 (577)
T KOG1258|consen  318 ILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARFEESNGNFDDAKVILQRIESEY-  396 (577)
T ss_pred             HHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHHHHhhccHHHHHHHHHHHHhhC-
Confidence            9998876533345667777777777779999999888887776666333333333333 34679999999999998764 


Q ss_pred             CCCHH-hHHHHHHHHHhcCcHHHHH---HHHHHHHhcccccCCchhHHHHHHHHH-----HhcccHHHHHHHHHHHHHHh
Q 048394          350 SYDMR-LADVIIRAYLQKDMYEEAA---LIFNNAKKRANASARFFKSRESFMIYY-----LRSRQLDLALNEMEAALSEA  420 (485)
Q Consensus       350 ~~~~~-~~~~l~~~~~~~~~~~~A~---~~~~~~~~~~~~~~p~~~~~~~l~~~~-----~~~g~~~~A~~~~~~~~~~~  420 (485)
                       |+.. .-..-+....+.|+.+.+.   .++......    .-+......+.--+     .-.++.+.|..++.++.+. 
T Consensus       397 -pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~----~~~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~-  470 (577)
T KOG1258|consen  397 -PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEG----KENNGILEKLYVKFARLRYKIREDADLARIILLEANDI-  470 (577)
T ss_pred             -CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhccc----ccCcchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhc-
Confidence             4422 2222334455678888777   333333322    22222333332222     3367889999999999887 


Q ss_pred             hhcCCCccHHHHHHHHHHHhhcC
Q 048394          421 KQFHWRPMQVTVDTFFRFFEEEK  443 (485)
Q Consensus       421 ~~~~~~~~~~~~~~l~~~~~~~~  443 (485)
                          .+++...|..++..+...+
T Consensus       471 ----~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  471 ----LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             ----CCccHHHHHHHHHHHHhCC
Confidence                6777788888887665554

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.38  E-value=1  Score=35.54  Aligned_cols=122  Identities=14%  Similarity=0.035  Sum_probs=55.1

Q ss_pred             HhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCC-CChH---HHHHHHHHHHhcCCh
Q 048394          225 SHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKP-RDRK---AYHFLISLYCNTSNL  300 (485)
Q Consensus       225 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~---~~~~l~~~~~~~~~~  300 (485)
                      ++.+..++|+.-|..+.+.+-.....-..-.......+.|+-..|...|+++-...+ |...   .-..-.-.+...|.+
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy  148 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSY  148 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccH
Confidence            345555555655655555221111112222233344455566666666655544111 1111   111112233455555


Q ss_pred             hhHHHHHHHhhhcCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 048394          301 DAVNRVWGILKSTFPP-TNTSYLVLLQALAKLNAIDILKQCFEEWES  346 (485)
Q Consensus       301 ~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  346 (485)
                      +....-.+.+...+.+ -...-..|.-+-.+.|++..|.+.|..+..
T Consensus       149 ~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         149 DDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            5555555544443333 334444555555556666666666665554

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.25  E-value=0.76  Score=40.81  Aligned_cols=129  Identities=16%  Similarity=0.225  Sum_probs=82.2

Q ss_pred             hHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh--h----CCHHHHHHHHHhhccc-----CCCHhHHHHHHHHHHhcCcH
Q 048394           92 YRHALEVIEWMESRKMHFSYTDFAVYLDLTAK--T----NGIAAAEKYFNGLSEY-----AKNRYTYGALLNCYCKELMT  160 (485)
Q Consensus        92 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~----g~~~~a~~~~~~~~~~-----~~~~~~~~~li~~~~~~~~~  160 (485)
                      +++.+.+++.|.+.|..-+..+|.+..-....  .    .....|.++|+.|++.     .++...+..|+..  ..+++
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            44567788899999988887777654433332  1    2356788999999882     3455566666554  33433


Q ss_pred             ----HHHHHHHHHHHhCCCCCChh--hHHHHHHHHHhCCC--cccHHHHHHHHHHcCCCccHHHHHHHHH
Q 048394          161 ----ERALALFEKMDELKFLGNTV--AFNNLSTMYLRLGQ--PEKVRPLVNQMKQRNISLDNLTYIVWMQ  222 (485)
Q Consensus       161 ----~~A~~~~~~m~~~~~~p~~~--~~~~l~~~~~~~g~--~~~a~~~~~~~~~~~~~p~~~~~~~l~~  222 (485)
                          +.+..+|+.+...|...+..  ....++........  ..++.++++.+.+.|+++....|..+.-
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHH
Confidence                56778888888877765432  22222222222112  3477888999999999888877765543

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.15  E-value=0.36  Score=41.22  Aligned_cols=101  Identities=13%  Similarity=0.158  Sum_probs=69.1

Q ss_pred             cCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHH
Q 048394           89 FGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFE  168 (485)
Q Consensus        89 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~  168 (485)
                      .+..+-....+..|.+.|+.-|..+|+.|++.+-+..-              .|.. ++....--|-  .+-+-++++++
T Consensus        85 R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkf--------------iP~n-vfQ~~F~HYP--~QQ~C~I~vLe  147 (406)
T KOG3941|consen   85 RTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKF--------------IPQN-VFQKVFLHYP--QQQNCAIKVLE  147 (406)
T ss_pred             cchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCccccc--------------ccHH-HHHHHHhhCc--hhhhHHHHHHH
Confidence            35566667778889999999999999999887654221              1211 1111111222  33456889999


Q ss_pred             HHHhCCCCCChhhHHHHHHHHHhCCCc-ccHHHHHHHHH
Q 048394          169 KMDELKFLGNTVAFNNLSTMYLRLGQP-EKVRPLVNQMK  206 (485)
Q Consensus       169 ~m~~~~~~p~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~  206 (485)
                      +|...|+.||..+-..|++++.+.+-. .+..++.-.|.
T Consensus       148 qME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  148 QMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             HHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhh
Confidence            999999999999999999999887754 33444444443

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=95.12  E-value=1.8  Score=36.85  Aligned_cols=209  Identities=10%  Similarity=0.081  Sum_probs=109.8

Q ss_pred             CCCCCChhhHHHHHHH-HHhCCCcccHHHHHHHHHHcCCCccH---HHHHHHHHHHHhcCCHhHHHHHHHHHHhc----c
Q 048394          173 LKFLGNTVAFNNLSTM-YLRLGQPEKVRPLVNQMKQRNISLDN---LTYIVWMQSYSHLNDIDGVERVFYEMCNE----C  244 (485)
Q Consensus       173 ~~~~p~~~~~~~l~~~-~~~~g~~~~a~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~  244 (485)
                      .+..||+..-|..-.. -.+...+++|+.-|++..+..-....   .....++..+.+.|++++....+.++..-    .
T Consensus        20 s~sEpdVDlENQYYnsK~l~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAV   99 (440)
T KOG1464|consen   20 SNSEPDVDLENQYYNSKGLKEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAV   99 (440)
T ss_pred             cCCCCCcchHhhhhccccccccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHH
Confidence            3455666554432221 12344677888888877764211122   22344567777888888888777777540    0


Q ss_pred             CCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHh--cCCCChH----HHHHHHHHHHhcCChhhHHHHHHHhhhcCCC--
Q 048394          245 EDKCRWTTYSNLASIYVKAELFEKAELALKKLEE--MKPRDRK----AYHFLISLYCNTSNLDAVNRVWGILKSTFPP--  316 (485)
Q Consensus       245 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--  316 (485)
                      .-..+....|++++.-..+.+.+--...++.-.+  ....+..    |-..+...|...+.+.....+++++......  
T Consensus       100 TrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~ed  179 (440)
T KOG1464|consen  100 TRNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTED  179 (440)
T ss_pred             hccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhcccc
Confidence            1223444556666655555555555555554333  1222222    2345666666777777777777766654222  


Q ss_pred             ---C-------hhhHHHHHHHHHhcCChhHHHHHHHHHHHc-cCCCCHHhHHHHHHH-----HHhcCcHHHHHH-HHHHH
Q 048394          317 ---T-------NTSYLVLLQALAKLNAIDILKQCFEEWESR-CSSYDMRLADVIIRA-----YLQKDMYEEAAL-IFNNA  379 (485)
Q Consensus       317 ---~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~-----~~~~~~~~~A~~-~~~~~  379 (485)
                         +       ...|..=|..|...++-.....+|++.... .--|.+.... +|+-     ..+.|++++|.. +|+..
T Consensus       180 GedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImG-vIRECGGKMHlreg~fe~AhTDFFEAF  258 (440)
T KOG1464|consen  180 GEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMG-VIRECGGKMHLREGEFEKAHTDFFEAF  258 (440)
T ss_pred             CchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHh-HHHHcCCccccccchHHHHHhHHHHHH
Confidence               1       234555566666666666666666654332 2233444333 3332     335566666654 34444


Q ss_pred             Hhc
Q 048394          380 KKR  382 (485)
Q Consensus       380 ~~~  382 (485)
                      +..
T Consensus       259 KNY  261 (440)
T KOG1464|consen  259 KNY  261 (440)
T ss_pred             hcc
Confidence            433

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=95.09  E-value=4.2  Score=40.81  Aligned_cols=404  Identities=13%  Similarity=0.068  Sum_probs=200.8

Q ss_pred             HHHHHHHHHHH-HcCChHHHHHHHHHHHhCCCCCChhh-----HHHHHHHHHhhCCHHHHHHHHHhhcc--cC--CC--H
Q 048394           77 DMLEYCVRSLR-KFGRYRHALEVIEWMESRKMHFSYTD-----FAVYLDLTAKTNGIAAAEKYFNGLSE--YA--KN--R  144 (485)
Q Consensus        77 ~~~~~l~~~~~-~~~~~~~A~~~~~~~~~~~~~~~~~~-----~~~l~~~~~~~g~~~~a~~~~~~~~~--~~--~~--~  144 (485)
                      .+...+...+. ...+++.|...+++.....-.++...     ...++..+.+.+... |...+++..+  ..  -+  .
T Consensus        60 ~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~  138 (608)
T PF10345_consen   60 RVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWY  138 (608)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHH
Confidence            34455566665 67899999999998744332233221     234456666655555 8888888766  11  11  2


Q ss_pred             hHHHHH-HHHHHhcCcHHHHHHHHHHHHhCC---CCCChhhHHHHHHHH--HhCCCcccHHHHHHHHHHcCC--------
Q 048394          145 YTYGAL-LNCYCKELMTERALALFEKMDELK---FLGNTVAFNNLSTMY--LRLGQPEKVRPLVNQMKQRNI--------  210 (485)
Q Consensus       145 ~~~~~l-i~~~~~~~~~~~A~~~~~~m~~~~---~~p~~~~~~~l~~~~--~~~g~~~~a~~~~~~~~~~~~--------  210 (485)
                      ..|.-+ +..+...+++..|.+.++.+...-   ..|-..++-.++.+.  .+.+..+.+.+.++++.....        
T Consensus       139 ~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~  218 (608)
T PF10345_consen  139 YAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSV  218 (608)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCC
Confidence            233333 233333479999999998886532   222333444444443  345667778888887744322        


Q ss_pred             -CccHHHHHHHHHHH--HhcCCHhHHHHHHHHHHh---ccCCCC--------------------------cHH-------
Q 048394          211 -SLDNLTYIVWMQSY--SHLNDIDGVERVFYEMCN---ECEDKC--------------------------RWT-------  251 (485)
Q Consensus       211 -~p~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~---~~~~~~--------------------------~~~-------  251 (485)
                       .|...+|..+++.+  ...|+++.+...++++.+   .....+                          ...       
T Consensus       219 ~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq~~~~~~~~~~~w~~~~~d~~i~l~~~~~~~~~~~~~~~f~wl~~~~  298 (608)
T PF10345_consen  219 HIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQQFLDEIKKSPSWPSWDEDGSIPLNIGEGSSNSGGTPLVFSWLPKEE  298 (608)
T ss_pred             CcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCccCCCcCCCeeEEeecccccccCCCceeEEeecCHHH
Confidence             34566777777654  456776666666554432   011110                          000       


Q ss_pred             --HHHHHHH--HHHhcccHHHHHHHHHHHHh-----c-----CCC-------ChHHHHHHHH---------HHHhcCChh
Q 048394          252 --TYSNLAS--IYVKAELFEKAELALKKLEE-----M-----KPR-------DRKAYHFLIS---------LYCNTSNLD  301 (485)
Q Consensus       252 --~~~~l~~--~~~~~~~~~~A~~~~~~~~~-----~-----~~~-------~~~~~~~l~~---------~~~~~~~~~  301 (485)
                        ++.-++.  .++..+..++|.+.+++..+     .     .++       +...|...+.         ..+-.+++.
T Consensus       299 l~~L~y~lS~l~~~~~~~~~ks~k~~~k~l~~i~~~~~~~~~~~~~sl~~~~~~~~~~~~l~~~~~~y~~~~~~~~~~~~  378 (608)
T PF10345_consen  299 LYALVYFLSGLHNLYKGSMDKSEKFLEKALKQIEKLKIKSPSAPSESLSEASERIQWLRYLQCYLLFYQIWCNFIRGDWS  378 (608)
T ss_pred             HHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHHhhccCCCCCCcCHHHHHHhHHHHHHHHHHHHHHHHHHHHHCcCHH
Confidence              0111111  22334444456555555443     1     111       1122222222         223578898


Q ss_pred             hHHHHHHHhhhcCCC-------ChhhHHHHH--HHHHhcCChhHHHHHHH--------HHHHccCCCCHHhHHHH--HHH
Q 048394          302 AVNRVWGILKSTFPP-------TNTSYLVLL--QALAKLNAIDILKQCFE--------EWESRCSSYDMRLADVI--IRA  362 (485)
Q Consensus       302 ~a~~~~~~~~~~~~~-------~~~~~~~l~--~~~~~~~~~~~a~~~~~--------~~~~~~~~~~~~~~~~l--~~~  362 (485)
                      .|...++.+......       ....+..++  -.+-..|+.+.|...|.        .....+...+..++..+  +-.
T Consensus       379 ~a~~~l~~~~~~~~~~~~~~~~~~~~~~~yL~gl~~q~~g~l~~A~~~y~~~~~~~~~~~~~~~~~~El~ila~LNl~~I  458 (608)
T PF10345_consen  379 KATQELEFMRQLCQRSPSKLYESLYPLLHYLLGLYYQSTGDLEAALYQYQKPRFLLCEAANRKSKFRELYILAALNLAII  458 (608)
T ss_pred             HHHHHHHHHHHHHhcCccchhhhhhHHHHHHHHHHHHHcCCHHHHHHHHhhhHHhhhhhhccCCcchHHHHHHHHHHHHH
Confidence            999999988764322       122333333  33345799999999998        44455555444444321  111


Q ss_pred             HH--hcCcHHH--HHHHHHHHHhc-ccccCC--chhHHHHH-HHHHHhc--ccHHHHHHHHHHHHHHh-hhcCCCccHHH
Q 048394          363 YL--QKDMYEE--AALIFNNAKKR-ANASAR--FFKSRESF-MIYYLRS--RQLDLALNEMEAALSEA-KQFHWRPMQVT  431 (485)
Q Consensus       363 ~~--~~~~~~~--A~~~~~~~~~~-~~~~~p--~~~~~~~l-~~~~~~~--g~~~~A~~~~~~~~~~~-~~~~~~~~~~~  431 (485)
                      +.  .....++  +..+++.+... .-  .|  +..++..+ +.++...  -...++...+.+.++.. ...+..--...
T Consensus       459 ~~~~~~~~~~~~~~~~l~~~i~p~~~~--~~~~~~~~a~~~~~~~~~~~~~~~~ne~k~~l~~~L~~~~~~~~n~~l~~~  536 (608)
T PF10345_consen  459 LQYESSRDDSESELNELLEQIEPLCSN--SPNSYNRTAYCLVLATYNTFEPFSSNEAKRHLQEALKMANNKLGNSQLLAI  536 (608)
T ss_pred             hHhhcccchhhhHHHHHHHhcCccccC--CccHHHHHHHHHHHHHHhhCCccccHHHHHHHHHHHHHHHHhhccchHHHH
Confidence            22  2222333  66777665442 11  22  22333333 3333211  12235555555444432 11101111122


Q ss_pred             HHHHHHHHhhcCChhhHHHHHHHHhhcC---CC-CHHHHHH-----HHHHHHHhCCCcchh
Q 048394          432 VDTFFRFFEEEKDVDGAEEFCKVLKSLN---CL-DFSAYSL-----LIKTYIAAGKLASDM  483 (485)
Q Consensus       432 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~-~~~~~~~-----l~~~~~~~g~~~~A~  483 (485)
                      ...++..-.-.|+..+..+.........   |+ ....|..     +.+.|...|+.++|-
T Consensus       537 ~L~lm~~~lf~~~~~e~~~~s~~a~~~A~k~~d~~~~LW~~v~~~~l~~~~~~~G~~~ka~  597 (608)
T PF10345_consen  537 LLNLMGHRLFEGDVGEQAKKSARAFQLAKKSSDYSDQLWHLVASGMLADSYEVQGDRDKAE  597 (608)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHcCcHHHHH
Confidence            2223332222688887666665554432   22 3445533     444566678877763

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 [].

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.07  E-value=0.37  Score=41.83  Aligned_cols=83  Identities=8%  Similarity=0.000  Sum_probs=65.1

Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHH-HhhhcCCCccHHH
Q 048394          353 MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALS-EAKQFHWRPMQVT  431 (485)
Q Consensus       353 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~  431 (485)
                      ..++..++..+...|+++.+...++++....   +-+...|..+|.+|.+.|+...|+..|+.+.+ .....++.|...+
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d---p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~  229 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELD---PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPEL  229 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcC---ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHH
Confidence            3456678888888888999999888888876   56777888889999999999999988888877 3334467788777


Q ss_pred             HHHHHHH
Q 048394          432 VDTFFRF  438 (485)
Q Consensus       432 ~~~l~~~  438 (485)
                      ...+...
T Consensus       230 ~~~y~~~  236 (280)
T COG3629         230 RALYEEI  236 (280)
T ss_pred             HHHHHHH
Confidence            7777665

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.05  E-value=5.2  Score=41.75  Aligned_cols=136  Identities=13%  Similarity=0.067  Sum_probs=71.2

Q ss_pred             cccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHH
Q 048394          263 AELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFE  342 (485)
Q Consensus       263 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  342 (485)
                      .++++.|+.-+..+.      ...|.-.++.--+.|.+.+|+.++..-.+.   -...|......+...+.+++|--.|+
T Consensus       893 L~ry~~AL~hLs~~~------~~~~~e~~n~I~kh~Ly~~aL~ly~~~~e~---~k~i~~~ya~hL~~~~~~~~Aal~Ye  963 (1265)
T KOG1920|consen  893 LKRYEDALSHLSECG------ETYFPECKNYIKKHGLYDEALALYKPDSEK---QKVIYEAYADHLREELMSDEAALMYE  963 (1265)
T ss_pred             HHHHHHHHHHHHHcC------ccccHHHHHHHHhcccchhhhheeccCHHH---HHHHHHHHHHHHHHhccccHHHHHHH
Confidence            355666666555532      234444555555666666666655321100   23344445555556666666665555


Q ss_pred             HHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          343 EWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       343 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      ..-+.         ...+.+|..+|+|.+|+.+..++.....   --..+-..|+.-+...++.-+|-++..+..+.
T Consensus       964 ~~Gkl---------ekAl~a~~~~~dWr~~l~~a~ql~~~~d---e~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd 1028 (1265)
T KOG1920|consen  964 RCGKL---------EKALKAYKECGDWREALSLAAQLSEGKD---ELVILAEELVSRLVEQRKHYEAAKILLEYLSD 1028 (1265)
T ss_pred             HhccH---------HHHHHHHHHhccHHHHHHHHHhhcCCHH---HHHHHHHHHHHHHHHcccchhHHHHHHHHhcC
Confidence            43221         2245566677777777777666543210   00011234555666677777777776666543

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=95.05  E-value=3  Score=39.02  Aligned_cols=89  Identities=9%  Similarity=-0.021  Sum_probs=48.5

Q ss_pred             CCchhHH-HHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHH--hhcCChhhHHHHHHHHhhcCCCCH
Q 048394          387 ARFFKSR-ESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFF--EEEKDVDGAEEFCKVLKSLNCLDF  463 (485)
Q Consensus       387 ~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~A~~~~~~~~~~~~~~~  463 (485)
                      .|+..++ +.++.-+.+.|-..+|...+..+...     .+|+...|..++..-  ...-+...+.++|+.+......++
T Consensus       456 ~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~l-----pp~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~fg~d~  530 (568)
T KOG2396|consen  456 GADSVTLKSKYLDWAYESGGYKKARKVYKSLQEL-----PPFSLDLFRKMIQFEKEQESCNLANIREYYDRALREFGADS  530 (568)
T ss_pred             CCceeehhHHHHHHHHHhcchHHHHHHHHHHHhC-----CCccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHHhCCCh
Confidence            3444443 33445555666666666666666655     445566666555322  112235556666666665544666


Q ss_pred             HHHHHHHHHHHHhCCCc
Q 048394          464 SAYSLLIKTYIAAGKLA  480 (485)
Q Consensus       464 ~~~~~l~~~~~~~g~~~  480 (485)
                      ..|......-...|..+
T Consensus       531 ~lw~~y~~~e~~~g~~e  547 (568)
T KOG2396|consen  531 DLWMDYMKEELPLGRPE  547 (568)
T ss_pred             HHHHHHHHhhccCCCcc
Confidence            66666655555555444

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=94.91  E-value=0.1  Score=42.02  Aligned_cols=81  Identities=14%  Similarity=0.062  Sum_probs=67.3

Q ss_pred             HHHhcccHHHHHHHHHHHHHHhhhcCCCccHHH-----HHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHH
Q 048394          399 YYLRSRQLDLALNEMEAALSEAKQFHWRPMQVT-----VDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTY  473 (485)
Q Consensus       399 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~-----~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  473 (485)
                      -++..|++++|..-|..++..     .++...-     |..-..++.+.+.++.|+.-..+.++++|....+...-+.+|
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~-----cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeay  178 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALES-----CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAY  178 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHh-----CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHH
Confidence            467899999999999999998     4444333     333345778999999999999999999999999988889999


Q ss_pred             HHhCCCcchhc
Q 048394          474 IAAGKLASDMR  484 (485)
Q Consensus       474 ~~~g~~~~A~~  484 (485)
                      .+..++++|+.
T Consensus       179 ek~ek~eeale  189 (271)
T KOG4234|consen  179 EKMEKYEEALE  189 (271)
T ss_pred             HhhhhHHHHHH
Confidence            99999998873

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=94.85  E-value=1.5  Score=34.44  Aligned_cols=112  Identities=13%  Similarity=0.098  Sum_probs=56.9

Q ss_pred             HHHHhcCChhHHHHHHHHHHHccCC-CCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcc
Q 048394          326 QALAKLNAIDILKQCFEEWESRCSS-YDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSR  404 (485)
Q Consensus       326 ~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  404 (485)
                      ..-...++.+++..++..+.-..+. +...++.  ...+...|++.+|..+|+++.+.    .|....-..|+..|....
T Consensus        18 ~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~--~~l~i~r~~w~dA~rlLr~l~~~----~~~~p~~kALlA~CL~~~   91 (160)
T PF09613_consen   18 SVALRLGDPDDAEALLDALRVLRPEFPELDLFD--GWLHIVRGDWDDALRLLRELEER----APGFPYAKALLALCLYAL   91 (160)
T ss_pred             HHHHccCChHHHHHHHHHHHHhCCCchHHHHHH--HHHHHHhCCHHHHHHHHHHHhcc----CCCChHHHHHHHHHHHHc
Confidence            3334567788888888877665433 1222332  33456778888888888887665    343333344444444333


Q ss_pred             cHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHH
Q 048394          405 QLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEE  450 (485)
Q Consensus       405 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  450 (485)
                      .-..=...-+++...+      +|..+ ..++..+....+...|..
T Consensus        92 ~D~~Wr~~A~evle~~------~d~~a-~~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen   92 GDPSWRRYADEVLESG------ADPDA-RALVRALLARADLEPAHE  130 (160)
T ss_pred             CChHHHHHHHHHHhcC------CChHH-HHHHHHHHHhccccchhh
Confidence            2222222333444443      34443 234444444444444443

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=94.83  E-value=1.5  Score=34.40  Aligned_cols=58  Identities=19%  Similarity=0.088  Sum_probs=36.8

Q ss_pred             HHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCC
Q 048394          260 YVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPT  317 (485)
Q Consensus       260 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  317 (485)
                      -.+.++.+++..++..+.-..|.....-..-...+...|+|.+|.++|+.+....+..
T Consensus        20 al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~   77 (160)
T PF09613_consen   20 ALRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGF   77 (160)
T ss_pred             HHccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCC
Confidence            3455677777777777766666555555555556667777777777777765555433

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.80  E-value=0.091  Score=28.80  Aligned_cols=31  Identities=10%  Similarity=-0.034  Sum_probs=19.8

Q ss_pred             HHHHHHHHHhhcCChhhHHHHHHHHhhcCCC
Q 048394          431 TVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL  461 (485)
Q Consensus       431 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  461 (485)
                      .|..+...+...|++++|.+.++++++..|.
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~   33 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDPN   33 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCcC
Confidence            4555666666777777777777777666664

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 ....

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=94.73  E-value=0.28  Score=43.08  Aligned_cols=93  Identities=17%  Similarity=0.155  Sum_probs=48.8

Q ss_pred             HHhcCcHHHHHHHHHHHHhcccccCC-chhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhh
Q 048394          363 YLQKDMYEEAALIFNNAKKRANASAR-FFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEE  441 (485)
Q Consensus       363 ~~~~~~~~~A~~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  441 (485)
                      |.++|.+++|+..|......    .| |.+++..-..+|.+...+..|..-...++..+     ..-...|..-..+-..
T Consensus       107 yFKQgKy~EAIDCYs~~ia~----~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-----~~Y~KAYSRR~~AR~~  177 (536)
T KOG4648|consen  107 YFKQGKYEEAIDCYSTAIAV----YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-----KLYVKAYSRRMQARES  177 (536)
T ss_pred             hhhccchhHHHHHhhhhhcc----CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-----HHHHHHHHHHHHHHHH
Confidence            55666666666666655544    33 55555555556666666666655555555442     1112223333333333


Q ss_pred             cCChhhHHHHHHHHhhcCCCCHH
Q 048394          442 EKDVDGAEEFCKVLKSLNCLDFS  464 (485)
Q Consensus       442 ~~~~~~A~~~~~~~~~~~~~~~~  464 (485)
                      .|+..+|.+-++.++++.|.+..
T Consensus       178 Lg~~~EAKkD~E~vL~LEP~~~E  200 (536)
T KOG4648|consen  178 LGNNMEAKKDCETVLALEPKNIE  200 (536)
T ss_pred             HhhHHHHHHhHHHHHhhCcccHH
Confidence            45566666666666666665433

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.47  E-value=0.089  Score=28.92  Aligned_cols=31  Identities=13%  Similarity=0.000  Sum_probs=17.6

Q ss_pred             HHHHHHHHHhhcCChhhHHHHHHHHhhcCCC
Q 048394          431 TVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL  461 (485)
Q Consensus       431 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  461 (485)
                      +|..+..++...|++++|+..|+++++..|.
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            4555555666666666666666666665553

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 ....

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.36  E-value=6.3  Score=39.52  Aligned_cols=180  Identities=12%  Similarity=0.079  Sum_probs=113.5

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCh--hhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHH
Q 048394           75 RKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSY--TDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALL  151 (485)
Q Consensus        75 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li  151 (485)
                      .+.....-+..+++...++.|+.+-+.   .+..++.  .......+.+.+.|++++|...|-+... ..|..     +|
T Consensus       333 ~ek~le~kL~iL~kK~ly~~Ai~LAk~---~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~le~s~-----Vi  404 (933)
T KOG2114|consen  333 IEKDLETKLDILFKKNLYKVAINLAKS---QHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFLEPSE-----VI  404 (933)
T ss_pred             eeccHHHHHHHHHHhhhHHHHHHHHHh---cCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccCChHH-----HH
Confidence            455666778888888999999887654   3322222  2233344556678999999988776655 44432     45


Q ss_pred             HHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHh
Q 048394          152 NCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDID  231 (485)
Q Consensus       152 ~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  231 (485)
                      .-|....++.+-..+++.+.+.|+. +...-..|+.+|.+.++.++..++.+... .|..  ..-....+..+.+.+-.+
T Consensus       405 ~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~  480 (933)
T KOG2114|consen  405 KKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLD  480 (933)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHH
Confidence            5667778888888899999999887 66677889999999999888777665544 2321  111234555556666666


Q ss_pred             HHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHH
Q 048394          232 GVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKK  275 (485)
Q Consensus       232 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  275 (485)
                      +|..+-.....      +......   .+-..+++++|++.+..
T Consensus       481 ~a~~LA~k~~~------he~vl~i---lle~~~ny~eAl~yi~s  515 (933)
T KOG2114|consen  481 EAELLATKFKK------HEWVLDI---LLEDLHNYEEALRYISS  515 (933)
T ss_pred             HHHHHHHHhcc------CHHHHHH---HHHHhcCHHHHHHHHhc
Confidence            65544333221      2333222   23345666777666554

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.30  E-value=3.6  Score=36.45  Aligned_cols=150  Identities=7%  Similarity=-0.147  Sum_probs=74.3

Q ss_pred             cCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCC----hHHHHHHHHHHHhcCChhh
Q 048394          227 LNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRD----RKAYHFLISLYCNTSNLDA  302 (485)
Q Consensus       227 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~  302 (485)
                      .|+..+|-..++++.+  ..|.|...+...-.+|.-.|+.+.....++++...-.++    ........-++...|-+++
T Consensus       116 ~g~~h~a~~~wdklL~--d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLD--DYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             cccccHHHHHHHHHHH--hCchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            4555555555555555  455555555555555556666665555555544421112    2222333334445566666


Q ss_pred             HHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHc---cCCCCHHhHHHHHHHHHhcCcHHHHHHHHHH
Q 048394          303 VNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESR---CSSYDMRLADVIIRAYLQKDMYEEAALIFNN  378 (485)
Q Consensus       303 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  378 (485)
                      |++.-++..+.++.|..+-.++...+--.|+..++.++..+-...   +...-...|-...-.+...+.++.|+.+|++
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 AEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            666666655555555555555555555556666665554433221   1101112222233334445566666666654

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=94.23  E-value=0.074  Score=29.35  Aligned_cols=31  Identities=32%  Similarity=0.533  Sum_probs=18.9

Q ss_pred             HHHHhcCCCChHHHHHHHHHHHhcCChhhHH
Q 048394          274 KKLEEMKPRDRKAYHFLISLYCNTSNLDAVN  304 (485)
Q Consensus       274 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  304 (485)
                      ++..+..|.+..+|+.+...|...|++++|+
T Consensus         3 ~kAie~~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    3 KKAIELNPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHHCCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            3444455666666666666666666666654

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=94.10  E-value=3.2  Score=38.57  Aligned_cols=88  Identities=9%  Similarity=0.041  Sum_probs=37.9

Q ss_pred             HHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHH
Q 048394          293 LYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEA  372 (485)
Q Consensus       293 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  372 (485)
                      .....|+++.+...+......-.....+...++....+.|+++.|...-..|....+. ++.......-.--..|-++++
T Consensus       332 i~~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~  410 (831)
T PRK15180        332 IFSHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKS  410 (831)
T ss_pred             HHHHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccC-ChhheeeecccHHHHhHHHHH
Confidence            3444455555554444443332223344444455555555555555555544444333 222222222222233444555


Q ss_pred             HHHHHHHHh
Q 048394          373 ALIFNNAKK  381 (485)
Q Consensus       373 ~~~~~~~~~  381 (485)
                      ...|++...
T Consensus       411 ~~~wk~~~~  419 (831)
T PRK15180        411 YHYWKRVLL  419 (831)
T ss_pred             HHHHHHHhc
Confidence            555555443

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=94.02  E-value=1.9  Score=32.36  Aligned_cols=62  Identities=13%  Similarity=0.085  Sum_probs=35.0

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHh
Q 048394          356 ADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEA  420 (485)
Q Consensus       356 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  420 (485)
                      ....+..+...|+-+.-.+++..+.+.+   .+++.....+..+|.+.|+..++-+++.++.+.|
T Consensus        89 vD~ALd~lv~~~kkDqLdki~~~l~kn~---~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   89 VDLALDILVKQGKKDQLDKIYNELKKNE---EINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH--------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhhcc---CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence            3444555666666666666666665433   4555556666677777777777777777776665

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=94.00  E-value=0.71  Score=40.15  Aligned_cols=78  Identities=17%  Similarity=0.071  Sum_probs=46.6

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH-----ccCCCCHHhHHHH
Q 048394          285 KAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWES-----RCSSYDMRLADVI  359 (485)
Q Consensus       285 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l  359 (485)
                      .++..+++.+...|+.+.+...++++....|.+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+....
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            34455555666666666666666666666655666666666666666666666666665543     4666666665544


Q ss_pred             HHH
Q 048394          360 IRA  362 (485)
Q Consensus       360 ~~~  362 (485)
                      ...
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=93.99  E-value=3.6  Score=36.64  Aligned_cols=126  Identities=10%  Similarity=0.160  Sum_probs=61.1

Q ss_pred             HHHHHHHHHHhccCCCCcHHHHHHHHHHHHh--c----ccHHHHHHHHHHHHhcCC----CChHHHHHHHHHHHhcCCh-
Q 048394          232 GVERVFYEMCNECEDKCRWTTYSNLASIYVK--A----ELFEKAELALKKLEEMKP----RDRKAYHFLISLYCNTSNL-  300 (485)
Q Consensus       232 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~----~~~~~A~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~-  300 (485)
                      +...+++.+.+ .|+.-+..+|-+.......  .    ....+|..+++.|++..|    ++..++..++..  ..++. 
T Consensus        80 ~~~~~y~~L~~-~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e  156 (297)
T PF13170_consen   80 EVLDIYEKLKE-AGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVE  156 (297)
T ss_pred             HHHHHHHHHHH-hccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHH
Confidence            34455555555 4555555444332222221  1    134556667777766222    344445444333  22222 


Q ss_pred             ---hhHHHHHHHhhhcCCC--ChhhHHHHHHHHHhc-CC--hhHHHHHHHHHHHccCCCCHHhHHHHH
Q 048394          301 ---DAVNRVWGILKSTFPP--TNTSYLVLLQALAKL-NA--IDILKQCFEEWESRCSSYDMRLADVII  360 (485)
Q Consensus       301 ---~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~-~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~  360 (485)
                         +.+..+|+.+.+.+..  +..-+.+-+-++... ..  ...+.++++.+.+.|+++....|..+.
T Consensus       157 ~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  157 ELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHH
Confidence               4455666666665554  332222222222221 11  345667777777777776666665443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=93.72  E-value=0.55  Score=32.89  Aligned_cols=63  Identities=10%  Similarity=0.043  Sum_probs=47.4

Q ss_pred             cHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHH
Q 048394          405 QLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIK  471 (485)
Q Consensus       405 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  471 (485)
                      +.-++.+-++.+....    ..|++.+..+.+++|.+.+|+..|.++++-+......+...|..+++
T Consensus        22 D~we~rr~mN~l~~~D----lVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYD----LVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGAHKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccc----cCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCchhhHHHHHH
Confidence            3445566666666665    88999999999999999999999999999888654444455655543

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.

>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=93.53  E-value=2.5  Score=34.40  Aligned_cols=100  Identities=13%  Similarity=0.111  Sum_probs=56.2

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCC--HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccc-cCCchhHHHH
Q 048394          319 TSYLVLLQALAKLNAIDILKQCFEEWESRCSSYD--MRLADVIIRAYLQKDMYEEAALIFNNAKKRANA-SARFFKSRES  395 (485)
Q Consensus       319 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~p~~~~~~~  395 (485)
                      ..+..+...|++.|+.+.|.+.|.++.+....+.  ...+-.+++.....+++..+...+.+....-.. ..++...--.
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            4556677777777777777777777766544433  344555667777777777777776665543110 0111111111


Q ss_pred             HHH--HHHhcccHHHHHHHHHHHHH
Q 048394          396 FMI--YYLRSRQLDLALNEMEAALS  418 (485)
Q Consensus       396 l~~--~~~~~g~~~~A~~~~~~~~~  418 (485)
                      ...  .+...+++.+|-+.|-....
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccCc
Confidence            111  12456777777777666543

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.

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.52  E-value=8.5  Score=38.05  Aligned_cols=187  Identities=10%  Similarity=0.016  Sum_probs=108.1

Q ss_pred             cccHHHHHHHHHHcCCCccHHHHHHH--HHH-HHhcCCHhHHHHHHHHHHhc---cCCCCcHHHHHHHHHHHHhcc----
Q 048394          195 PEKVRPLVNQMKQRNISLDNLTYIVW--MQS-YSHLNDIDGVERVFYEMCNE---CEDKCRWTTYSNLASIYVKAE----  264 (485)
Q Consensus       195 ~~~a~~~~~~~~~~~~~p~~~~~~~l--~~~-~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~----  264 (485)
                      ...+.++++...+.|..-. ......  ..+ +....+.+.|+.+|+.+.+.   ....-......-+..+|.+..    
T Consensus       228 ~~~a~~~~~~~a~~g~~~a-~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~~~~a~~~lg~~Y~~g~~~~~  306 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHSEA-QYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKGLPPAQYGLGRLYLQGLGVEK  306 (552)
T ss_pred             hhHHHHHHHHHHhhcchHH-HHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhcCCccccHHHHHHhcCCCCcc
Confidence            4567888888777763211 111111  222 44667888899888877551   001112234445777777643    


Q ss_pred             -cHHHHHHHHHHHHhcCCCChHHHHHHHHHHHh-cCChhhHHHHHHHhhhcCCCChhhHHHHHHHHH--hcCChhHHHHH
Q 048394          265 -LFEKAELALKKLEEMKPRDRKAYHFLISLYCN-TSNLDAVNRVWGILKSTFPPTNTSYLVLLQALA--KLNAIDILKQC  340 (485)
Q Consensus       265 -~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~a~~~  340 (485)
                       +.+.|..++........|+.......+..... ..+...|.++|...-..|.....-+..+.....  -..+.+.|...
T Consensus       307 ~d~~~A~~~~~~aA~~g~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A~~~  386 (552)
T KOG1550|consen  307 IDYEKALKLYTKAAELGNPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELAFAY  386 (552)
T ss_pred             ccHHHHHHHHHHHHhcCCchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHHHHH
Confidence             67778888888877666565554444333333 245678888888887777653333322222221  23467888888


Q ss_pred             HHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhccc
Q 048394          341 FEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRAN  384 (485)
Q Consensus       341 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  384 (485)
                      +.+..+.| .|...--...+..+.. ++++.+.-.+..+.+.+.
T Consensus       387 ~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~  428 (552)
T KOG1550|consen  387 YKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGY  428 (552)
T ss_pred             HHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhh
Confidence            88888887 3232222223333444 777777777776666653

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=93.40  E-value=7.1  Score=36.84  Aligned_cols=163  Identities=12%  Similarity=0.065  Sum_probs=83.0

Q ss_pred             ChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHH
Q 048394          178 NTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLA  257 (485)
Q Consensus       178 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  257 (485)
                      |....-+++..+..+-.+.-+..+..+|...|  -+...|..++++|... ..++-..+++++.+  -+-.|+..-..|+
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve--~dfnDvv~~ReLa  139 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVE--YDFNDVVIGRELA  139 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHH--hcchhHHHHHHHH
Confidence            44455666666666666666666666766654  3556666666666666 45555666666665  2223333333344


Q ss_pred             HHHHhcccHHHHHHHHHHHHhc-CC-C----ChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC--ChhhHHHHHHHHH
Q 048394          258 SIYVKAELFEKAELALKKLEEM-KP-R----DRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP--TNTSYLVLLQALA  329 (485)
Q Consensus       258 ~~~~~~~~~~~A~~~~~~~~~~-~~-~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~  329 (485)
                      ..|-+ ++..++...|.++... .| .    -...|..+....  ..+.+....+...+......  -...+.-+-.-|.
T Consensus       140 ~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys  216 (711)
T COG1747         140 DKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYS  216 (711)
T ss_pred             HHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhc
Confidence            44433 6666666666665541 11 0    112333333211  23444444444444433222  2333334444555


Q ss_pred             hcCChhHHHHHHHHHHHcc
Q 048394          330 KLNAIDILKQCFEEWESRC  348 (485)
Q Consensus       330 ~~~~~~~a~~~~~~~~~~~  348 (485)
                      ...++++|++++..+.+..
T Consensus       217 ~~eN~~eai~Ilk~il~~d  235 (711)
T COG1747         217 ENENWTEAIRILKHILEHD  235 (711)
T ss_pred             cccCHHHHHHHHHHHhhhc
Confidence            5556666666666555554

>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=93.34  E-value=1.4  Score=35.72  Aligned_cols=60  Identities=15%  Similarity=0.083  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC---CCChHHHHHHHHHHHhcCChhhHHHHHHHhh
Q 048394          252 TYSNLASIYVKAELFEKAELALKKLEEMK---PRDRKAYHFLISLYCNTSNLDAVNRVWGILK  311 (485)
Q Consensus       252 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  311 (485)
                      .+..++..|.+.|+.+.|.+.+.++.+-.   ..-...+..+++.....+++..+...+.++.
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            34455555555666666665555555411   1123334455555555555555555554443

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.

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=93.21  E-value=10  Score=38.03  Aligned_cols=49  Identities=22%  Similarity=0.231  Sum_probs=32.1

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhh
Q 048394           75 RKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKT  124 (485)
Q Consensus        75 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  124 (485)
                      +......++--|.|.|++++|.++....... .......+...+..+...
T Consensus       110 ~~~p~Wa~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s  158 (613)
T PF04097_consen  110 NGDPIWALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASS  158 (613)
T ss_dssp             TTEEHHHHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTT
T ss_pred             CCCccHHHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhC
Confidence            5556677788888999999999988554333 234455666667776553

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.

>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=93.12  E-value=19  Score=40.99  Aligned_cols=150  Identities=11%  Similarity=0.073  Sum_probs=96.2

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHH----HhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 048394          149 ALLNCYCKELMTERALALFEKM----DELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSY  224 (485)
Q Consensus       149 ~li~~~~~~~~~~~A~~~~~~m----~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  224 (485)
                      .+..+-.+++.+..|...+++-    ++...  ...-|-.+...|...+++|.+.-+...-..   .|+  . ..-|...
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~--~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a---~~s--l-~~qil~~ 1459 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKET--EEALYFLLQNLYGSIHDPDGVEGVSARRFA---DPS--L-YQQILEH 1459 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHH--HHHHHHHHHHHHHhcCCcchhhhHHHHhhc---Ccc--H-HHHHHHH
Confidence            4455666788999999998883    22211  122344455589999999988887764222   122  2 2344456


Q ss_pred             HhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHH-HHHHHHhcCChhhH
Q 048394          225 SHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHF-LISLYCNTSNLDAV  303 (485)
Q Consensus       225 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a  303 (485)
                      ...|+++.|...|+.+.+  ..++...+++-++......|.++......+-.....++....++. =..+-.+.++++..
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 EASGNWADAAACYERLIQ--KDPDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINRSEEVDELNSLGVEAAWRLSQWDLL 1537 (2382)
T ss_pred             HhhccHHHHHHHHHHhhc--CCCccccchhhHHHhhhcccchhHHHhhhcchhhccCHHHHHHHHHHHHHHhhhcchhhh
Confidence            678999999999999987  555556667767777667788887777666655533433333333 34444677777776


Q ss_pred             HHHHH
Q 048394          304 NRVWG  308 (485)
Q Consensus       304 ~~~~~  308 (485)
                      ...+.
T Consensus      1538 e~~l~ 1542 (2382)
T KOG0890|consen 1538 ESYLS 1542 (2382)
T ss_pred             hhhhh
Confidence            66654

>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=93.11  E-value=19  Score=40.98  Aligned_cols=149  Identities=11%  Similarity=-0.007  Sum_probs=94.9

Q ss_pred             HHHHHHHHcCChHHHHHHHHHH----HhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHh-hcccCCCHhHHHHHHHHHH
Q 048394           81 YCVRSLRKFGRYRHALEVIEWM----ESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNG-LSEYAKNRYTYGALLNCYC  155 (485)
Q Consensus        81 ~l~~~~~~~~~~~~A~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~~~li~~~~  155 (485)
                      .+..+-.+.+.+..|+-.++.-    .+..  .....|-.+...|+.-+++|....+... ..    +...+. -|....
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~--~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a----~~sl~~-qil~~e 1460 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKE--TEEALYFLLQNLYGSIHDPDGVEGVSARRFA----DPSLYQ-QILEHE 1460 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhH--HHHHHHHHHHHHHHhcCCcchhhhHHHHhhc----CccHHH-HHHHHH
Confidence            3444566778888888888873    2221  2233445555588999999988888774 32    222233 333456


Q ss_pred             hcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHH-HHHHHhcCCHhHHH
Q 048394          156 KELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVW-MQSYSHLNDIDGVE  234 (485)
Q Consensus       156 ~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l-~~~~~~~~~~~~a~  234 (485)
                      ..|++..|...|+.+.+.+.. ...+++-++......|.++.++-..+-.... ..+....++.+ +.+--+.++++...
T Consensus      1461 ~~g~~~da~~Cye~~~q~~p~-~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~-~se~~~~~~s~~~eaaW~l~qwD~~e 1538 (2382)
T KOG0890|consen 1461 ASGNWADAAACYERLIQKDPD-KEKHHSGVLKSMLAIQHLSTEILHLDGLIIN-RSEEVDELNSLGVEAAWRLSQWDLLE 1538 (2382)
T ss_pred             hhccHHHHHHHHHHhhcCCCc-cccchhhHHHhhhcccchhHHHhhhcchhhc-cCHHHHHHHHHHHHHHhhhcchhhhh
Confidence            679999999999999887632 3667887777777777777777655555443 23333334333 44556777777766


Q ss_pred             HHHH
Q 048394          235 RVFY  238 (485)
Q Consensus       235 ~~~~  238 (485)
                      ..+.
T Consensus      1539 ~~l~ 1542 (2382)
T KOG0890|consen 1539 SYLS 1542 (2382)
T ss_pred             hhhh
Confidence            6655

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=93.05  E-value=7.2  Score=35.90  Aligned_cols=65  Identities=12%  Similarity=0.002  Sum_probs=41.2

Q ss_pred             ChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC----ChhhHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048394          283 DRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP----TNTSYLVLLQALAKLNAIDILKQCFEEWESR  347 (485)
Q Consensus       283 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  347 (485)
                      ...+|..++..+.+.|.++.|...+..+......    .+.....-+..+-..|+..+|...++...+.
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~  213 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC  213 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4556777777777777777777777776664422    2334444455556667777777777766653

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=92.91  E-value=0.29  Score=27.37  Aligned_cols=25  Identities=20%  Similarity=0.212  Sum_probs=13.6

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHH
Q 048394          393 RESFMIYYLRSRQLDLALNEMEAAL  417 (485)
Q Consensus       393 ~~~l~~~~~~~g~~~~A~~~~~~~~  417 (485)
                      |..|...|.+.|++++|+++|++.+
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            4455555566666666666666543

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=92.84  E-value=4.5  Score=37.69  Aligned_cols=131  Identities=8%  Similarity=0.003  Sum_probs=94.4

Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhc
Q 048394          218 IVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNT  297 (485)
Q Consensus       218 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  297 (485)
                      ..-|.--...|++-.|.+-+..........|+...  .....+...|+++.+...+............+...+++...+.
T Consensus       293 ~~si~k~~~~gd~~aas~~~~~~lr~~~~~p~~i~--l~~~i~~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l  370 (831)
T PRK15180        293 TLSITKQLADGDIIAASQQLFAALRNQQQDPVLIQ--LRSVIFSHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGL  370 (831)
T ss_pred             HHHHHHHhhccCHHHHHHHHHHHHHhCCCCchhhH--HHHHHHHHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhch
Confidence            33444455678877776555544442333344333  2445566789999999999888875555678889999999999


Q ss_pred             CChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCC
Q 048394          298 SNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSS  350 (485)
Q Consensus       298 ~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  350 (485)
                      |+++.|...-+-|......++.......-.....|-++++.-.|+++.....+
T Consensus       371 ~r~~~a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~  423 (831)
T PRK15180        371 ARWREALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPE  423 (831)
T ss_pred             hhHHHHHHHHHHHhccccCChhheeeecccHHHHhHHHHHHHHHHHHhccCCh
Confidence            99999999999998887777776665555566678889999999988765443

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=92.70  E-value=0.25  Score=27.65  Aligned_cols=27  Identities=15%  Similarity=0.322  Sum_probs=22.7

Q ss_pred             HHHHHHHHHhhcCChhhHHHHHHHHhh
Q 048394          431 TVDTFFRFFEEEKDVDGAEEFCKVLKS  457 (485)
Q Consensus       431 ~~~~l~~~~~~~~~~~~A~~~~~~~~~  457 (485)
                      +|..|...|.+.|++++|+.++++.+.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            467889999999999999999999654

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.62  E-value=4.8  Score=32.75  Aligned_cols=90  Identities=12%  Similarity=0.155  Sum_probs=51.4

Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHH-----HHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHH
Q 048394          359 IIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRE-----SFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVD  433 (485)
Q Consensus       359 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~-----~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  433 (485)
                      +...+..++++++|..-++.....     |....+.     .|.......|.+|+|+..++.....+    +.  .....
T Consensus        95 lAk~~ve~~~~d~A~aqL~~~l~~-----t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~----w~--~~~~e  163 (207)
T COG2976          95 LAKAEVEANNLDKAEAQLKQALAQ-----TKDENLKALAALRLARVQLQQKKADAALKTLDTIKEES----WA--AIVAE  163 (207)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHcc-----chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccccc----HH--HHHHH
Confidence            344566677777777777665542     1112222     23344566777777777776655433    11  12222


Q ss_pred             HHHHHHhhcCChhhHHHHHHHHhhcC
Q 048394          434 TFFRFFEEEKDVDGAEEFCKVLKSLN  459 (485)
Q Consensus       434 ~l~~~~~~~~~~~~A~~~~~~~~~~~  459 (485)
                      .-...+...|+-++|...|++.++.+
T Consensus       164 lrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         164 LRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            33356667777777777777777765

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=92.55  E-value=0.65  Score=32.90  Aligned_cols=60  Identities=10%  Similarity=0.061  Sum_probs=40.5

Q ss_pred             HHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHH
Q 048394          408 LALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIK  471 (485)
Q Consensus       408 ~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  471 (485)
                      +..+-++.+....    ..|++.+..+.+++|.+.+|+..|.++++.+..........|..+++
T Consensus        28 e~rrglN~l~~~D----lVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYD----LVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSS----B---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TTHHHHHHH
T ss_pred             HHHHHHHHHhccc----cCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHHHHHHHHH
Confidence            4445555555544    88999999999999999999999999999888765544436655554

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 ....

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.50  E-value=3.7  Score=39.45  Aligned_cols=131  Identities=15%  Similarity=0.099  Sum_probs=69.5

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhc
Q 048394           78 MLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKE  157 (485)
Q Consensus        78 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~  157 (485)
                      .-..+...+.++|..++|+++-         +|.   ..-.....+.|+++.|.++..+..    +..-|..|..+..+.
T Consensus       616 ~rt~va~Fle~~g~~e~AL~~s---------~D~---d~rFelal~lgrl~iA~~la~e~~----s~~Kw~~Lg~~al~~  679 (794)
T KOG0276|consen  616 IRTKVAHFLESQGMKEQALELS---------TDP---DQRFELALKLGRLDIAFDLAVEAN----SEVKWRQLGDAALSA  679 (794)
T ss_pred             hhhhHHhHhhhccchHhhhhcC---------CCh---hhhhhhhhhcCcHHHHHHHHHhhc----chHHHHHHHHHHhhc
Confidence            3344455555555555555442         121   112233345666666666655543    455666666666666


Q ss_pred             CcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHH
Q 048394          158 LMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVF  237 (485)
Q Consensus       158 ~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  237 (485)
                      +++..|.+.|.+...         |..|+-.+...|+-+....+-....+.|.      .|....+|...|+++++.+++
T Consensus       680 ~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~------~N~AF~~~~l~g~~~~C~~lL  744 (794)
T KOG0276|consen  680 GELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGK------NNLAFLAYFLSGDYEECLELL  744 (794)
T ss_pred             ccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhcc------cchHHHHHHHcCCHHHHHHHH
Confidence            777766666655443         44455555666665555555555555442      122333455566666666655


Q ss_pred             HH
Q 048394          238 YE  239 (485)
Q Consensus       238 ~~  239 (485)
                      ..
T Consensus       745 i~  746 (794)
T KOG0276|consen  745 IS  746 (794)
T ss_pred             Hh
Confidence            44

>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=92.44  E-value=4.6  Score=32.19  Aligned_cols=27  Identities=15%  Similarity=0.256  Sum_probs=12.3

Q ss_pred             HHHHhCCCCCChhhHHHHHHHHHhCCC
Q 048394          168 EKMDELKFLGNTVAFNNLSTMYLRLGQ  194 (485)
Q Consensus       168 ~~m~~~~~~p~~~~~~~l~~~~~~~g~  194 (485)
                      +.+.+.++.|+...+..++..+.+.|+
T Consensus        18 rSl~~~~i~~~~~L~~lli~lLi~~~~   44 (167)
T PF07035_consen   18 RSLNQHNIPVQHELYELLIDLLIRNGQ   44 (167)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHHHcCC
Confidence            333344444444444444444444444

>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=92.14  E-value=0.34  Score=26.43  Aligned_cols=30  Identities=20%  Similarity=0.205  Sum_probs=17.0

Q ss_pred             HHHHHHHHHhhcCChhhHHHHHHHHhhcCC
Q 048394          431 TVDTFFRFFEEEKDVDGAEEFCKVLKSLNC  460 (485)
Q Consensus       431 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  460 (485)
                      +|..+...+...|++++|.+.|++..+..|
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~   32 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNP   32 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            344455555556666666666666655544

...

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=92.03  E-value=1.1  Score=31.41  Aligned_cols=46  Identities=11%  Similarity=0.140  Sum_probs=31.8

Q ss_pred             cHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048394          197 KVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCN  242 (485)
Q Consensus       197 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  242 (485)
                      ++.+-++.+....+.|++.+..+.+++|.+.+++..|.++|+.+..
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~   70 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKD   70 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4455555666666777777777777777777777777777776664

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.

>PRK11619 lytic murein transglycosylase; Provisional

Probab=92.03  E-value=15  Score=37.04  Aligned_cols=117  Identities=9%  Similarity=-0.070  Sum_probs=69.0

Q ss_pred             hcCChhhHHHHHHHhhhcCCC----ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHH
Q 048394          296 NTSNLDAVNRVWGILKSTFPP----TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEE  371 (485)
Q Consensus       296 ~~~~~~~a~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  371 (485)
                      ...+.+.|...+........-    .......+.......+..+++...+........  +......-+..-...++++.
T Consensus       253 ar~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~~~--~~~~~e~r~r~Al~~~dw~~  330 (644)
T PRK11619        253 ARQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMRSQ--STSLLERRVRMALGTGDRRG  330 (644)
T ss_pred             HHhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhcccccC--CcHHHHHHHHHHHHccCHHH
Confidence            345668888888876444332    222333444333343325566666665443322  44444555555568889988


Q ss_pred             HHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHH
Q 048394          372 AALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAAL  417 (485)
Q Consensus       372 A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  417 (485)
                      +...+..|....   .-...-.--+..++...|+.++|...|+.+.
T Consensus       331 ~~~~i~~L~~~~---~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a  373 (644)
T PRK11619        331 LNTWLARLPMEA---KEKDEWRYWQADLLLEQGRKAEAEEILRQLM  373 (644)
T ss_pred             HHHHHHhcCHhh---ccCHhhHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            888888875532   2122223356677777899999999988873

>PRK11619 lytic murein transglycosylase; Provisional

Probab=91.80  E-value=16  Score=36.86  Aligned_cols=323  Identities=11%  Similarity=0.019  Sum_probs=151.3

Q ss_pred             hhhHHHHHHHHHhhCCHHHHHHHHHhhcccCC-CHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhh-HHHHHHH
Q 048394          111 YTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAK-NRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVA-FNNLSTM  188 (485)
Q Consensus       111 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~-~~~l~~~  188 (485)
                      ...|.....+ .+.|++..+.++...+...+. .-..|..|.... ....+++...++++-...   |-... -...+..
T Consensus        34 r~~f~~A~~a-~~~g~~~~~~~~~~~l~d~pL~~yl~y~~L~~~l-~~~~~~ev~~Fl~~~~~~---P~~~~Lr~~~l~~  108 (644)
T PRK11619         34 RQRYQQIKQA-WDNRQMDVVEQLMPTLKDYPLYPYLEYRQLTQDL-MNQPAVQVTNFIRANPTL---PPARSLQSRFVNE  108 (644)
T ss_pred             HHHHHHHHHH-HHCCCHHHHHHHHHhccCCCcHhHHHHHHHHhcc-ccCCHHHHHHHHHHCCCC---chHHHHHHHHHHH
Confidence            3344444444 356788888888777764211 122333332221 122455544444432221   21111 2233334


Q ss_pred             HHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHH
Q 048394          189 YLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEK  268 (485)
Q Consensus       189 ~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  268 (485)
                      +.+.+++....+++.    . .+.+...-.....+....|+.++|......+=.  .....+...+.+...+.+.|....
T Consensus       109 La~~~~w~~~~~~~~----~-~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~--~g~~~p~~cd~l~~~~~~~g~lt~  181 (644)
T PRK11619        109 LARREDWRGLLAFSP----E-KPKPVEARCNYYYAKWATGQQQEAWQGAKELWL--TGKSLPNACDKLFSVWQQSGKQDP  181 (644)
T ss_pred             HHHccCHHHHHHhcC----C-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhc--cCCCCChHHHHHHHHHHHcCCCCH
Confidence            455666665555221    1 123444445566677778887777666665533  122234455567777776665443


Q ss_pred             HHHHHHHHHh-cCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhh----------cCCCChhhHHHHHHHH--HhcCChh
Q 048394          269 AELALKKLEE-MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKS----------TFPPTNTSYLVLLQAL--AKLNAID  335 (485)
Q Consensus       269 A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----------~~~~~~~~~~~l~~~~--~~~~~~~  335 (485)
                      .. +..++.. ....+...-..+...+.  .+.....+.+..+..          ..+++...-..++.++  ....+.+
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            32 3333333 22223333333333221  111111111111111          0111111111111122  2345567


Q ss_pred             HHHHHHHHHHHcc-CCCC--HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHH
Q 048394          336 ILKQCFEEWESRC-SSYD--MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNE  412 (485)
Q Consensus       336 ~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  412 (485)
                      .|...+....... ..+.  ..++..+.......+..++|...++.....    ..+......-+..-...++++.+...
T Consensus       259 ~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~----~~~~~~~e~r~r~Al~~~dw~~~~~~  334 (644)
T PRK11619        259 NARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMR----SQSTSLLERRVRMALGTGDRRGLNTW  334 (644)
T ss_pred             HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhcccc----cCCcHHHHHHHHHHHHccCHHHHHHH
Confidence            7777777764433 2211  223333433333332245566666554433    22334444445555678888888888


Q ss_pred             HHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhh
Q 048394          413 MEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKS  457 (485)
Q Consensus       413 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  457 (485)
                      +..|....     .-...-.-=+.+++...|+.++|..+|+.+..
T Consensus       335 i~~L~~~~-----~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a~  374 (644)
T PRK11619        335 LARLPMEA-----KEKDEWRYWQADLLLEQGRKAEAEEILRQLMQ  374 (644)
T ss_pred             HHhcCHhh-----ccCHhhHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            88875542     22223333344666678888999888888744

>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=91.50  E-value=0.0054  Score=48.11  Aligned_cols=53  Identities=9%  Similarity=0.149  Sum_probs=23.2

Q ss_pred             HHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHH
Q 048394          186 STMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFY  238 (485)
Q Consensus       186 ~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  238 (485)
                      +..+.+.+.++....+++.+...+...+....+.++..|++.++.+...++++
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            33444444444444444444443333334444445555555444444444443

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.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=91.42  E-value=0.27  Score=43.14  Aligned_cols=81  Identities=19%  Similarity=0.149  Sum_probs=65.0

Q ss_pred             HHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhC
Q 048394          398 IYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAG  477 (485)
Q Consensus       398 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  477 (485)
                      +-|++.|++++|+++|...+...     +-++.++..-..+|.+.+.+..|+.-...++.++..-..+|..-+.+-...|
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~-----P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg  179 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVY-----PHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLG  179 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccC-----CCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHh
Confidence            35789999999999999998863     3388888888889999999999999888888877666667777666666666


Q ss_pred             CCcchh
Q 048394          478 KLASDM  483 (485)
Q Consensus       478 ~~~~A~  483 (485)
                      +..+|-
T Consensus       180 ~~~EAK  185 (536)
T KOG4648|consen  180 NNMEAK  185 (536)
T ss_pred             hHHHHH
Confidence            666653

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=91.34  E-value=11  Score=34.22  Aligned_cols=119  Identities=10%  Similarity=0.006  Sum_probs=73.1

Q ss_pred             hhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHh---cCcHHHHHHHHH
Q 048394          301 DAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQ---KDMYEEAALIFN  377 (485)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~A~~~~~  377 (485)
                      +.-+.+++++.+.++.+......++..+.+..+.+...+.++.+....+. +...|...+.....   .-.+++...+|.
T Consensus        48 E~klsilerAL~~np~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~~~-~~~LW~~yL~~~q~~~~~f~v~~~~~~y~  126 (321)
T PF08424_consen   48 ERKLSILERALKHNPDSERLLLGYLEEGEKVWDSEKLAKKWEELLFKNPG-SPELWREYLDFRQSNFASFTVSDVRDVYE  126 (321)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHHhccCcHHHHHHHHH
Confidence            44556777777776667777777777777777777777777777776444 66677666665443   234555665555


Q ss_pred             HHHhc------cc-cc-CCchhH-------HHHHHHHHHhcccHHHHHHHHHHHHHHh
Q 048394          378 NAKKR------AN-AS-ARFFKS-------RESFMIYYLRSRQLDLALNEMEAALSEA  420 (485)
Q Consensus       378 ~~~~~------~~-~~-~p~~~~-------~~~l~~~~~~~g~~~~A~~~~~~~~~~~  420 (485)
                      +....      +. .. .+...+       +..+...+.++|..+.|+.+++.+++.+
T Consensus       127 ~~l~~L~~~~~~~~~~~~~~~~~e~~~l~v~~r~~~fl~~aG~~E~Ava~~Qa~lE~n  184 (321)
T PF08424_consen  127 KCLRALSRRRSGRMTSHPDLPELEEFMLYVFLRLCRFLRQAGYTERAVALWQALLEFN  184 (321)
T ss_pred             HHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHCCchHHHHHHHHHHHHHH
Confidence            54331      00 00 011111       2222233457999999999999999876

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.24  E-value=0.82  Score=24.79  Aligned_cols=29  Identities=24%  Similarity=0.339  Sum_probs=14.5

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCC
Q 048394          253 YSNLASIYVKAELFEKAELALKKLEEMKP  281 (485)
Q Consensus       253 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  281 (485)
                      +..+..++...|++++|.+.|++..+..|
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~l~p   32 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALELDP   32 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHCc
Confidence            33455555555555555555555554333

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 ....

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.20  E-value=0.58  Score=25.52  Aligned_cols=29  Identities=24%  Similarity=0.345  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC
Q 048394          252 TYSNLASIYVKAELFEKAELALKKLEEMK  280 (485)
Q Consensus       252 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  280 (485)
                      +|..++.+|...|++++|+..|++..+..
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            34445555555555555555555554433

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 ....

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=91.19  E-value=5.8  Score=30.72  Aligned_cols=55  Identities=20%  Similarity=0.137  Sum_probs=35.7

Q ss_pred             hcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC
Q 048394          262 KAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP  316 (485)
Q Consensus       262 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  316 (485)
                      ..++.+++..+++.+.-..|.....-..-...+...|+|++|.++|+.+.+..+.
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~   76 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAGA   76 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCCC
Confidence            3667777777777776666655544444555566777777777777777665543

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=91.16  E-value=1  Score=32.01  Aligned_cols=46  Identities=11%  Similarity=0.130  Sum_probs=27.8

Q ss_pred             cHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048394          197 KVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCN  242 (485)
Q Consensus       197 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  242 (485)
                      +..+-++.+-...+.|++.+..+.+++|.+.+++..|.++|+.+..
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~   73 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKD   73 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3444455555556677777777777777777777777777777666

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 ....

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=91.12  E-value=14  Score=35.02  Aligned_cols=181  Identities=11%  Similarity=0.023  Sum_probs=133.3

Q ss_pred             cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHH
Q 048394          140 YAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIV  219 (485)
Q Consensus       140 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  219 (485)
                      ...|....-+++..+..+-++.-...+-.+|..-|  -+...|..++.+|..+ ..+.-..+++++.+..+ .|.+.-..
T Consensus        62 ~~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~Re  137 (711)
T COG1747          62 QLLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIGRE  137 (711)
T ss_pred             ccccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHHHH
Confidence            44567778889999999999999999999999876  4677899999999988 56888999999988754 23333344


Q ss_pred             HHHHHHhcCCHhHHHHHHHHHHhccCCCC------cHHHHHHHHHHHHhcccHHHHHHHHHHHHh--cCCCChHHHHHHH
Q 048394          220 WMQSYSHLNDIDGVERVFYEMCNECEDKC------RWTTYSNLASIYVKAELFEKAELALKKLEE--MKPRDRKAYHFLI  291 (485)
Q Consensus       220 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~  291 (485)
                      |...| ..++...+..+|..+..  ...|      -..+|..+...-  ..+.+....+...+..  +...-...+..+-
T Consensus       138 La~~y-Ekik~sk~a~~f~Ka~y--rfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~  212 (711)
T COG1747         138 LADKY-EKIKKSKAAEFFGKALY--RFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVY  212 (711)
T ss_pred             HHHHH-HHhchhhHHHHHHHHHH--HhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHH
Confidence            45444 44889999999998877  3333      223444444422  4567777777777776  3334456666777


Q ss_pred             HHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHH
Q 048394          292 SLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALA  329 (485)
Q Consensus       292 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  329 (485)
                      .-|....++++|++++..+.+....+..+-..++.-+.
T Consensus       213 ~~Ys~~eN~~eai~Ilk~il~~d~k~~~ar~~~i~~lR  250 (711)
T COG1747         213 KKYSENENWTEAIRILKHILEHDEKDVWARKEIIENLR  250 (711)
T ss_pred             HHhccccCHHHHHHHHHHHhhhcchhhhHHHHHHHHHH
Confidence            88888999999999999999888887777777766553

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.07  E-value=8.4  Score=32.38  Aligned_cols=87  Identities=8%  Similarity=-0.055  Sum_probs=43.8

Q ss_pred             CChhHHHHHHHHHHHc--cCCCCHH---hHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHH----HHHHHH-
Q 048394          332 NAIDILKQCFEEWESR--CSSYDMR---LADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRES----FMIYYL-  401 (485)
Q Consensus       332 ~~~~~a~~~~~~~~~~--~~~~~~~---~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~----l~~~~~-  401 (485)
                      .+++.|+..|+..-+.  |-..+..   .+-.+...-...+++.+|..+|++......  ..+..-|..    +-.+++ 
T Consensus       128 ~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~--~n~LLKys~KdyflkAgLCh  205 (288)
T KOG1586|consen  128 QDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSL--DNNLLKYSAKDYFLKAGLCH  205 (288)
T ss_pred             HHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--cchHHHhHHHHHHHHHHHHh
Confidence            5566666666655432  1111111   222223333456788888888888776644  333333321    111122 


Q ss_pred             -hcccHHHHHHHHHHHHHHh
Q 048394          402 -RSRQLDLALNEMEAALSEA  420 (485)
Q Consensus       402 -~~g~~~~A~~~~~~~~~~~  420 (485)
                       -..+.-.+...+++..+..
T Consensus       206 l~~~D~v~a~~ALeky~~~d  225 (288)
T KOG1586|consen  206 LCKADEVNAQRALEKYQELD  225 (288)
T ss_pred             HhcccHHHHHHHHHHHHhcC
Confidence             2255666667777776654

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=91.05  E-value=0.47  Score=25.54  Aligned_cols=25  Identities=24%  Similarity=0.151  Sum_probs=12.4

Q ss_pred             HHHHhhcCChhhHHHHHHHHhhcCC
Q 048394          436 FRFFEEEKDVDGAEEFCKVLKSLNC  460 (485)
Q Consensus       436 ~~~~~~~~~~~~A~~~~~~~~~~~~  460 (485)
                      ..++.+.|++++|.+.|+++++..|
T Consensus         7 a~~~~~~g~~~~A~~~~~~~~~~~P   31 (33)
T PF13174_consen    7 ARCYYKLGDYDEAIEYFQRLIKRYP   31 (33)
T ss_dssp             HHHHHHHCHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHccCHHHHHHHHHHHHHHCc
Confidence            3444445555555555555555444

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.95  E-value=6.2  Score=34.69  Aligned_cols=99  Identities=11%  Similarity=0.048  Sum_probs=48.8

Q ss_pred             ChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC---ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHH
Q 048394          283 DRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP---TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVI  359 (485)
Q Consensus       283 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  359 (485)
                      ...+...++..-....+++.+...+-+++.....   ...+....+..+ -.-+.++++.++..=.+.|+-||.++++.+
T Consensus        63 s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irll-lky~pq~~i~~l~npIqYGiF~dqf~~c~l  141 (418)
T KOG4570|consen   63 SSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQFTFCLL  141 (418)
T ss_pred             ceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHH-HccChHHHHHHHhCcchhccccchhhHHHH
Confidence            3334444444444445555555555554432211   111111222222 223444555555555566666666666666


Q ss_pred             HHHHHhcCcHHHHHHHHHHHHhc
Q 048394          360 IRAYLQKDMYEEAALIFNNAKKR  382 (485)
Q Consensus       360 ~~~~~~~~~~~~A~~~~~~~~~~  382 (485)
                      ++.+.+.+++.+|.++.-.|...
T Consensus       142 ~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  142 MDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHhcccHHHHHHHHHHHHHH
Confidence            66666666666666665555443

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=90.74  E-value=15  Score=34.64  Aligned_cols=108  Identities=9%  Similarity=-0.050  Sum_probs=69.9

Q ss_pred             HHHhcCChhHHHHHHHHHH---HccCCCC-----HHhHHHHHHHHHhcCcHHHHHHHHHHHHh-------cccccCCch-
Q 048394          327 ALAKLNAIDILKQCFEEWE---SRCSSYD-----MRLADVIIRAYLQKDMYEEAALIFNNAKK-------RANASARFF-  390 (485)
Q Consensus       327 ~~~~~~~~~~a~~~~~~~~---~~~~~~~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-------~~~~~~p~~-  390 (485)
                      .+.-.|++..|.+++...-   ..|...+     -..||.|...+.+.|.+..+..+|.+..+       .|.  .|.. 
T Consensus       249 ~eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~--~~~~~  326 (696)
T KOG2471|consen  249 LEYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGL--KPAKT  326 (696)
T ss_pred             HHHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccC--CCCcc
Confidence            3445788888888776542   1221111     22346666666677777777777776653       343  3321 


Q ss_pred             ----------hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhc
Q 048394          391 ----------KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEE  442 (485)
Q Consensus       391 ----------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  442 (485)
                                .+||. .-.|...|++-.|.++|.+....     +..++..|..+..+|...
T Consensus       327 ~tls~nks~eilYNc-G~~~Lh~grPl~AfqCf~~av~v-----fh~nPrlWLRlAEcCima  382 (696)
T KOG2471|consen  327 FTLSQNKSMEILYNC-GLLYLHSGRPLLAFQCFQKAVHV-----FHRNPRLWLRLAECCIMA  382 (696)
T ss_pred             eehhcccchhhHHhh-hHHHHhcCCcHHHHHHHHHHHHH-----HhcCcHHHHHHHHHHHHH
Confidence                      22332 23467889999999999999888     788889999998888643

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=90.50  E-value=11  Score=32.83  Aligned_cols=61  Identities=13%  Similarity=0.090  Sum_probs=45.4

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 048394          285 KAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWE  345 (485)
Q Consensus       285 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  345 (485)
                      .+++.....|...|.+.+|.++.++...-.+-+...+-.++..+...||--.+.+.++.+.
T Consensus       280 kllgkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         280 KLLGKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            4455666777788888888888888777777777777788888888888777777666654

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=89.91  E-value=7.7  Score=30.07  Aligned_cols=18  Identities=6%  Similarity=-0.025  Sum_probs=8.6

Q ss_pred             hcCcHHHHHHHHHHHHhC
Q 048394          156 KELMTERALALFEKMDEL  173 (485)
Q Consensus       156 ~~~~~~~A~~~~~~m~~~  173 (485)
                      ..|++.+|..+|++..+.
T Consensus        56 ~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        56 ARGNYDEAARILRELLSS   73 (153)
T ss_pred             HcCCHHHHHHHHHhhhcc
Confidence            444555555555444443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.89  E-value=5.6  Score=34.97  Aligned_cols=99  Identities=12%  Similarity=0.014  Sum_probs=66.8

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHHcc---CCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHH
Q 048394          317 TNTSYLVLLQALAKLNAIDILKQCFEEWESRC---SSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSR  393 (485)
Q Consensus       317 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~  393 (485)
                      ...+...++..-....+++.+...+-++....   ..|+...+. .++.+. .-+.++++.++..=+..|+  -||..++
T Consensus        63 s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~-~irlll-ky~pq~~i~~l~npIqYGi--F~dqf~~  138 (418)
T KOG4570|consen   63 SSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHT-WIRLLL-KYDPQKAIYTLVNPIQYGI--FPDQFTF  138 (418)
T ss_pred             ceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHH-HHHHHH-ccChHHHHHHHhCcchhcc--ccchhhH
Confidence            44555555555555677788877776665431   122222222 333333 3467788888888788888  8888898


Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          394 ESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       394 ~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      +.+|+.+.+.+++.+|..+...|+..
T Consensus       139 c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  139 CLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            88999999999888888888887776

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=89.69  E-value=23  Score=35.14  Aligned_cols=180  Identities=16%  Similarity=0.009  Sum_probs=108.7

Q ss_pred             HHHHHHHHHhhcccCCCHhHHHHHH----HH-HHhcCcHHHHHHHHHHHHh-------CCCCCChhhHHHHHHHHHhCC-
Q 048394          127 IAAAEKYFNGLSEYAKNRYTYGALL----NC-YCKELMTERALALFEKMDE-------LKFLGNTVAFNNLSTMYLRLG-  193 (485)
Q Consensus       127 ~~~a~~~~~~~~~~~~~~~~~~~li----~~-~~~~~~~~~A~~~~~~m~~-------~~~~p~~~~~~~l~~~~~~~g-  193 (485)
                      ...|..+++...+. -+...-..+.    .+ +....+.+.|+..|+.+..       .|   +.....-+..+|.+.. 
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 LSEAFKYYREAAKL-GHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLG  303 (552)
T ss_pred             hhHHHHHHHHHHhh-cchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCC
Confidence            45677777777661 1222222222    22 4456789999999998876       55   3446677777777754 


Q ss_pred             ----CcccHHHHHHHHHHcCCCccHHHHHHHHHHHHh-cCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHH----hcc
Q 048394          194 ----QPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSH-LNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYV----KAE  264 (485)
Q Consensus       194 ----~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~  264 (485)
                          +.+.|..++...-+.|. |+.......+..... ..+...|.++|....+ .|..+. ..+  +..+|.    ...
T Consensus       304 ~~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~-~G~~~A-~~~--la~~y~~G~gv~r  378 (552)
T KOG1550|consen  304 VEKIDYEKALKLYTKAAELGN-PDAQYLLGVLYETGTKERDYRRAFEYYSLAAK-AGHILA-IYR--LALCYELGLGVER  378 (552)
T ss_pred             CccccHHHHHHHHHHHHhcCC-chHHHHHHHHHHcCCccccHHHHHHHHHHHHH-cCChHH-HHH--HHHHHHhCCCcCC
Confidence                45568888888888774 555544333333222 2467789999988887 444322 222  333332    234


Q ss_pred             cHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC
Q 048394          265 LFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP  316 (485)
Q Consensus       265 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  316 (485)
                      +...|..++++..+...+....-...+..+.. +.++.+.-.+..+...+..
T Consensus       379 ~~~~A~~~~k~aA~~g~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~  429 (552)
T KOG1550|consen  379 NLELAFAYYKKAAEKGNPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYE  429 (552)
T ss_pred             CHHHHHHHHHHHHHccChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhh
Confidence            78888888888877554333333334444444 7777777777777666655

>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=89.49  E-value=6  Score=31.79  Aligned_cols=41  Identities=12%  Similarity=-0.027  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          369 YEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       369 ~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      +++|...|++....    .|+..+|+.-+...      ++|-++..++.+.
T Consensus        96 F~kA~~~FqkAv~~----~P~ne~Y~ksLe~~------~kap~lh~e~~~~  136 (186)
T PF06552_consen   96 FEKATEYFQKAVDE----DPNNELYRKSLEMA------AKAPELHMEIHKQ  136 (186)
T ss_dssp             HHHHHHHHHHHHHH-----TT-HHHHHHHHHH------HTHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhc----CCCcHHHHHHHHHH------HhhHHHHHHHHHH
Confidence            45555556555555    67777776665544      2344555555444

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.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=89.33  E-value=28  Score=35.63  Aligned_cols=228  Identities=11%  Similarity=0.024  Sum_probs=122.7

Q ss_pred             HHhcCCHhHHHHHHHHHHhccCC---CCcHH---HHHHHH-HHHHhcccHHHHHHHHHHHHhcCC-----CChHHHHHHH
Q 048394          224 YSHLNDIDGVERVFYEMCNECED---KCRWT---TYSNLA-SIYVKAELFEKAELALKKLEEMKP-----RDRKAYHFLI  291 (485)
Q Consensus       224 ~~~~~~~~~a~~~~~~~~~~~~~---~~~~~---~~~~l~-~~~~~~~~~~~A~~~~~~~~~~~~-----~~~~~~~~l~  291 (485)
                      .....++++|..++.++...-+.   .+...   .++.+- ......|++++|.++.+......|     .....+..+.
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            34567888888888887661111   11111   122221 222346888999998888877333     3455667777


Q ss_pred             HHHHhcCChhhHHHHHHHhhhcCCC-Ch---hhHHHH--HHHHHhcCC--hhHHHHHHHHHHHcc--CC----CCHHhHH
Q 048394          292 SLYCNTSNLDAVNRVWGILKSTFPP-TN---TSYLVL--LQALAKLNA--IDILKQCFEEWESRC--SS----YDMRLAD  357 (485)
Q Consensus       292 ~~~~~~~~~~~a~~~~~~~~~~~~~-~~---~~~~~l--~~~~~~~~~--~~~a~~~~~~~~~~~--~~----~~~~~~~  357 (485)
                      .+..-.|+++.|..+..+..+.... +.   ..+..+  ...+...|+  .++.+..|.......  -+    +-..++.
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            8888889999998887766554222 22   222222  233445663  233333444333221  11    1223444


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHhcccccCCch--hHH--HHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHH
Q 048394          358 VIIRAYLQKDMYEEAALIFNNAKKRANASARFF--KSR--ESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVD  433 (485)
Q Consensus       358 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~--~~~--~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  433 (485)
                      .+..++.+   .+.+..-...-.+.|....|..  ..+  ..|+......|+.++|...+.++......++..++...-.
T Consensus       585 ~ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~  661 (894)
T COG2909         585 QLLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAA  661 (894)
T ss_pred             HHHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHH
Confidence            45555544   3333332222222211112222  222  2567777889999999999999998874443333433333


Q ss_pred             HHHH--HHhhcCChhhHHHHHHH
Q 048394          434 TFFR--FFEEEKDVDGAEEFCKV  454 (485)
Q Consensus       434 ~l~~--~~~~~~~~~~A~~~~~~  454 (485)
                      ..+.  .....||.+.+.....+
T Consensus       662 ~~v~~~lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         662 YKVKLILWLAQGDKELAAEWLLK  684 (894)
T ss_pred             HHhhHHHhcccCCHHHHHHHHHh
Confidence            3333  23457888877776655

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=89.29  E-value=17  Score=33.06  Aligned_cols=119  Identities=10%  Similarity=0.029  Sum_probs=73.1

Q ss_pred             HHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHh---cCChhHHHHHHH
Q 048394          266 FEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAK---LNAIDILKQCFE  342 (485)
Q Consensus       266 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~  342 (485)
                      .+.-+.+++++.+..|.+...+..++..+.+..+.+...+.|+++....+.+...|...+.....   .-.++....+|.
T Consensus        47 ~E~klsilerAL~~np~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~~~~~~LW~~yL~~~q~~~~~f~v~~~~~~y~  126 (321)
T PF08424_consen   47 AERKLSILERALKHNPDSERLLLGYLEEGEKVWDSEKLAKKWEELLFKNPGSPELWREYLDFRQSNFASFTVSDVRDVYE  126 (321)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHhccCcHHHHHHHHH
Confidence            34455666666666666677777777777777777777777777777766666666666655543   223455555555


Q ss_pred             HHHHc------cC----CCC-------HHhHHHHHHHHHhcCcHHHHHHHHHHHHhccc
Q 048394          343 EWESR------CS----SYD-------MRLADVIIRAYLQKDMYEEAALIFNNAKKRAN  384 (485)
Q Consensus       343 ~~~~~------~~----~~~-------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  384 (485)
                      +..+.      +.    .+.       ..++..+...+.++|-.+.|..+++-+.+.++
T Consensus       127 ~~l~~L~~~~~~~~~~~~~~~~~e~~~l~v~~r~~~fl~~aG~~E~Ava~~Qa~lE~n~  185 (321)
T PF08424_consen  127 KCLRALSRRRSGRMTSHPDLPELEEFMLYVFLRLCRFLRQAGYTERAVALWQALLEFNF  185 (321)
T ss_pred             HHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHCCchHHHHHHHHHHHHHHc
Confidence            43321      11    001       12233344445678999999999999988764

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.05  E-value=31  Score=35.79  Aligned_cols=113  Identities=17%  Similarity=0.157  Sum_probs=60.1

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcC----CCChHHHHHHHHHHHhcCCh--hhHHHHHHHhhhcCCC-ChhhHH---
Q 048394          253 YSNLASIYVKAELFEKAELALKKLEEMK----PRDRKAYHFLISLYCNTSNL--DAVNRVWGILKSTFPP-TNTSYL---  322 (485)
Q Consensus       253 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~~--~~a~~~~~~~~~~~~~-~~~~~~---  322 (485)
                      |..|+..|...|+.++|++++..+.+..    +.-...+-.+++.+.+.+..  +-+++.-.-.....+. ....+.   
T Consensus       507 y~~Li~LY~~kg~h~~AL~ll~~l~d~~~~~d~~~~~~~e~ii~YL~~l~~~~~~Li~~y~~wvl~~~p~~gi~Ift~~~  586 (877)
T KOG2063|consen  507 YRELIELYATKGMHEKALQLLRDLVDEDSDTDSFQLDGLEKIIEYLKKLGAENLDLILEYADWVLNKNPEAGIQIFTSED  586 (877)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHhccccccccchhhhHHHHHHHHHHhcccchhHHHHHhhhhhccCchhheeeeeccC
Confidence            5667777777888888888877776622    11122233344444444443  3344333333333222 111111   


Q ss_pred             ---------HHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHh
Q 048394          323 ---------VLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQ  365 (485)
Q Consensus       323 ---------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  365 (485)
                               ..+-.|......+.+..+++.+....-.++....+.++..|..
T Consensus       587 ~~~~~sis~~~Vl~~l~~~~~~l~I~YLE~li~~~~~~~~~lht~ll~ly~e  638 (877)
T KOG2063|consen  587 KQEAESISRDDVLNYLKSKEPKLLIPYLEHLISDNRLTSTLLHTVLLKLYLE  638 (877)
T ss_pred             hhhhccCCHHHHHHHhhhhCcchhHHHHHHHhHhccccchHHHHHHHHHHHH
Confidence                     1233345556666777777777665555566666767666654

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.90  E-value=13  Score=31.32  Aligned_cols=15  Identities=13%  Similarity=0.268  Sum_probs=8.7

Q ss_pred             hCCHHHHHHHHHhhc
Q 048394          124 TNGIAAAEKYFNGLS  138 (485)
Q Consensus       124 ~g~~~~a~~~~~~~~  138 (485)
                      .+++++|-++|.+..
T Consensus        27 ~~k~eeAadl~~~Aa   41 (288)
T KOG1586|consen   27 SNKYEEAAELYERAA   41 (288)
T ss_pred             CcchHHHHHHHHHHH
Confidence            345666666666554

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.90  E-value=11  Score=30.67  Aligned_cols=115  Identities=16%  Similarity=-0.010  Sum_probs=71.2

Q ss_pred             hHHHHHHHhhhcCCCCh---hhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCC--HHhHHHHHHHHHhcCcHHHHHHHH
Q 048394          302 AVNRVWGILKSTFPPTN---TSYLVLLQALAKLNAIDILKQCFEEWESRCSSYD--MRLADVIIRAYLQKDMYEEAALIF  376 (485)
Q Consensus       302 ~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~  376 (485)
                      +.....+.+...++.+.   .+-..+...+...++++.|...++........-+  ..+--.|.+.....|.+++|+.++
T Consensus        70 ~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L  149 (207)
T COG2976          70 KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTL  149 (207)
T ss_pred             hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            33344445544443321   2223455667778888888888887664321111  222234666778888999999988


Q ss_pred             HHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHh
Q 048394          377 NNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEA  420 (485)
Q Consensus       377 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  420 (485)
                      +...+.+.    .......-.+.+...|+-++|..-|++.+..+
T Consensus       150 ~t~~~~~w----~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         150 DTIKEESW----AAIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             hccccccH----HHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            87766543    11223344567788899999999998888774

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=88.87  E-value=2.4  Score=40.41  Aligned_cols=104  Identities=13%  Similarity=-0.112  Sum_probs=80.0

Q ss_pred             hcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCC
Q 048394          365 QKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKD  444 (485)
Q Consensus       365 ~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  444 (485)
                      -.|+...|...+........  ....+....|.+...+.|....|-.++.+.+..     ....+-++..+.+++.-..+
T Consensus       619 ~~gn~~~a~~cl~~a~~~~p--~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~-----~~sepl~~~~~g~~~l~l~~  691 (886)
T KOG4507|consen  619 AVGNSTFAIACLQRALNLAP--LQQDVPLVNLANLLIHYGLHLDATKLLLQALAI-----NSSEPLTFLSLGNAYLALKN  691 (886)
T ss_pred             ecCCcHHHHHHHHHHhccCh--hhhcccHHHHHHHHHHhhhhccHHHHHHHHHhh-----cccCchHHHhcchhHHHHhh
Confidence            45788888888877665422  222234455667777888888999999988887     34556677888899999999


Q ss_pred             hhhHHHHHHHHhhcCCCCHHHHHHHHHHHHH
Q 048394          445 VDGAEEFCKVLKSLNCLDFSAYSLLIKTYIA  475 (485)
Q Consensus       445 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  475 (485)
                      ++.|.+.|+.+.+..|.++..-+.|...-|.
T Consensus       692 i~~a~~~~~~a~~~~~~~~~~~~~l~~i~c~  722 (886)
T KOG4507|consen  692 ISGALEAFRQALKLTTKCPECENSLKLIRCM  722 (886)
T ss_pred             hHHHHHHHHHHHhcCCCChhhHHHHHHHHHh
Confidence            9999999999999999999988888776653

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=88.85  E-value=5.1  Score=32.86  Aligned_cols=73  Identities=15%  Similarity=0.057  Sum_probs=34.1

Q ss_pred             ccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhc--cCCCCcHHHHHHHHHHHHhcccHHHH
Q 048394          196 EKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNE--CEDKCRWTTYSNLASIYVKAELFEKA  269 (485)
Q Consensus       196 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~A  269 (485)
                      +.|.+.|-.+...+.--++.....|... ....+.+++..++....+.  .+..+|+..+.+|++.|.+.|+++.|
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAty-Y~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATY-YTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHH-HHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            4555555555554433333333333322 2344555555555544431  12244555555555555555555554

>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=88.56  E-value=11  Score=30.09  Aligned_cols=131  Identities=9%  Similarity=0.060  Sum_probs=59.3

Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCC
Q 048394           63 ALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAK  142 (485)
Q Consensus        63 ~~~~~~~~g~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  142 (485)
                      .+..+.+.+++|+...+..++..+.+.|++..-.    ++.+.++-+|.......+-.+.  +....+.++=-.|..   
T Consensus        16 YirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~----qllq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLk---   86 (167)
T PF07035_consen   16 YIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLH----QLLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLK---   86 (167)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH----HHHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHH---
Confidence            3444445566666666677777777666654433    3334444444443333332221  122222222222221   


Q ss_pred             CH-hHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHH
Q 048394          143 NR-YTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMK  206 (485)
Q Consensus       143 ~~-~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  206 (485)
                      -. ..+..++..+...|++-+|.++.++....    +...-..++.+..+.+|...-..+|+-..
T Consensus        87 RL~~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~  147 (167)
T PF07035_consen   87 RLGTAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFE  147 (167)
T ss_pred             HhhhhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            11 13445555566666666666666553221    11222344445445554444444443333

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.29  E-value=13  Score=36.08  Aligned_cols=26  Identities=8%  Similarity=-0.015  Sum_probs=12.8

Q ss_pred             hHHHHHHHHHHHhcCChhhHHHHHHH
Q 048394          284 RKAYHFLISLYCNTSNLDAVNRVWGI  309 (485)
Q Consensus       284 ~~~~~~l~~~~~~~~~~~~a~~~~~~  309 (485)
                      ..-|..|.++....+++..|.+.|.+
T Consensus       666 ~~Kw~~Lg~~al~~~~l~lA~EC~~~  691 (794)
T KOG0276|consen  666 EVKWRQLGDAALSAGELPLASECFLR  691 (794)
T ss_pred             hHHHHHHHHHHhhcccchhHHHHHHh
Confidence            34455555555555555555554444

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=88.15  E-value=31  Score=34.71  Aligned_cols=87  Identities=14%  Similarity=0.034  Sum_probs=33.0

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC--ChhhHHHHHHHHHh---
Q 048394          256 LASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP--TNTSYLVLLQALAK---  330 (485)
Q Consensus       256 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~---  330 (485)
                      ....+.-.|+++.|.+.+-.. +..+.+...+..   ++...|-+......-..+....+.  ...-+..||..|.+   
T Consensus       264 Yf~~LlLtgqFE~AI~~L~~~-~~~~~dAVH~AI---aL~~~gLL~~~~~~~~~lls~~~~~~~~ln~arLI~~Y~~~F~  339 (613)
T PF04097_consen  264 YFQVLLLTGQFEAAIEFLYRN-EFNRVDAVHFAI---ALAYYGLLRVSDSSSAPLLSVDPGDPPPLNFARLIGQYTRSFE  339 (613)
T ss_dssp             HHHHHHHTT-HHHHHHHHHT---T-HHHHHHHHH---HHHHTT------------------------HHHHHHHHHHTTT
T ss_pred             HHHHHHHHhhHHHHHHHHHhh-ccCcccHHHHHH---HHHHcCCCCCCCccccceeeecCCCCCCcCHHHHHHHHHHHHh
Confidence            344555678888888877661 111112222222   222233222222211222222222  12445667777765   


Q ss_pred             cCChhHHHHHHHHHHH
Q 048394          331 LNAIDILKQCFEEWES  346 (485)
Q Consensus       331 ~~~~~~a~~~~~~~~~  346 (485)
                      ..+...|.+.+--+..
T Consensus       340 ~td~~~Al~Y~~li~~  355 (613)
T PF04097_consen  340 ITDPREALQYLYLICL  355 (613)
T ss_dssp             TT-HHHHHHHHHGGGG
T ss_pred             ccCHHHHHHHHHHHHH
Confidence            3556666666665543

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.

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=87.76  E-value=16  Score=30.95  Aligned_cols=37  Identities=16%  Similarity=0.109  Sum_probs=16.7

Q ss_pred             HhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHH
Q 048394          401 LRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFR  437 (485)
Q Consensus       401 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~  437 (485)
                      .....+++|+..+.+..+.+....+++-..+...|..
T Consensus        89 l~s~~~~eaI~~Lqra~sl~r~~~~~~~~di~~~L~~  125 (284)
T KOG4642|consen   89 LQSKGYDEAIKVLQRAYSLLREQPFTFGDDIPKALRD  125 (284)
T ss_pred             HhhccccHHHHHHHHHHHHHhcCCCCCcchHHHHHHH
Confidence            3444455555555555444443334444444444433

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=87.69  E-value=7.7  Score=31.88  Aligned_cols=73  Identities=22%  Similarity=0.178  Sum_probs=47.5

Q ss_pred             CHHHHHHHHHhhcc--cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhC---CCCCChhhHHHHHHHHHhCCCcccHH
Q 048394          126 GIAAAEKYFNGLSE--YAKNRYTYGALLNCYCKELMTERALALFEKMDEL---KFLGNTVAFNNLSTMYLRLGQPEKVR  199 (485)
Q Consensus       126 ~~~~a~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~---~~~p~~~~~~~l~~~~~~~g~~~~a~  199 (485)
                      .-+.|++.|-.+..  .--++.....|...|. ..+.++++.++-+..+.   +-.+|+..+.+|++.+.+.|+++.|.
T Consensus       121 ~d~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  121 GDQEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             CcHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            34556666665554  2234555555555554 67788888888777653   23567778888888888888887764

>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=87.59  E-value=0.13  Score=40.15  Aligned_cols=82  Identities=12%  Similarity=0.134  Sum_probs=39.3

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcc
Q 048394          325 LQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSR  404 (485)
Q Consensus       325 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  404 (485)
                      +..+.+.+.++....+++.+...+...+....+.++..|++.++.++...+++..         +..-...++..|.+.|
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~---------~~yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS---------NNYDLDKALRLCEKHG   84 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS---------SSS-CTHHHHHHHTTT
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc---------cccCHHHHHHHHHhcc
Confidence            3444445555555555555555444444555566666666655545555554411         0012223444455555


Q ss_pred             cHHHHHHHHHH
Q 048394          405 QLDLALNEMEA  415 (485)
Q Consensus       405 ~~~~A~~~~~~  415 (485)
                      .+++|.-++.+
T Consensus        85 l~~~a~~Ly~~   95 (143)
T PF00637_consen   85 LYEEAVYLYSK   95 (143)
T ss_dssp             SHHHHHHHHHC
T ss_pred             hHHHHHHHHHH
Confidence            55555555544

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=87.51  E-value=1.7  Score=24.89  Aligned_cols=26  Identities=27%  Similarity=0.359  Sum_probs=12.5

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHH
Q 048394          355 LADVIIRAYLQKDMYEEAALIFNNAK  380 (485)
Q Consensus       355 ~~~~l~~~~~~~~~~~~A~~~~~~~~  380 (485)
                      +++.|...|...|++++|..++++..
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            34445555555555555555555443

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=87.32  E-value=4.3  Score=38.88  Aligned_cols=117  Identities=10%  Similarity=0.014  Sum_probs=75.5

Q ss_pred             CCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCC-CChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHH
Q 048394          245 EDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKP-RDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLV  323 (485)
Q Consensus       245 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  323 (485)
                      .+.|-+...|...-...-.|+...|...+..+....| ........|.+...+.|....|..++.+........+.++..
T Consensus       602 ~~~p~w~~ln~aglywr~~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~~sepl~~~~  681 (886)
T KOG4507|consen  602 PNAPIWLILNEAGLYWRAVGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAINSSEPLTFLS  681 (886)
T ss_pred             CCCCeEEEeecccceeeecCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhcccCchHHHh
Confidence            4445555444333333345777777777776665333 334455667777777777777888777776666546677777


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHH
Q 048394          324 LLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRA  362 (485)
Q Consensus       324 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  362 (485)
                      +.+++....+++.|++.|++..+...+ +...-+.|...
T Consensus       682 ~g~~~l~l~~i~~a~~~~~~a~~~~~~-~~~~~~~l~~i  719 (886)
T KOG4507|consen  682 LGNAYLALKNISGALEAFRQALKLTTK-CPECENSLKLI  719 (886)
T ss_pred             cchhHHHHhhhHHHHHHHHHHHhcCCC-ChhhHHHHHHH
Confidence            788888888888888888887776544 45555554443

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=87.11  E-value=1.6  Score=23.69  Aligned_cols=27  Identities=33%  Similarity=0.381  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHh
Q 048394          252 TYSNLASIYVKAELFEKAELALKKLEE  278 (485)
Q Consensus       252 ~~~~l~~~~~~~~~~~~A~~~~~~~~~  278 (485)
                      +|..+...|...|++++|...|++..+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            344455555555666666665555554

...

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=86.90  E-value=5.5  Score=33.05  Aligned_cols=78  Identities=12%  Similarity=0.016  Sum_probs=52.6

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhH-HHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHH
Q 048394          355 LADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKS-RESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVD  433 (485)
Q Consensus       355 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~-~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  433 (485)
                      |.+.-+..+.+.+...+|+...+.-++.    +|.... -..+++.++-.|++++|..-++-.-...  +...+....|.
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVka----kPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~--p~~t~~a~lyr   76 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKA----KPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLS--PQDTVGASLYR   76 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhc----CCccccchhHHHHHHhhcchHHHHHHHHHHHhhcC--cccchHHHHHH
Confidence            3455667788888888888888777665    776554 4556777888888888887776665542  22445556666


Q ss_pred             HHHHH
Q 048394          434 TFFRF  438 (485)
Q Consensus       434 ~l~~~  438 (485)
                      .++.+
T Consensus        77 ~lir~   81 (273)
T COG4455          77 HLIRC   81 (273)
T ss_pred             HHHHH
Confidence            66653

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=86.88  E-value=1.8  Score=24.73  Aligned_cols=27  Identities=30%  Similarity=0.265  Sum_probs=15.9

Q ss_pred             hHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 048394          145 YTYGALLNCYCKELMTERALALFEKMD  171 (485)
Q Consensus       145 ~~~~~li~~~~~~~~~~~A~~~~~~m~  171 (485)
                      .+++.|...|...|++++|..++++..
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            345566666666666666666666554

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=86.67  E-value=1.7  Score=23.26  Aligned_cols=21  Identities=14%  Similarity=0.286  Sum_probs=9.1

Q ss_pred             HHHhcccHHHHHHHHHHHHHH
Q 048394          399 YYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       399 ~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      ++.+.|++++|.+.|+++++.
T Consensus         9 ~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    9 CYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHH
Confidence            333444444444444444443

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=86.17  E-value=23  Score=31.07  Aligned_cols=42  Identities=10%  Similarity=-0.067  Sum_probs=27.1

Q ss_pred             hHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHH
Q 048394          231 DGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKK  275 (485)
Q Consensus       231 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  275 (485)
                      .+|.++|.-+....|-+.+...   ++..+....+..+|...+..
T Consensus       150 ~KA~ELFayLv~hkgk~v~~~~---~ie~lwpe~D~kka~s~lhT  191 (361)
T COG3947         150 RKALELFAYLVEHKGKEVTSWE---AIEALWPEKDEKKASSLLHT  191 (361)
T ss_pred             hHHHHHHHHHHHhcCCcccHhH---HHHHHccccchhhHHHHHHH
Confidence            5677888777774455555444   66777777777776666544

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=86.13  E-value=17  Score=30.82  Aligned_cols=86  Identities=16%  Similarity=0.075  Sum_probs=60.8

Q ss_pred             HHHhcCCHhHHHHHHHHHHhccCCCCcH-HHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChh
Q 048394          223 SYSHLNDIDGVERVFYEMCNECEDKCRW-TTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLD  301 (485)
Q Consensus       223 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  301 (485)
                      .|.....++.|+..+.+.+.   ..|+. .-|+.-+.++.+..+++.+..--.+..+..|........+..+......++
T Consensus        19 k~f~~k~y~~ai~~y~raI~---~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~   95 (284)
T KOG4642|consen   19 KCFIPKRYDDAIDCYSRAIC---INPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYD   95 (284)
T ss_pred             cccchhhhchHHHHHHHHHh---cCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHHHHHHhhcccc
Confidence            34555667777777776665   34444 455667777778888888888777777777766667777777777777888


Q ss_pred             hHHHHHHHhh
Q 048394          302 AVNRVWGILK  311 (485)
Q Consensus       302 ~a~~~~~~~~  311 (485)
                      .|+..+.+..
T Consensus        96 eaI~~Lqra~  105 (284)
T KOG4642|consen   96 EAIKVLQRAY  105 (284)
T ss_pred             HHHHHHHHHH
Confidence            8888777663

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=86.06  E-value=10  Score=27.01  Aligned_cols=80  Identities=10%  Similarity=0.035  Sum_probs=53.3

Q ss_pred             CChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHH
Q 048394           90 GRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEK  169 (485)
Q Consensus        90 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  169 (485)
                      ...++|..+-+++...+-. ...+-..-+..+...|++++|..+.+...  .||...|-+|..  .+.|.-+++..-+.+
T Consensus        19 HcHqEA~tIAdwL~~~~~~-~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~--~pdlepw~ALce--~rlGl~s~l~~rl~r   93 (115)
T TIGR02508        19 HCHQEANTIADWLHLKGES-EEAVQLIRLSSLMNRGDYQSALQLGNKLC--YPDLEPWLALCE--WRLGLGSALESRLNR   93 (115)
T ss_pred             hHHHHHHHHHHHHhcCCch-HHHHHHHHHHHHHccchHHHHHHhcCCCC--CchHHHHHHHHH--HhhccHHHHHHHHHH
Confidence            4567888888887766421 22222222345667888888888887775  488888877654  466777777777777


Q ss_pred             HHhCC
Q 048394          170 MDELK  174 (485)
Q Consensus       170 m~~~~  174 (485)
                      |...|
T Consensus        94 la~sg   98 (115)
T TIGR02508        94 LAASG   98 (115)
T ss_pred             HHhCC
Confidence            77665

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.

>KOG0403 consensus Neoplastic transformation suppressor Pdcd4/MA-3, contains MA3 domain [Signal transduction mechanisms]

Probab=85.80  E-value=30  Score=32.25  Aligned_cols=57  Identities=12%  Similarity=0.064  Sum_probs=37.6

Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHH
Q 048394          394 ESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVL  455 (485)
Q Consensus       394 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  455 (485)
                      ..|+.-|...|+..+|..+++++---     +-....++.+++.+..+.|+-..-..+++..
T Consensus       513 ~~LLeEY~~~GdisEA~~CikeLgmP-----fFhHEvVkkAlVm~mEkk~d~t~~ldLLk~c  569 (645)
T KOG0403|consen  513 DMLLEEYELSGDISEACHCIKELGMP-----FFHHEVVKKALVMVMEKKGDSTMILDLLKEC  569 (645)
T ss_pred             HHHHHHHHhccchHHHHHHHHHhCCC-----cchHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            56778888999999999888875221     3334556677777777777755444444433

>smart00386 HAT HAT (Half-A-TPR) repeats

Probab=85.35  E-value=2.2  Score=22.59  Aligned_cols=30  Identities=7%  Similarity=-0.038  Sum_probs=20.7

Q ss_pred             CChhhHHHHHHHHhhcCCCCHHHHHHHHHH
Q 048394          443 KDVDGAEEFCKVLKSLNCLDFSAYSLLIKT  472 (485)
Q Consensus       443 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  472 (485)
                      |+.+.|..+|+++....|.++..|..++..
T Consensus         1 ~~~~~~r~i~e~~l~~~~~~~~~W~~y~~~   30 (33)
T smart00386        1 GDIERARKIYERALEKFPKSVELWLKYAEF   30 (33)
T ss_pred             CcHHHHHHHHHHHHHHCCCChHHHHHHHHH
Confidence            456677777777777777777777766654

Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.

>PRK10941 hypothetical protein; Provisional

Probab=85.05  E-value=9.4  Score=33.44  Aligned_cols=67  Identities=13%  Similarity=-0.030  Sum_probs=52.2

Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHH
Q 048394          394 ESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSA  465 (485)
Q Consensus       394 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  465 (485)
                      +.+-.+|.+.++++.|+.+.+.++..     .+.++.-+.--.-.|.+.|.+..|..-++..++..|.++.+
T Consensus       185 ~nLK~~~~~~~~~~~AL~~~e~ll~l-----~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~P~dp~a  251 (269)
T PRK10941        185 DTLKAALMEEKQMELALRASEALLQF-----DPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQCPEDPIS  251 (269)
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHh-----CCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhCCCchhH
Confidence            44556778889999999999998887     44556667766777888899999998888888888776554

>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=84.82  E-value=19  Score=29.05  Aligned_cols=31  Identities=13%  Similarity=0.140  Sum_probs=23.0

Q ss_pred             cHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhh
Q 048394          405 QLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEE  441 (485)
Q Consensus       405 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  441 (485)
                      .+++|.+.|++..+..      |+...|+.-+....+
T Consensus        95 ~F~kA~~~FqkAv~~~------P~ne~Y~ksLe~~~k  125 (186)
T PF06552_consen   95 YFEKATEYFQKAVDED------PNNELYRKSLEMAAK  125 (186)
T ss_dssp             HHHHHHHHHHHHHHH-------TT-HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhcC------CCcHHHHHHHHHHHh
Confidence            3677888888888865      999999988877653

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.

>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=84.73  E-value=4.3  Score=25.12  Aligned_cols=32  Identities=13%  Similarity=0.094  Sum_probs=19.2

Q ss_pred             HHHHHhhcCChhhHHHHHHHHhhcCCCCHHHH
Q 048394          435 FFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAY  466 (485)
Q Consensus       435 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  466 (485)
                      +.-++.+.|+++.|.+..+.+++..|.|..+-
T Consensus         7 lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa~   38 (53)
T PF14853_consen    7 LAIGHYKLGEYEKARRYCDALLEIEPDNRQAQ   38 (53)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHHHTTS-HHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHhhCCCcHHHH
Confidence            33456666777777777777777777665543

>smart00028 TPR Tetratricopeptide repeats

Probab=84.26  E-value=2  Score=22.26  Aligned_cols=29  Identities=17%  Similarity=0.102  Sum_probs=14.9

Q ss_pred             HHHHHHHHhhcCChhhHHHHHHHHhhcCC
Q 048394          432 VDTFFRFFEEEKDVDGAEEFCKVLKSLNC  460 (485)
Q Consensus       432 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  460 (485)
                      |..+...+...|+++.|...++..++..|
T Consensus         4 ~~~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        4 LYNLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            34444455555555555555555554433

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.

>PF09477 Type_III_YscG: Bacterial type II secretion system chaperone protein (type_III_yscG); InterPro: IPR013348 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)

Probab=84.00  E-value=14  Score=26.76  Aligned_cols=82  Identities=10%  Similarity=0.047  Sum_probs=51.7

Q ss_pred             HcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHH
Q 048394           88 KFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALF  167 (485)
Q Consensus        88 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~  167 (485)
                      .....++|..+.+++...+. ....+-...+..+.+.|++++|  +..-.....||...|-+|-.  .+.|--+++...+
T Consensus        18 G~HcH~EA~tIa~wL~~~~~-~~E~v~lIr~~sLmNrG~Yq~A--Ll~~~~~~~pdL~p~~AL~a--~klGL~~~~e~~l   92 (116)
T PF09477_consen   18 GHHCHQEANTIADWLEQEGE-MEEVVALIRLSSLMNRGDYQEA--LLLPQCHCYPDLEPWAALCA--WKLGLASALESRL   92 (116)
T ss_dssp             TTT-HHHHHHHHHHHHHTTT-THHHHHHHHHHHHHHTT-HHHH--HHHHTTS--GGGHHHHHHHH--HHCT-HHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHhhHHHHHH--HHhcccCCCccHHHHHHHHH--HhhccHHHHHHHH
Confidence            34568899999999988763 2222223334466788999999  33333335688888877654  4788888888888


Q ss_pred             HHHHhCC
Q 048394          168 EKMDELK  174 (485)
Q Consensus       168 ~~m~~~~  174 (485)
                      .++...|
T Consensus        93 ~rla~~g   99 (116)
T PF09477_consen   93 TRLASSG   99 (116)
T ss_dssp             HHHCT-S
T ss_pred             HHHHhCC
Confidence            8887765

The secretion system delivers effector proteins, designated Yops (Yersinia outer proteins), in Yersinia. This entry consists of YscG from Yersinia, and functionally equivalent type III secretion proteins in other species: e.g. AscG in Aeromonas and LscG in Photorhabdus luminescens.; GO: 0009405 pathogenesis; PDB: 3PH0_D 2UWJ_G 2P58_C.

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=83.98  E-value=7.5  Score=28.97  Aligned_cols=58  Identities=12%  Similarity=0.148  Sum_probs=42.9

Q ss_pred             HHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHH
Q 048394          410 LNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIK  471 (485)
Q Consensus       410 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  471 (485)
                      .+-++.+..-.    ..|++.+...-+++|.+.+|+..|.++++-+...-++....|-.+++
T Consensus        69 rkglN~l~~yD----lVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K~g~~k~~Y~y~v~  126 (149)
T KOG4077|consen   69 RKGLNNLFDYD----LVPSPKVIEAALRACRRVNDFATAVRILEAIKDKCGAQKQVYPYYVK  126 (149)
T ss_pred             HHHHHhhhccc----cCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            34455555544    88999999999999999999999999999888766554445554443

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=83.74  E-value=30  Score=30.42  Aligned_cols=114  Identities=7%  Similarity=0.104  Sum_probs=67.1

Q ss_pred             CHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHh-cc-cHHHHHHHHHHHHh--cCCCChHHHHHHHHHHHhcCChhhHH
Q 048394          229 DIDGVERVFYEMCNECEDKCRWTTYSNLASIYVK-AE-LFEKAELALKKLEE--MKPRDRKAYHFLISLYCNTSNLDAVN  304 (485)
Q Consensus       229 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~-~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~  304 (485)
                      .+.+|+++|+....+..+..|..+...+++.... .+ ....-.++.+-+..  ...++..+...+++.++..++|..-.
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            3445556665332211344556665556665554 21 22222233333333  24456677777778888888888888


Q ss_pred             HHHHHhhhc-CCC-ChhhHHHHHHHHHhcCChhHHHHHHH
Q 048394          305 RVWGILKST-FPP-TNTSYLVLLQALAKLNAIDILKQCFE  342 (485)
Q Consensus       305 ~~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~  342 (485)
                      ++|+..... ++. |...|..++......|+..-..++..
T Consensus       223 ~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~  262 (292)
T PF13929_consen  223 QFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIID  262 (292)
T ss_pred             HHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhh
Confidence            877776665 444 77778888888888887666555554

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=83.45  E-value=42  Score=31.94  Aligned_cols=362  Identities=13%  Similarity=0.094  Sum_probs=171.5

Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCC-CHhHHHHHHH-HHHhcCcHHHHHHHHHHH
Q 048394           93 RHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAK-NRYTYGALLN-CYCKELMTERALALFEKM  170 (485)
Q Consensus        93 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~li~-~~~~~~~~~~A~~~~~~m  170 (485)
                      .....+|+....+ ...|...|...+..+-+.+.+.+.-.+|..|....| ++..|-.-.. -|-...+++.|..+|.+-
T Consensus        88 ~rIv~lyr~at~r-f~~D~~lW~~yi~f~kk~~~~~~v~ki~~~~l~~Hp~~~dLWI~aA~wefe~n~ni~saRalflrg  166 (568)
T KOG2396|consen   88 NRIVFLYRRATNR-FNGDVKLWLSYIAFCKKKKTYGEVKKIFAAMLAKHPNNPDLWIYAAKWEFEINLNIESARALFLRG  166 (568)
T ss_pred             HHHHHHHHHHHHh-cCCCHHHHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCchhHHhhhhhHHhhccchHHHHHHHHHH
Confidence            3445566655443 234888899999888888889999999999988333 3445543332 233344589999999888


Q ss_pred             HhCCCCCChhhHHHHHHH---HH-hCC--------CcccH-HHHHHHH-HHcCCCccHHHH--HHH-H--HHHHhcCCHh
Q 048394          171 DELKFLGNTVAFNNLSTM---YL-RLG--------QPEKV-RPLVNQM-KQRNISLDNLTY--IVW-M--QSYSHLNDID  231 (485)
Q Consensus       171 ~~~~~~p~~~~~~~l~~~---~~-~~g--------~~~~a-~~~~~~~-~~~~~~p~~~~~--~~l-~--~~~~~~~~~~  231 (485)
                      ++.+.. ++..|-...+.   |. +..        +.+.- .++-+.= ......++..+.  ..- +  ..........
T Consensus       167 LR~npd-sp~Lw~eyfrmEL~~~~Kl~~rr~~~g~~~~~~~~eie~ge~~~~~~~~s~~~~~~~~k~~e~~~~~~~d~~k  245 (568)
T KOG2396|consen  167 LRFNPD-SPKLWKEYFRMELMYAEKLRNRREELGLDSSDKDEEIERGELAWINYANSVDIIKGAVKSVELSVAEKFDFLK  245 (568)
T ss_pred             hhcCCC-ChHHHHHHHHHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHhhccchhhhhcchhhcchHHHHHHHHHH
Confidence            876533 33444433332   21 110        00000 0000000 000001111100  000 0  0000000000


Q ss_pred             H-HHHHHHHHHhccCCCCcHHHHHHHH----HHHHh---------------cccHHHHHHHHHHHHhcCCCChHHHHHHH
Q 048394          232 G-VERVFYEMCNECEDKCRWTTYSNLA----SIYVK---------------AELFEKAELALKKLEEMKPRDRKAYHFLI  291 (485)
Q Consensus       232 ~-a~~~~~~~~~~~~~~~~~~~~~~l~----~~~~~---------------~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  291 (485)
                      + -..+.+.+..  +.+.++.++.-+.    ..+.+               .-+.+....+|+...+-. ++...|+..|
T Consensus       246 el~k~i~d~~~~--~~~~np~~~~~laqr~l~i~~~tdl~~~~~~~~~~~~~~k~s~~~~v~ee~v~~l-~t~sm~e~YI  322 (568)
T KOG2396|consen  246 ELQKNIIDDLQS--KAPDNPLLWDDLAQRELEILSQTDLQHTDNQAKAVEVGSKESRCCAVYEEAVKTL-PTESMWECYI  322 (568)
T ss_pred             HHHHHHHHHHhc--cCCCCCccHHHHHHHHHHHHHHhhccchhhhhhchhcchhHHHHHHHHHHHHHHh-hHHHHHHHHH
Confidence            1 1112223322  2333322221121    11111               112233445666655422 3556676677


Q ss_pred             HHHHhcC------ChhhHHHHHHHhhhcCCC---ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHH
Q 048394          292 SLYCNTS------NLDAVNRVWGILKSTFPP---TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRA  362 (485)
Q Consensus       292 ~~~~~~~------~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  362 (485)
                      ..|...-      .......+|+.....+..   ...-|..+...++.....   ...-..+...+..-+...|-.-+..
T Consensus       323 ~~~lE~~~~~r~~~I~h~~~~~~~~~~~~~l~~~~~~~ys~~~l~~~t~~~~---r~~a~~l~~e~f~~s~k~~~~kl~~  399 (568)
T KOG2396|consen  323 TFCLERFTFLRGKRILHTMCVFRKAHELKLLSECLYKQYSVLLLCLNTLNEA---REVAVKLTTELFRDSGKMWQLKLQV  399 (568)
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHhccchH---hHHHHHhhHHHhcchHHHHHHHHHH
Confidence            6665432      333444555555444332   455566666555554443   2222223323334466666555555


Q ss_pred             HHhc-CcHHHH-HHHHHHHHhcccccCCchhHHHHHHHHHHhccc-HHHH--HHHHHHHHHHhhhcCCCccHHHH-HHHH
Q 048394          363 YLQK-DMYEEA-ALIFNNAKKRANASARFFKSRESFMIYYLRSRQ-LDLA--LNEMEAALSEAKQFHWRPMQVTV-DTFF  436 (485)
Q Consensus       363 ~~~~-~~~~~A-~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~-~~~A--~~~~~~~~~~~~~~~~~~~~~~~-~~l~  436 (485)
                      ..+. .+++-- ..+|......-.  .+....|+...     .|+ ....  ..++....+.     ..|+..++ +.++
T Consensus       400 ~~~s~sD~q~~f~~l~n~~r~~~~--s~~~~~w~s~~-----~~dsl~~~~~~~Ii~a~~s~-----~~~~~~tl~s~~l  467 (568)
T KOG2396|consen  400 LIESKSDFQMLFEELFNHLRKQVC--SELLISWASAS-----EGDSLQEDTLDLIISALLSV-----IGADSVTLKSKYL  467 (568)
T ss_pred             HHhhcchhHHHHHHHHHHHHHHhc--chhHHHHHHHh-----hccchhHHHHHHHHHHHHHh-----cCCceeehhHHHH
Confidence            4432 122211 112222222211  23333343333     222 2211  1233333333     34555554 5677


Q ss_pred             HHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHH
Q 048394          437 RFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYI  474 (485)
Q Consensus       437 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  474 (485)
                      ..+.+.|-+++|.+.+..+..+.|++...|..+++.-.
T Consensus       468 ~~~~e~~~~~~ark~y~~l~~lpp~sl~l~r~miq~e~  505 (568)
T KOG2396|consen  468 DWAYESGGYKKARKVYKSLQELPPFSLDLFRKMIQFEK  505 (568)
T ss_pred             HHHHHhcchHHHHHHHHHHHhCCCccHHHHHHHHHHHh
Confidence            88888999999999999999999999888888877643

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=83.20  E-value=8.2  Score=28.79  Aligned_cols=45  Identities=13%  Similarity=0.170  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048394          198 VRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCN  242 (485)
Q Consensus       198 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  242 (485)
                      ..+-++.+...++.|++.....-+++|.+.+|+..|.++|+.+..
T Consensus        68 vrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~  112 (149)
T KOG4077|consen   68 VRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKD  112 (149)
T ss_pred             HHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            334455555556677777777777777777777777777777765

>PRK10941 hypothetical protein; Provisional

Probab=83.04  E-value=21  Score=31.28  Aligned_cols=63  Identities=14%  Similarity=0.092  Sum_probs=48.4

Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC
Q 048394          254 SNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP  316 (485)
Q Consensus       254 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  316 (485)
                      +.+-.+|.+.++++.|+.+.+.+....|.++.-+..-.-.|.+.|.+..|..=++...+..|.
T Consensus       185 ~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~P~  247 (269)
T PRK10941        185 DTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQCPE  247 (269)
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhCCC
Confidence            446667777888888888888888877777777777777788888888888777777776666

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=82.98  E-value=32  Score=30.22  Aligned_cols=115  Identities=9%  Similarity=0.094  Sum_probs=75.0

Q ss_pred             cccHHHHHHHHHH-cCCCccHHHHHHHHHHHHh--cCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHH
Q 048394          195 PEKVRPLVNQMKQ-RNISLDNLTYIVWMQSYSH--LNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAEL  271 (485)
Q Consensus       195 ~~~a~~~~~~~~~-~~~~p~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  271 (485)
                      ..+|+++|+.... ..+--|..+...+++....  ......--++.+-+....+..++..+...++..++..+++.+-.+
T Consensus       144 Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~  223 (292)
T PF13929_consen  144 VVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQ  223 (292)
T ss_pred             HHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHH
Confidence            3455555552211 1244455666666665544  223334445555555545577777777888889999999999888


Q ss_pred             HHHHHHhc--CCCChHHHHHHHHHHHhcCChhhHHHHHHH
Q 048394          272 ALKKLEEM--KPRDRKAYHFLISLYCNTSNLDAVNRVWGI  309 (485)
Q Consensus       272 ~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  309 (485)
                      +++.....  +..|...|..+++.....|+..-...+.+.
T Consensus       224 fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  224 FWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             HHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            88887663  456788899999999999987766655553

>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=82.77  E-value=40  Score=31.14  Aligned_cols=93  Identities=10%  Similarity=0.029  Sum_probs=40.7

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHhCC--CCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHc---------CCCccH
Q 048394          146 TYGALLNCYCKELMTERALALFEKMDELK--FLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQR---------NISLDN  214 (485)
Q Consensus       146 ~~~~li~~~~~~~~~~~A~~~~~~m~~~~--~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---------~~~p~~  214 (485)
                      .+.-+...|..+|+++.|++.+.+...--  .+-.+..|-.+|..-.-.|+|..+..+..+..+.         .+.+-.
T Consensus       152 a~~Dl~dhy~~cG~l~~Alr~YsR~RdYCTs~khvInm~ln~i~VSI~~~nw~hv~sy~~~A~st~~~~~~~~q~v~~kl  231 (466)
T KOG0686|consen  152 ALEDLGDHYLDCGQLDNALRCYSRARDYCTSAKHVINMCLNLILVSIYMGNWGHVLSYISKAESTPDANENLAQEVPAKL  231 (466)
T ss_pred             HHHHHHHHHHHhccHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHhCchhhhhHHHhcCcch
Confidence            44445555555555555555555532210  0112223444444444455554444444443332         133334


Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHHH
Q 048394          215 LTYIVWMQSYSHLNDIDGVERVFYEM  240 (485)
Q Consensus       215 ~~~~~l~~~~~~~~~~~~a~~~~~~~  240 (485)
                      ..+..+...+.+  ++..|.+.|-..
T Consensus       232 ~C~agLa~L~lk--kyk~aa~~fL~~  255 (466)
T KOG0686|consen  232 KCAAGLANLLLK--KYKSAAKYFLLA  255 (466)
T ss_pred             HHHHHHHHHHHH--HHHHHHHHHHhC
Confidence            444444443333  555555554443

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=81.59  E-value=63  Score=32.62  Aligned_cols=371  Identities=14%  Similarity=0.070  Sum_probs=179.1

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhCCCC----CChhhHHHH-HHHHHhhCCHHHHHHHHHhhcc---cCCC--HhHHHHHH
Q 048394           82 CVRSLRKFGRYRHALEVIEWMESRKMH----FSYTDFAVY-LDLTAKTNGIAAAEKYFNGLSE---YAKN--RYTYGALL  151 (485)
Q Consensus        82 l~~~~~~~~~~~~A~~~~~~~~~~~~~----~~~~~~~~l-~~~~~~~g~~~~a~~~~~~~~~---~~~~--~~~~~~li  151 (485)
                      +++.+.+.+.. .|...++...+.--.    +-...|..+ +..+...++...|.+.++.+..   ...|  ..++-.++
T Consensus       106 l~~i~~~~~~~-~a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~  184 (608)
T PF10345_consen  106 LARIYFKTNPK-AALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLS  184 (608)
T ss_pred             HHHHHHhcCHH-HHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHH
Confidence            34444444444 498888886443211    122223333 2233334799999999988776   1233  33444444


Q ss_pred             HHHH--hcCcHHHHHHHHHHHHhCCC---------CCChhhHHHHHHHH--HhCCCcccHHHHHHHHHH-------cC-C
Q 048394          152 NCYC--KELMTERALALFEKMDELKF---------LGNTVAFNNLSTMY--LRLGQPEKVRPLVNQMKQ-------RN-I  210 (485)
Q Consensus       152 ~~~~--~~~~~~~A~~~~~~m~~~~~---------~p~~~~~~~l~~~~--~~~g~~~~a~~~~~~~~~-------~~-~  210 (485)
                      .+..  +.+..+++.+.++++.....         .|-..+|..++..+  ...|+++.+...++++.+       .. .
T Consensus       185 ~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq~~~~~~~~~~~w  264 (608)
T PF10345_consen  185 EALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQQFLDEIKKSPSW  264 (608)
T ss_pred             HHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCccC
Confidence            4443  45667778777777743221         23455677776655  456776677766655543       10 0


Q ss_pred             ---C-------------------ccHHHH---------HHHHH--HHHhcCCHhHHHHHHHH-------HH-hccCCCC-
Q 048394          211 ---S-------------------LDNLTY---------IVWMQ--SYSHLNDIDGVERVFYE-------MC-NECEDKC-  248 (485)
Q Consensus       211 ---~-------------------p~~~~~---------~~l~~--~~~~~~~~~~a~~~~~~-------~~-~~~~~~~-  248 (485)
                         .                   |....|         .-++.  ..+..+..+.|.+++++       .. .....++ 
T Consensus       265 ~~~~~d~~i~l~~~~~~~~~~~~~~~f~wl~~~~l~~L~y~lS~l~~~~~~~~~ks~k~~~k~l~~i~~~~~~~~~~~~~  344 (608)
T PF10345_consen  265 PSWDEDGSIPLNIGEGSSNSGGTPLVFSWLPKEELYALVYFLSGLHNLYKGSMDKSEKFLEKALKQIEKLKIKSPSAPSE  344 (608)
T ss_pred             CCcCCCeeEEeecccccccCCCceeEEeecCHHHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHHhhccCCCCCCc
Confidence               0                   111111         11122  22334444455555544       33 1001111 


Q ss_pred             cH------HHHHH---------HHHHHHhcccHHHHHHHHHHHHhc---CCC------ChHHHHHHHHHHHhcCChhhHH
Q 048394          249 RW------TTYSN---------LASIYVKAELFEKAELALKKLEEM---KPR------DRKAYHFLISLYCNTSNLDAVN  304 (485)
Q Consensus       249 ~~------~~~~~---------l~~~~~~~~~~~~A~~~~~~~~~~---~~~------~~~~~~~l~~~~~~~~~~~~a~  304 (485)
                      +.      ..+..         .+-..+-.+++..|...++.+.+.   .|+      .+..+....-.+...|+.+.|.
T Consensus       345 sl~~~~~~~~~~~~l~~~~~~y~~~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~yL~gl~~q~~g~l~~A~  424 (608)
T PF10345_consen  345 SLSEASERIQWLRYLQCYLLFYQIWCNFIRGDWSKATQELEFMRQLCQRSPSKLYESLYPLLHYLLGLYYQSTGDLEAAL  424 (608)
T ss_pred             CHHHHHHhHHHHHHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHhcCccchhhhhhHHHHHHHHHHHHHcCCHHHHH
Confidence            11      11111         112233468899999999988872   111      1333444444455789999999


Q ss_pred             HHHH--------HhhhcCCC-ChhhHHH--HHHHHHhcC--ChhH--HHHHHHHHHHc---cCCCCHHhHHHH-HHHHHh
Q 048394          305 RVWG--------ILKSTFPP-TNTSYLV--LLQALAKLN--AIDI--LKQCFEEWESR---CSSYDMRLADVI-IRAYLQ  365 (485)
Q Consensus       305 ~~~~--------~~~~~~~~-~~~~~~~--l~~~~~~~~--~~~~--a~~~~~~~~~~---~~~~~~~~~~~l-~~~~~~  365 (485)
                      ..|.        .....++. +...+..  ++..+...+  +.++  +.++++.+...   ....+..++..+ +.++..
T Consensus       425 ~~y~~~~~~~~~~~~~~~~~~El~ila~LNl~~I~~~~~~~~~~~~~~~~l~~~i~p~~~~~~~~~~~~a~~~~~~~~~~  504 (608)
T PF10345_consen  425 YQYQKPRFLLCEAANRKSKFRELYILAALNLAIILQYESSRDDSESELNELLEQIEPLCSNSPNSYNRTAYCLVLATYNT  504 (608)
T ss_pred             HHHhhhHHhhhhhhccCCcchHHHHHHHHHHHHHhHhhcccchhhhHHHHHHHhcCccccCCccHHHHHHHHHHHHHHhh
Confidence            9997        44444444 3333222  111222222  2223  66677766442   122233344433 333332


Q ss_pred             cC--cHHHHHHHHHHHHhcc--cccCCch----hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHH--
Q 048394          366 KD--MYEEAALIFNNAKKRA--NASARFF----KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTF--  435 (485)
Q Consensus       366 ~~--~~~~A~~~~~~~~~~~--~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l--  435 (485)
                      ..  ...++...+.+..+.-  .  ..+.    .+++.+..-+. .|+..+..+............ ..-....|..+  
T Consensus       505 ~~~~~~ne~k~~l~~~L~~~~~~--~~n~~l~~~~L~lm~~~lf-~~~~~e~~~~s~~a~~~A~k~-~d~~~~LW~~v~~  580 (608)
T PF10345_consen  505 FEPFSSNEAKRHLQEALKMANNK--LGNSQLLAILLNLMGHRLF-EGDVGEQAKKSARAFQLAKKS-SDYSDQLWHLVAS  580 (608)
T ss_pred             CCccccHHHHHHHHHHHHHHHHh--hccchHHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHHHHhh-hhhhhHHHHHHHH
Confidence            21  2234554444332211  1  1111    12232222233 688887776666655443111 11133455333  


Q ss_pred             ---HHHHhhcCChhhHHHHHHHHhh
Q 048394          436 ---FRFFEEEKDVDGAEEFCKVLKS  457 (485)
Q Consensus       436 ---~~~~~~~~~~~~A~~~~~~~~~  457 (485)
                         ...+...|+.++|.....+...
T Consensus       581 ~~l~~~~~~~G~~~ka~~~~~~~~~  605 (608)
T PF10345_consen  581 GMLADSYEVQGDRDKAEEARQQLDR  605 (608)
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHH
Confidence               3457788999999988877654

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 [].

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=81.47  E-value=30  Score=28.93  Aligned_cols=77  Identities=9%  Similarity=-0.059  Sum_probs=46.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHH
Q 048394          321 YLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMI  398 (485)
Q Consensus       321 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~  398 (485)
                      .+..++.+.+.+.+.+++...++-.+..+. |...-..+++.|+-.|++++|..-++-.-.......+-..+|..+|.
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir   80 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIR   80 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHH
Confidence            344456666777777777777766666544 56666667777777888888777666555442111333444555443

---

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	485
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	2e-08
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-06
4g1t_A	472	Interferon-induced protein with tetratricopeptide	3e-05
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	2e-04
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	2e-04

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 54.7 bits (131), Expect = 2e-08
 Identities = 39/255 (15%), Positives = 85/255 (33%), Gaps = 13/255 (5%)

Query: 79  LEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLS 138
             +  R+     +Y   L+ I+   S     +   FA YL   ++ + I A        S
Sbjct: 37  DVFLYRAYLAQRKYGVVLDEIK-PSSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRS 95

Query: 139 EYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKV 198
               N        + Y  +   + AL    + D L+             + L+L + +  
Sbjct: 96  VDVTNTTFLLMAASIYFYDQNPDAALRTLHQGDSLE------CMAMTVQILLKLDRLDLA 149

Query: 199 RPLVNQMKQRNI-SLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLA 257
           R  + +M+ ++  +        W+   +    +     +F EM ++C         +  A
Sbjct: 150 RKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPT--LLLLNGQA 207

Query: 258 SIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNL-DAVNRVWGILKSTFPP 316
           + ++    +E AE  L++  +      +    L+ L  +     +  NR    LK     
Sbjct: 208 ACHMAQGRWEAAEGVLQEALDKDSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHR- 266

Query: 317 TNTSYLVLLQALAKL 331
            +  ++   +A    
Sbjct: 267 -SHPFIKEYRAKEND 280

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 55.6 bits (132), Expect = 2e-08
 Identities = 45/368 (12%), Positives = 104/368 (28%), Gaps = 27/368 (7%)

Query: 95  ALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE--YAKNRYTYGALLN 152
           A  + +              A  L        +   +      S+   +  +    A   
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFK 135

Query: 153 CYCKELMTERALALFEKMDELKFLG---NTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRN 209
           C         A  L       +          +N +   + R G  +++  ++  +K   
Sbjct: 136 CCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAG 195

Query: 210 ISLDNLTYIVWMQSYSHLNDIDG-VERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEK 268
           ++ D L+Y   +Q     +   G +ER   +M      +      +   ++ +  E    
Sbjct: 196 LTPDLLSYAAALQCMGRQDQDAGTIERCLEQMS-----QEGLKLQALFTAVLLSEEDRAT 250

Query: 269 AELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQAL 328
              A+ K++             ++      ++ A +      K   P      L   Q  
Sbjct: 251 VLKAVHKVKPT-FSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLH 309

Query: 329 AKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASAR 388
            +L +   +    +           R     +R   +K +        N  ++       
Sbjct: 310 MELASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQWEKALCRALRETKNRLER------- 362

Query: 389 FFKSRESFMIYYLRSRQLD------LALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEE 442
             +  E     Y     LD      + L  ++A  ++ + F     +++  TF R   + 
Sbjct: 363 --EVYEGRFSLYPFLCLLDEREVVRMLLQVLQALPAQGESFTTLARELSARTFSRHVVQR 420

Query: 443 KDVDGAEE 450
           + V G  +
Sbjct: 421 QRVSGQVQ 428

>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 = 49.1 bits (116), Expect = 3e-06
 Identities = 80/530 (15%), Positives = 142/530 (26%), Gaps = 178/530 (33%)

Query: 22  STPTET-VSQR---IAAPTPFPTGN------EDKLYKRLSALGATGG-SVTGALNAYIME 70
           S  T   + QR         F   N        KL + L  L       + G L +    
Sbjct: 106 SMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGS---- 161

Query: 71  GKTV------RKDMLEYCVRSLR----KFGRYRHALEVIEWMESRKMHFSYTDFAVYLDL 120
           GKT           ++ C    +              V+E ++         ++    D 
Sbjct: 162 GKTWVALDVCLSYKVQ-CKMDFKIFWLNLKNCNSPETVLEMLQKLLYQID-PNWTSRSDH 219

Query: 121 TAKTNGIAAAEKYFNGLSEYAKNRYTYGALL--------------NCYCKELMTERALAL 166
           ++  N           L    K++     LL              N  CK L+T R   +
Sbjct: 220 SS--NIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQV 277

Query: 167 FEKMDELKFLGNTVAFNNLSTMYLRLGQPE-----------KVRPLVNQMKQRN---ISL 212
            + +        T    +L    + L   E           + + L  ++   N   +S+
Sbjct: 278 TDFLS-----AATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSI 332

Query: 213 DNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKA-EL 271
                                     E     +    W  +      +V  +      E 
Sbjct: 333 ------------------------IAESIR--DGLATWDNWK-----HVNCDKLTTIIES 361

Query: 272 ALKKLEEMKPRD-RKAYHFLISLYCNTSNLDAVNRVWGILKSTFP-----PTNTSYLVLL 325
           +L  LE   P + RK +  L           +V          FP     PT    L L+
Sbjct: 362 SLNVLE---PAEYRKMFDRL-----------SV----------FPPSAHIPTIL--LSLI 395

Query: 326 -QALAKLNAIDILKQCF-----EEW--ESRCSSYDMRLA------------DVIIRAYLQ 365
              + K + + ++ +       E+   ES  S   + L               I+  Y  
Sbjct: 396 WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNI 455

Query: 366 KDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHW 425
              ++      ++          F+    S + ++L++ +    +               
Sbjct: 456 PKTFD------SDDLIPPYLDQYFY----SHIGHHLKNIEHPERMTLFR----------- 494

Query: 426 RPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL-DFSAYSLLIKTYI 474
               V +D  FRF E++   D    +      LN L     Y    K YI
Sbjct: 495 ---MVFLD--FRFLEQKIRHDST-AWNASGSILNTLQQLKFY----KPYI 534

>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 = 47.9 bits (113), Expect = 6e-06
 Identities = 79/517 (15%), Positives = 145/517 (28%), Gaps = 124/517 (23%)

Query: 3   IRNQSRLISTGSYLVRQLCSTPTETVSQRIAAPTPFPTGNEDKLYKRL-SALGATGGSVT 61
           I      +S    L   L S   E V +       F        YK L S +       +
Sbjct: 54  IIMSKDAVSGTLRLFWTLLSKQEEMVQK-------FVEEVLRINYKFLMSPIKTEQRQPS 106

Query: 62  GALNAYIMEGKTVRKD---MLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYL 118
                YI +   +  D     +Y V  L+ + + R AL     +E R          V +
Sbjct: 107 MMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQAL-----LELRPAKN------VLI 155

Query: 119 D---------LTAKTNGIAAAEKYFNGLSEYAKNRY--TYGALLNCYCKELMTERALALF 167
           D         +          +   +         +        NC   E + E    L 
Sbjct: 156 DGVLGSGKTWVALDVCLSYKVQCKMDF------KIFWLNLK---NCNSPETVLEMLQKLL 206

Query: 168 EKMDELKFLGNTVAFNNLSTMYLRLGQ-PEKVRPLVNQMKQRN--ISLDNLTYIVWMQSY 224
            ++D       T   ++ S + LR+     ++R L+      N  + L N    V   + 
Sbjct: 207 YQIDP----NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN----VQ--NA 256

Query: 225 SHLNDIDGVERVFYEMCNECEDKCR--WTT-YSNLA-----------SIYVKAELFEKAE 270
              N  +                C+   TT +  +            S+   +      E
Sbjct: 257 KAWNAFNL--------------SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDE 302

Query: 271 ---LALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYL-VLLQ 326
              L LK L+  +P+D      L      T+    ++ +   ++     T  ++  V   
Sbjct: 303 VKSLLLKYLD-CRPQD------LPREVLTTNPR-RLSIIAESIRD-GLATWDNWKHVNCD 353

Query: 327 ALAKLNAIDILKQCFEEWESRCSSYDMRLA----DVIIRAYL-----QKDMYEEAALIFN 377
            L     I+      E  E R   +D  L+       I   L        +  +  ++ N
Sbjct: 354 KLTT--IIESSLNVLEPAEYR-KMFDR-LSVFPPSAHIPTILLSLIWFDVIKSDVMVVVN 409

Query: 378 NAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFH-----WRPMQVTV 432
              K +    +  +S  S    YL  +        +  ++ +             +   +
Sbjct: 410 KLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYL 469

Query: 433 DTFFRFF-----EEEKDVDGAEEFCKVLKSLNCLDFS 464
           D +F        +  +  +    F  V      LDF 
Sbjct: 470 DQYFYSHIGHHLKNIEHPERMTLFRMVF-----LDFR 501

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens} Length = 472

 Score = 45.7 bits (108), Expect = 3e-05
 Identities = 57/338 (16%), Positives = 102/338 (30%), Gaps = 43/338 (12%)

Query: 149 ALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQ- 207
             L C   +   ERA   FEK  E K   N    + L+    RL      +  ++ ++Q 
Sbjct: 145 TRLKCGGNQN--ERAKVCFEKALEKKP-KNPEFTSGLAIASYRLDNWPPSQNAIDPLRQA 201

Query: 208 -----RNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVK 262
                 N  L  L  +   +      +    E++  E   +           + A  Y +
Sbjct: 202 IRLNPDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGV--TDVLRSAAKFYRR 259

Query: 263 AELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYL 322
            +  +KA   LKK  E  P +   +  +   Y               + +          
Sbjct: 260 KDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQ---------VMNLRENGMYGKR 310

Query: 323 VLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKR 382
            LL+ +    A+  LK+  E  ++        LA      +   D YEEA   F     +
Sbjct: 311 KLLELIGH--AVAHLKKADEANDNLFRVC-SILAS----LHALADQYEEAEYYFQKEFSK 363

Query: 383 ANASARFFKSRESF-MIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEE 441
                        +      + +  D A++     +   ++                 E+
Sbjct: 364 ELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQK---------------SREK 408

Query: 442 EKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKL 479
           EK  D  ++  K+  S N  D  A  +L        K+
Sbjct: 409 EKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKM 446

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis} Length = 378

 Score = 42.9 bits (101), Expect = 2e-04
 Identities = 24/166 (14%), Positives = 52/166 (31%), Gaps = 15/166 (9%)

Query: 130 AEKYFN---GLSEYAKNRYTYGALLN----CYCKELMTERALALFEK----MDELKFLGN 178
           A  +      L+   +N       L      Y +    + A+  F+K      E      
Sbjct: 201 ALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLL 260

Query: 179 TVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFY 238
                 LS    + GQ +K    + +      +  +  Y         +      ER  +
Sbjct: 261 PKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIH 320

Query: 239 EMCNECEDKCRW----TTYSNLASIYVKAELFEKAELALKKLEEMK 280
           ++ +  E K           + A+++  +  FE+A    +K+ + +
Sbjct: 321 DLLSYFEKKNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLKAQ 366

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2 Length = 373

 Score = 42.7 bits (100), Expect = 2e-04
 Identities = 36/284 (12%), Positives = 85/284 (29%), Gaps = 42/284 (14%)

Query: 161 ERALALFEKMDEL-----KFLGNTVAFNNLSTMYLRLGQP-------EKVRPLVNQMKQR 208
            R+LAL ++ +++      +     +    S +    G         EK   L+N+    
Sbjct: 70  TRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLE 129

Query: 209 NISLDNLTYIVWMQSYSHLNDIDGVERVFY---EMCNECEDKCRWTTYSNLASIYVKAEL 265
            + +      +  Q       +D  E       E+ +  + + +    + L    +    
Sbjct: 130 QLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGD 189

Query: 266 FEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLL 325
            + A   L +LE +    +    ++       SN + V                  ++  
Sbjct: 190 LDNARSQLNRLENLLGNGKYHSDWI-------SNANKVR-----------------VIYW 225

Query: 326 QALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANA 385
           Q      A     +   + E   + +       I RA +    +E A ++     + A +
Sbjct: 226 QMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARS 285

Query: 386 SARFFKSRESFM---IYYLRSRQLDLALNEMEAALSEAKQFHWR 426
                    + +     Y ++ +   A   +  AL  A +  + 
Sbjct: 286 LRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFI 329

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	485
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	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.97
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.97
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
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.95
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.95
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.95
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.93
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.93
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.91
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.91
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.9
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.9
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.9
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.89
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.89
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.88
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.88
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.87
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.86
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.86
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.86
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.85
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.85
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.81
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.81
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.8
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.79
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.79
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.79
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.78
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.78
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.78
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.78
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.77
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.77
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.77
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.76
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.76
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.76
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.75
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.75
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.73
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.73
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.73
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.72
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.72
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.72
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.71
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.69
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.69
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.68
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.68
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.67
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.67
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.66
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.66
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.66
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.66
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.65
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.64
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.63
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.63
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.61
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.61
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.6
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.58
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.58
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.57
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.56
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.54
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.54
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.52
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.5
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.5
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.49
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.49
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.46
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.44
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.44
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.4
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.37
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.36
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.36
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.35
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.34
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.34
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.34
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.32
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.32
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.3
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.3
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.29
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.29
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.28
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.27
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.27
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.23
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.22
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.22
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.21
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.21
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.21
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.2
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.17
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.16
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.15
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.15
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	99.12
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.1
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.08
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.07
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.07
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.04
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.03
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.03
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.01
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	99.01
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.01
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.0
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.98
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.97
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.97
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.97
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.97
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.96
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.96
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.95
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.95
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.95
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.95
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.94
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.93
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.91
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.91
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.9
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.9
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.9
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.88
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.88
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.88
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.87
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.87
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.86
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.86
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.85
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.83
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.82
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.81
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.8
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.8
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.8
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.8
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.78
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.76
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.75
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.75
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.71
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.69
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.69
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.68
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.67
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.67
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.66
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.66
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.63
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.62
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.62
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.62
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.62
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.6
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.59
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.58
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.57
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.56
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.55
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.5
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.48
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.48
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.47
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.45
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.41
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.41
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.38
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.38
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.37
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.35
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.3
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.28
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.21
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.13
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.12
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.11
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.1
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.03
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.93
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.92
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.91
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.91
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.9
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.83
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.77
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.7
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.66
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.63
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.51
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.37
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.34
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.33
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.32
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.31
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	97.08
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.02
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	97.01
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.99
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.97
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.97
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.91
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.87
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.78
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.72
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.72
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.62
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.52
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.43
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.4
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.4
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	96.26
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.26
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.74
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	95.52
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.31
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	94.98
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	94.84
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	94.74
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	94.52
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.2
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.06
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	93.81
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	93.81
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	93.69
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.23
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	93.21
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	93.08
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	93.02
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	92.94
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	92.78
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	92.64
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	92.41
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	92.39
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	92.32
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	92.18
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	90.95
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	90.7
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	89.81
2p58_C	116	Putative type III secretion protein YSCG; type III	89.52
3eiq_C	358	Programmed cell death protein 4; PDCD4, anti-oncog	89.07
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	89.06
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	87.56
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	87.23
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	86.1
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	85.73
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	85.57
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	84.18
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	83.0
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	80.97

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=6.9e-41  Score=331.47  Aligned_cols=427  Identities=9%  Similarity=-0.049  Sum_probs=353.9

Q ss_pred             HHHHHhhcCCCCcHHHHHHHHHHh-CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhC
Q 048394           47 YKRLSALGATGGSVTGALNAYIME-GKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTN  125 (485)
Q Consensus        47 ~~~l~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (485)
                      +..+.+.....+...+++..+.+. +..|+..++..++..+.+.|++++|..+|+.+...  +++..+++.++.+|.+.|
T Consensus        87 ~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g  164 (597)
T 2xpi_A           87 LRLWRHDALMQQQYKCAAFVGEKVLDITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLAAFCLVKLY  164 (597)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHccCchHHHHHHHHHHhhCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHHHHHHHHHh
Confidence            333333333344555544443322 34567788888888999999999999998887543  577888888999999999


Q ss_pred             CHHHHHHHHHhhcc-c----------------CCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHH---
Q 048394          126 GIAAAEKYFNGLSE-Y----------------AKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNL---  185 (485)
Q Consensus       126 ~~~~a~~~~~~~~~-~----------------~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l---  185 (485)
                      ++++|.++|+++.. .                +++..+|+.++.+|.+.|++++|.++|++|.+.++. +...+..+   
T Consensus       165 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~  243 (597)
T 2xpi_A          165 DWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAK-CYEAFDQLVSN  243 (597)
T ss_dssp             CHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHT
T ss_pred             hHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCch-hhHHHHHHHHh
Confidence            99999999985433 2                234778899999999999999999999998876532 23333322   


Q ss_pred             -----------------------------------HHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCH
Q 048394          186 -----------------------------------STMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDI  230 (485)
Q Consensus       186 -----------------------------------~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  230 (485)
                                                         +..|.+.|++++|.++|+++.+.  +++..+++.++.+|.+.|++
T Consensus       244 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~  321 (597)
T 2xpi_A          244 HLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFVRSRF  321 (597)
T ss_dssp             TCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTTCH
T ss_pred             hcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHHhcCH
Confidence                                               44555677888888888888765  57889999999999999999


Q ss_pred             hHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHh
Q 048394          231 DGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGIL  310 (485)
Q Consensus       231 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  310 (485)
                      ++|.++|+++.+  ..+.+..++..++.+|.+.|++++|..+++.+.+..|.+..+|+.++..|.+.|++++|.++|+++
T Consensus       322 ~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  399 (597)
T 2xpi_A          322 IDVLAITTKILE--IDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKISEARRYFSKS  399 (597)
T ss_dssp             HHHHHHHHHHHH--HCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH--cCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            999999999987  445577788889999999999999999999999888888999999999999999999999999999


Q ss_pred             hhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCch
Q 048394          311 KSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFF  390 (485)
Q Consensus       311 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~  390 (485)
                      .+..+.+..+|+.++.+|.+.|++++|.++|+++.+.++. +..+|+.++.+|.+.|++++|..+|+++.+..   +.+.
T Consensus       400 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~  475 (597)
T 2xpi_A          400 STMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQG-THLPYLFLGMQHMQLGNILLANEYLQSSYALF---QYDP  475 (597)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTT-CSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC---CCCH
T ss_pred             HHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCh
Confidence            9888778899999999999999999999999999887654 78899999999999999999999999998875   4577


Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCcc--HHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHH
Q 048394          391 KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPM--QVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSL  468 (485)
Q Consensus       391 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  468 (485)
                      .+|+.++..|.+.|++++|.++|+++.+.....+..|+  ..+|..++.+|.+.|++++|.++++++.+.+|.++.+|..
T Consensus       476 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  555 (597)
T 2xpi_A          476 LLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTA  555 (597)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHH
Confidence            88999999999999999999999999987433335677  7899999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCcchhc
Q 048394          469 LIKTYIAAGKLASDMR  484 (485)
Q Consensus       469 l~~~~~~~g~~~~A~~  484 (485)
                      ++.+|.+.|++++|++
T Consensus       556 l~~~~~~~g~~~~A~~  571 (597)
T 2xpi_A          556 IALVYLHKKIPGLAIT  571 (597)
T ss_dssp             HHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHhCCHHHHHH
Confidence            9999999999999874

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.4e-39  Score=322.06  Aligned_cols=412  Identities=12%  Similarity=0.054  Sum_probs=364.3

Q ss_pred             HHhhcCCCCcHHHHHHHHHHh-CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHH-HhC--------------CCCCChhh
Q 048394           50 LSALGATGGSVTGALNAYIME-GKTVRKDMLEYCVRSLRKFGRYRHALEVIEWM-ESR--------------KMHFSYTD  113 (485)
Q Consensus        50 l~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~-~~~--------------~~~~~~~~  113 (485)
                      +.......+...+++..+.+. ..+++...+..++..|.+.|++++|+++|+++ ...              +.+.+..+
T Consensus       123 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (597)
T 2xpi_A          123 LAQVYCCTGDYARAKCLLTKEDLYNRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASM  202 (597)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHTCGGGTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHH
T ss_pred             HHHHHHHcCcHHHHHHHHHHHhccccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHH
Confidence            333333456677777766654 35788999999999999999999999999953 222              23346789


Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHhhcccCCC-HhHHHHH--------------------------------------HHHH
Q 048394          114 FAVYLDLTAKTNGIAAAEKYFNGLSEYAKN-RYTYGAL--------------------------------------LNCY  154 (485)
Q Consensus       114 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~l--------------------------------------i~~~  154 (485)
                      |+.++.+|.+.|++++|.++|+++.+..|+ ...+..+                                      +..|
T Consensus       203 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~  282 (597)
T 2xpi_A          203 CYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKT  282 (597)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHH
Confidence            999999999999999999999999884443 4443333                                      5566


Q ss_pred             HhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHH
Q 048394          155 CKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVE  234 (485)
Q Consensus       155 ~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  234 (485)
                      .+.|++++|.++|+++.+.  .++..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..++..++.++.+.|++++|.
T Consensus       283 ~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~  359 (597)
T 2xpi_A          283 SHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLY  359 (597)
T ss_dssp             TTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHH
T ss_pred             cCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHH
Confidence            6889999999999999876  4789999999999999999999999999999875 347788999999999999999999


Q ss_pred             HHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcC
Q 048394          235 RVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTF  314 (485)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  314 (485)
                      ++++.+.+  ..+.+..+++.++.+|.+.|++++|.++|+++.+..|.+..+|+.++.+|.+.|++++|.++|+++....
T Consensus       360 ~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  437 (597)
T 2xpi_A          360 LISNDLVD--RHPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF  437 (597)
T ss_dssp             HHHHHHHH--HCTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHh--hCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999987  5677899999999999999999999999999999888899999999999999999999999999999988


Q ss_pred             CCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhc----ccccCCc-
Q 048394          315 PPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKR----ANASARF-  389 (485)
Q Consensus       315 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~p~-  389 (485)
                      +.+..++..++.+|.+.|++++|.++|+++.+..+. +..+|+.++.+|.+.|++++|..+|+++.+.    +.  .|+ 
T Consensus       438 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~p~~  514 (597)
T 2xpi_A          438 QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQY-DPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQS--NEKP  514 (597)
T ss_dssp             TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC--CSGG
T ss_pred             ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhcccc--chhh
Confidence            889999999999999999999999999999987655 7899999999999999999999999999876    55  676 


Q ss_pred             -hhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHH
Q 048394          390 -FKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSL  468 (485)
Q Consensus       390 -~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  468 (485)
                       ..+|..++.+|.+.|++++|.+.++++.+.     .+.+..+|..+..+|.+.|++++|.++++++.+..|.++.++..
T Consensus       515 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~  589 (597)
T 2xpi_A          515 WAATWANLGHAYRKLKMYDAAIDALNQGLLL-----STNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNEIMASDL  589 (597)
T ss_dssp             GHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh-----CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCChHHHHH
Confidence             679999999999999999999999999998     45588999999999999999999999999999999999999999


Q ss_pred             HHHHHH
Q 048394          469 LIKTYI  474 (485)
Q Consensus       469 l~~~~~  474 (485)
                      ++.+|.
T Consensus       590 l~~~~~  595 (597)
T 2xpi_A          590 LKRALE  595 (597)
T ss_dssp             HHHTTC
T ss_pred             HHHHHh
Confidence            998874

>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=4.2e-33  Score=260.37  Aligned_cols=383  Identities=12%  Similarity=0.013  Sum_probs=344.5

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcH
Q 048394           82 CVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMT  160 (485)
Q Consensus        82 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~  160 (485)
                      +...+.+.|++++|.+.++.+.+.. +.+...+..+...+...|++++|..+++...+ .+.+..+|..+...+.+.|++
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~   83 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCH
Confidence            3566788999999999999988765 34555667777788999999999999999888 666788999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHH
Q 048394          161 ERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEM  240 (485)
Q Consensus       161 ~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  240 (485)
                      ++|...|+++....+. +..+|..+..++.+.|++++|.+.|+++.+.. +.+...+..+...+...|++++|.+.|+++
T Consensus        84 ~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  161 (388)
T 1w3b_A           84 QEAIEHYRHALRLKPD-FIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCcc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            9999999999886533 45679999999999999999999999999863 234556777888899999999999999999


Q ss_pred             HhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhh
Q 048394          241 CNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTS  320 (485)
Q Consensus       241 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  320 (485)
                      .+  ..+.+..++..+..++...|++++|...|+++.+..|.+...|..+...+...|++++|...+++.....|.+..+
T Consensus       162 l~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~  239 (388)
T 1w3b_A          162 IE--TQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVV  239 (388)
T ss_dssp             HH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHH
T ss_pred             HH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHH
Confidence            98  5667788999999999999999999999999999999899999999999999999999999999999988889999


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHH
Q 048394          321 YLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYY  400 (485)
Q Consensus       321 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~  400 (485)
                      +..++..+...|++++|.+.|+++.+..+. +..+|..+..++.+.|++++|...|+++.+..   +.+..++..+...+
T Consensus       240 ~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~l~~~~  315 (388)
T 1w3b_A          240 HGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC---PTHADSLNNLANIK  315 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC---cccHHHHHHHHHHH
Confidence            999999999999999999999999987655 67889999999999999999999999999874   56778899999999


Q ss_pred             HhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCC
Q 048394          401 LRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGK  478 (485)
Q Consensus       401 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  478 (485)
                      .+.|++++|...++++.+.     .+.+..++..+...+.+.|++++|...++++.+..|.++.+|..++.++...|+
T Consensus       316 ~~~g~~~~A~~~~~~al~~-----~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          316 REQGNIEEAVRLYRKALEV-----FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HTTTCHHHHHHHHHHHTTS-----CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHcCCHHHHHHHHHHHHhc-----CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHhHHHHHHHccC
Confidence            9999999999999999886     456688999999999999999999999999999999999999999999988764

>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=5e-31  Score=246.31  Aligned_cols=355  Identities=14%  Similarity=0.060  Sum_probs=321.7

Q ss_pred             HHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCc
Q 048394          117 YLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQP  195 (485)
Q Consensus       117 l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~  195 (485)
                      +...+.+.|++++|.+.++.+.+ .+.+...+..+...+.+.|++++|...++........ +..+|..+...+.+.|++
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~-~~~~~~~lg~~~~~~g~~   83 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL-LAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHCCCH
Confidence            34567789999999999999888 4445677888888899999999999999999886543 778999999999999999


Q ss_pred             ccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHH
Q 048394          196 EKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKK  275 (485)
Q Consensus       196 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  275 (485)
                      ++|++.|+++.+.. +.+..+|..+..++.+.|++++|.+.|+.+.+  ..|.+...+..+...+...|++++|...|++
T Consensus        84 ~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  160 (388)
T 1w3b_A           84 QEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQ--YNPDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHH--HCTTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            99999999998863 33456789999999999999999999999998  4566677788899999999999999999999


Q ss_pred             HHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHh
Q 048394          276 LEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRL  355 (485)
Q Consensus       276 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  355 (485)
                      +....|.+..+|..+...+...|++++|...|+++....|.+...+..+...+...|++++|...+++..+..+. +..+
T Consensus       161 al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~  239 (388)
T 1w3b_A          161 AIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVV  239 (388)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHHH
T ss_pred             HHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC-CHHH
Confidence            999888899999999999999999999999999999998888999999999999999999999999999887654 6888


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHH
Q 048394          356 ADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTF  435 (485)
Q Consensus       356 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l  435 (485)
                      +..+..+|...|++++|...|+++.+.+   +.+..+|..+...+.+.|++++|...++++.+.     .+.+..++..+
T Consensus       240 ~~~l~~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-----~p~~~~~~~~l  311 (388)
T 1w3b_A          240 HGNLACVYYEQGLIDLAIDTYRRAIELQ---PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-----CPTHADSLNNL  311 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTC---SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-----CTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-----CcccHHHHHHH
Confidence            9999999999999999999999999874   345678999999999999999999999999998     56788999999


Q ss_pred             HHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          436 FRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       436 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      ...+.+.|++++|...++++.+..|.+..++..++.+|.+.|++++|++
T Consensus       312 ~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~  360 (388)
T 1w3b_A          312 ANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALM  360 (388)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999999999999999999999999999999999999999874

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=5.4e-31  Score=249.95  Aligned_cols=203  Identities=10%  Similarity=0.104  Sum_probs=163.6

Q ss_pred             HHHHHHHHHHhCCCCCHH-HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCC---------HHH
Q 048394           60 VTGALNAYIMEGKTVRKD-MLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNG---------IAA  129 (485)
Q Consensus        60 ~~~~~~~~~~~g~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---------~~~  129 (485)
                      .+.+.+.+.+.+....+. .+..+|.+|++.|++++|+++|++|.+.|++||..+|+.+|.+|++.+.         ++.
T Consensus         9 ~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~   88 (501)
T 4g26_A            9 SENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSR   88 (501)
T ss_dssp             ---------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHH
T ss_pred             HHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHH
Confidence            344555666666665544 5788899999999999999999999999999999999999999987654         678


Q ss_pred             HHHHHHhhcc--cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHH
Q 048394          130 AEKYFNGLSE--YAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQ  207 (485)
Q Consensus       130 a~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  207 (485)
                      |.++|++|..  ..||..+|++||.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|.+
T Consensus        89 A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~  168 (501)
T 4g26_A           89 GFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVE  168 (501)
T ss_dssp             HHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            8888888877  77888888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             cCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhc
Q 048394          208 RNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKA  263 (485)
Q Consensus       208 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  263 (485)
                      .|+.||..||++||.+|++.|++++|.+++++|.+ .+..|+..||+.++..|+..
T Consensus       169 ~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~-~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          169 SEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRD-LVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             TTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-HTSSBCHHHHHHHHHHHHSH
T ss_pred             cCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHH-hCCCcCHHHHHHHHHHHhcC
Confidence            88888888888888888888888888888888888 78888888888888887654

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=4.3e-30  Score=243.74  Aligned_cols=204  Identities=16%  Similarity=0.192  Sum_probs=176.1

Q ss_pred             HHHHHHHHHHHhCCCCCChh-hHHHHHHHHHhhCCHHHHHHHHHhhcc--cCCCHhHHHHHHHHHHhcC---------cH
Q 048394           93 RHALEVIEWMESRKMHFSYT-DFAVYLDLTAKTNGIAAAEKYFNGLSE--YAKNRYTYGALLNCYCKEL---------MT  160 (485)
Q Consensus        93 ~~A~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~~li~~~~~~~---------~~  160 (485)
                      ..+..+.+.+.+.+....+. .++.+|++|++.|++++|.++|++|.+  ..||..+||+||.+|++.+         .+
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            34556667777777665543 588899999999999999999999998  8999999999999998765         47


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHH
Q 048394          161 ERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEM  240 (485)
Q Consensus       161 ~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  240 (485)
                      +.|.++|++|...|+.||..||+++|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  166 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHh-cCCCChHHHHHHHHHHHhc
Q 048394          241 CNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEE-MKPRDRKAYHFLISLYCNT  297 (485)
Q Consensus       241 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~  297 (485)
                      .+ .|..||..+|++|+.+|++.|++++|.++|++|.+ +..|+..||+.++..|...
T Consensus       167 ~~-~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          167 VE-SEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HH-TTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             Hh-cCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            98 89999999999999999999999999999999999 7778999999999998764

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.97  E-value=2.4e-27  Score=229.93  Aligned_cols=383  Identities=10%  Similarity=-0.042  Sum_probs=287.7

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHH
Q 048394           76 KDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCY  154 (485)
Q Consensus        76 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~  154 (485)
                      ...+......+.+.|++++|+..|+++.+.+  |+...|..+..++.+.|++++|.+.|+++.+ .+.+..+|..+..++
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~   83 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASAN   83 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHH
Confidence            3456677788889999999999999998876  6888898899999999999999999999888 445567889999999


Q ss_pred             HhcCcHHHHHHHHHHHHhCCCCCC--------------------------------------------------------
Q 048394          155 CKELMTERALALFEKMDELKFLGN--------------------------------------------------------  178 (485)
Q Consensus       155 ~~~~~~~~A~~~~~~m~~~~~~p~--------------------------------------------------------  178 (485)
                      .+.|++++|...|+++...+...+                                                        
T Consensus        84 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (514)
T 2gw1_A           84 EGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTS  163 (514)
T ss_dssp             HHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHH
T ss_pred             HHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHH
Confidence            999999999999998877653111                                                        


Q ss_pred             ----------------------hhhHHHHHHHHHh---CCCcccHHHHHHHHHH-----cCC--------CccHHHHHHH
Q 048394          179 ----------------------TVAFNNLSTMYLR---LGQPEKVRPLVNQMKQ-----RNI--------SLDNLTYIVW  220 (485)
Q Consensus       179 ----------------------~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~-----~~~--------~p~~~~~~~l  220 (485)
                                            ...+......+..   .|++++|...|+++.+     ..-        +.+..++..+
T Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (514)
T 2gw1_A          164 MASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHT  243 (514)
T ss_dssp             HHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHH
Confidence                                  1122222222332   6778888888888776     211        2234566677


Q ss_pred             HHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCCh
Q 048394          221 MQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNL  300 (485)
Q Consensus       221 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  300 (485)
                      ...+...|++++|...++.+.+  ..+. ...+..++.+|...|++++|...++++....|.+..++..+...+...|++
T Consensus       244 ~~~~~~~~~~~~A~~~~~~~l~--~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  320 (514)
T 2gw1_A          244 GIFKFLKNDPLGAHEDIKKAIE--LFPR-VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNY  320 (514)
T ss_dssp             HHHHHHSSCHHHHHHHHHHHHH--HCCC-HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHh--hCcc-HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCH
Confidence            7778888888888888888777  2222 777777888888888888888888888777777777888888888888888


Q ss_pred             hhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHH
Q 048394          301 DAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAK  380 (485)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  380 (485)
                      ++|...++++....+.+...+..+...+...|++++|...++.+.+..+. +..++..+...+...|++++|...++++.
T Consensus       321 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~  399 (514)
T 2gw1_A          321 DQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPE-APEVPNFFAEILTDKNDFDKALKQYDLAI  399 (514)
T ss_dssp             THHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHccc-CHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            88888888887777777777778888888888888888888887776444 56677778888888888888888888877


Q ss_pred             hcccccCCc----hhHHHHHHHHHHh---cccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHH
Q 048394          381 KRANASARF----FKSRESFMIYYLR---SRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCK  453 (485)
Q Consensus       381 ~~~~~~~p~----~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  453 (485)
                      +.... .++    ...+..+...+..   .|++++|...++++...     .+.+..++..+...+.+.|++++|...++
T Consensus       400 ~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~-----~~~~~~~~~~la~~~~~~g~~~~A~~~~~  473 (514)
T 2gw1_A          400 ELENK-LDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKL-----DPRSEQAKIGLAQMKLQQEDIDEAITLFE  473 (514)
T ss_dssp             HHHHT-SSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             Hhhhc-cchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHh-----CcccHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            65320 111    2367777777888   88888888888888776     34456777777788888888888888888


Q ss_pred             HHhhcCCCCHHHHHHHH
Q 048394          454 VLKSLNCLDFSAYSLLI  470 (485)
Q Consensus       454 ~~~~~~~~~~~~~~~l~  470 (485)
                      ++.+..|.++..+..+.
T Consensus       474 ~a~~~~~~~~~~~~~~~  490 (514)
T 2gw1_A          474 ESADLARTMEEKLQAIT  490 (514)
T ss_dssp             HHHHHCSSHHHHHHHHH
T ss_pred             HHHHhccccHHHHHHHH
Confidence            88888887776666553

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.97  E-value=7.5e-27  Score=226.47  Aligned_cols=365  Identities=12%  Similarity=0.040  Sum_probs=314.5

Q ss_pred             hhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 048394          111 YTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYL  190 (485)
Q Consensus       111 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~  190 (485)
                      ...+......+.+.|++++|...|+++....|+..+|..+..++.+.|++++|...|+++.+.++. +..+|..+..++.
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~   84 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPD-YSKVLLRRASANE   84 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChH-HHHHHHHHHHHHH
Confidence            345667778889999999999999999997789999999999999999999999999999987644 6678999999999


Q ss_pred             hCCCcccHHHHHHHHHHcCCCc----------------------------------------------------------
Q 048394          191 RLGQPEKVRPLVNQMKQRNISL----------------------------------------------------------  212 (485)
Q Consensus       191 ~~g~~~~a~~~~~~~~~~~~~p----------------------------------------------------------  212 (485)
                      +.|++++|...|+++...+...                                                          
T Consensus        85 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (514)
T 2gw1_A           85 GLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSM  164 (514)
T ss_dssp             HTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHH
T ss_pred             HHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHH
Confidence            9999999999999987754210                                                          


Q ss_pred             --------------------cHHHHHHHHHHHHh---cCCHhHHHHHHHHHHh-----ccCC-------CCcHHHHHHHH
Q 048394          213 --------------------DNLTYIVWMQSYSH---LNDIDGVERVFYEMCN-----ECED-------KCRWTTYSNLA  257 (485)
Q Consensus       213 --------------------~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~~~~-------~~~~~~~~~l~  257 (485)
                                          +...+......+..   .|++++|...++.+.+     ....       +.+..++..++
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (514)
T 2gw1_A          165 ASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTG  244 (514)
T ss_dssp             HHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHH
Confidence                                12223333333333   8999999999999877     2112       34567788899


Q ss_pred             HHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHH
Q 048394          258 SIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDIL  337 (485)
Q Consensus       258 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  337 (485)
                      .++...|++++|...++++.+..|. ...+..+..++...|++++|...++++....+.+...+..+...+...|++++|
T Consensus       245 ~~~~~~~~~~~A~~~~~~~l~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  323 (514)
T 2gw1_A          245 IFKFLKNDPLGAHEDIKKAIELFPR-VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYDQA  323 (514)
T ss_dssp             HHHHHSSCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcc-HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHHH
Confidence            9999999999999999999997776 999999999999999999999999999998888888999999999999999999


Q ss_pred             HHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHH
Q 048394          338 KQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAAL  417 (485)
Q Consensus       338 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  417 (485)
                      ...++.+.+..+. +...+..+...+...|++++|..+++++.+..   +.+...+..+...|...|++++|...++++.
T Consensus       324 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  399 (514)
T 2gw1_A          324 GKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKF---PEAPEVPNFFAEILTDKNDFDKALKQYDLAI  399 (514)
T ss_dssp             HHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS---TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc---ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            9999999987655 67788889999999999999999999998864   4456788889999999999999999999999


Q ss_pred             HHhhhcCCCcc----HHHHHHHHHHHhh---cCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          418 SEAKQFHWRPM----QVTVDTFFRFFEE---EKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       418 ~~~~~~~~~~~----~~~~~~l~~~~~~---~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      ......   ++    ...+..+...+..   .|++++|...++++.+..|.++.++..++.+|.+.|++++|+.
T Consensus       400 ~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~  470 (514)
T 2gw1_A          400 ELENKL---DGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAIT  470 (514)
T ss_dssp             HHHHTS---SSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             Hhhhcc---chHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHH
Confidence            875211   11    3488889999999   9999999999999999999999999999999999999999874

>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=3.1e-26  Score=218.27  Aligned_cols=376  Identities=10%  Similarity=-0.043  Sum_probs=239.7

Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHH
Q 048394           73 TVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALL  151 (485)
Q Consensus        73 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li  151 (485)
                      +.+...+..+...+.+.|++++|+.+|+.+.+.. +.+...+..+..++...|++++|...|+++.+ .+.+..++..+.
T Consensus        23 p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~  101 (450)
T 2y4t_A           23 MADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRG  101 (450)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHH
Confidence            3445566666666666777777777777665543 33555666666666666777777777766666 333455666666


Q ss_pred             HHHHhcCcHHHHHHHHHHHHhCCCCCCh---hhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcC
Q 048394          152 NCYCKELMTERALALFEKMDELKFLGNT---VAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLN  228 (485)
Q Consensus       152 ~~~~~~~~~~~A~~~~~~m~~~~~~p~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  228 (485)
                      .+|.+.|++++|...|+++.+.+.. +.   .++..++..+..                       ..+..+...+...|
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~-----------------------~~~~~~a~~~~~~~  157 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKSNPS-ENEEKEAQSQLIKSDEM-----------------------QRLRSQALNAFGSG  157 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHT
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHcC
Confidence            6666667777777777666664422 22   344444333110                       01122233456666


Q ss_pred             CHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHH
Q 048394          229 DIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWG  308 (485)
Q Consensus       229 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  308 (485)
                      ++++|...|+.+.+  ..+.+..++..++.+|.+.|++++|...|+++.+..|.+..++..++.+|...|++++|...++
T Consensus       158 ~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  235 (450)
T 2y4t_A          158 DYTAAIAFLDKILE--VCVWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVR  235 (450)
T ss_dssp             CHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            67777777766665  3455666666666667777777777777766666556666666777777777777777777777


Q ss_pred             HhhhcCCCChhhHHHH------------HHHHHhcCChhHHHHHHHHHHHccCCCC----HHhHHHHHHHHHhcCcHHHH
Q 048394          309 ILKSTFPPTNTSYLVL------------LQALAKLNAIDILKQCFEEWESRCSSYD----MRLADVIIRAYLQKDMYEEA  372 (485)
Q Consensus       309 ~~~~~~~~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~A  372 (485)
                      ++....+.+...+..+            +..+...|++++|...|+.+.+..+. +    ...+..+..++.+.|++++|
T Consensus       236 ~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~l~~~~~~~g~~~~A  314 (450)
T 2y4t_A          236 ECLKLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-IAEYTVRSKERICHCFSKDEKPVEA  314 (450)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHHHhCCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHHHHHCCCHHHH
Confidence            6666655554444443            67777788888888888877765433 2    34667777778888888888


Q ss_pred             HHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHH------------HHh
Q 048394          373 ALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFR------------FFE  440 (485)
Q Consensus       373 ~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~------------~~~  440 (485)
                      ...++++.+..   +.+...|..+..+|...|++++|...++++++.     .+.+...+..+..            .|.
T Consensus       315 ~~~~~~a~~~~---p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-----~p~~~~~~~~l~~~~~~~~~~~~~~~y~  386 (450)
T 2y4t_A          315 IRVCSEVLQME---PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEH-----NENDQQIREGLEKAQRLLKQSQKRDYYK  386 (450)
T ss_dssp             HHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT-----SSSCHHHHHHHHHHHHHHHHHHSCCSGG
T ss_pred             HHHHHHHHHhC---cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh-----CcchHHHHHHHHHHHHHhhcccchhHHH
Confidence            88888877653   345677777778888888888888888888775     2334455555542            233


Q ss_pred             hcC-----ChhhHHHHHHH-HhhcCCC---C-------HHHHHHHHHHHHHhCCCcchhc
Q 048394          441 EEK-----DVDGAEEFCKV-LKSLNCL---D-------FSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       441 ~~~-----~~~~A~~~~~~-~~~~~~~---~-------~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      ..|     +.+++.+.+++ ..+..|.   +       ...+..+..+|...|+.+++.+
T Consensus       387 ~lg~~~~~~~~~~~~~y~~~~l~~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~~~r~~  446 (450)
T 2y4t_A          387 ILGVKRNAKKQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPEMRKK  446 (450)
T ss_dssp             GSCSSTTCCTTHHHHHHHHHHHHSCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGGGGC--
T ss_pred             HhCCCccCCHHHHHHHHHHHHHHhCCCCCCCchHHHHHHHHHHHHHHHHHHhCCHHHHHh
Confidence            334     56777888886 5555553   2       2368889999999998877643

>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=4e-26  Score=217.52  Aligned_cols=318  Identities=12%  Similarity=0.007  Sum_probs=237.3

Q ss_pred             HhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHH
Q 048394          144 RYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQS  223 (485)
Q Consensus       144 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  223 (485)
                      ...+..+...+.+.|++++|+.+|+++.+.... +..+|..+..++...|++++|+..|+++.+.+ +.+..++..+..+
T Consensus        26 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  103 (450)
T 2y4t_A           26 VEKHLELGKKLLAAGQLADALSQFHAAVDGDPD-NYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHL  103 (450)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHH
Confidence            344444445555555555555555554443221 34444445555555555555555555554432 2234444445555


Q ss_pred             HHhcCCHhHHHHHHHHHHhccCCCCcH---HHHH------------HHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHH
Q 048394          224 YSHLNDIDGVERVFYEMCNECEDKCRW---TTYS------------NLASIYVKAELFEKAELALKKLEEMKPRDRKAYH  288 (485)
Q Consensus       224 ~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~------------~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  288 (485)
                      |.+.|++++|.+.|+.+.+  ..+.+.   ..+.            .+...+...|++++|...|+++.+..|.+..++.
T Consensus       104 ~~~~g~~~~A~~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  181 (450)
T 2y4t_A          104 LLKQGKLDEAEDDFKKVLK--SNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVWDAELRE  181 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHT--SCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHh--cCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHH
Confidence            5555555555555555544  222222   3332            2455688999999999999999998888999999


Q ss_pred             HHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHH---------
Q 048394          289 FLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVI---------  359 (485)
Q Consensus       289 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l---------  359 (485)
                      .++.+|...|++++|...++++....+.+..++..++..+...|++++|...|+++.+..+. +...+..+         
T Consensus       182 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~~~~~~~~~~~  260 (450)
T 2y4t_A          182 LRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVKKLNKL  260 (450)
T ss_dssp             HHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-hHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999988889999999999999999999999999999887544 45555544         


Q ss_pred             ---HHHHHhcCcHHHHHHHHHHHHhcccccCCc-----hhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHH
Q 048394          360 ---IRAYLQKDMYEEAALIFNNAKKRANASARF-----FKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVT  431 (485)
Q Consensus       360 ---~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  431 (485)
                         ...+...|++++|..+|+++.+.    .|+     ...|..+...+.+.|++++|+..++++...     .+.+...
T Consensus       261 ~~~~~~~~~~g~~~~A~~~~~~~l~~----~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~-----~p~~~~~  331 (450)
T 2y4t_A          261 IESAEELIRDGRYTDATSKYESVMKT----EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQM-----EPDNVNA  331 (450)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH----CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH-----CTTCHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhc----CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----CcccHHH
Confidence               78899999999999999999986    444     346788889999999999999999999987     4557899


Q ss_pred             HHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHH
Q 048394          432 VDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIA  475 (485)
Q Consensus       432 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  475 (485)
                      |..+..+|...|++++|...++++.+..|.++.++..++.+...
T Consensus       332 ~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  375 (450)
T 2y4t_A          332 LKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRL  375 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999965443

>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=99.95  E-value=1.6e-24  Score=211.36  Aligned_cols=378  Identities=11%  Similarity=-0.008  Sum_probs=275.9

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHH
Q 048394           77 DMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYC  155 (485)
Q Consensus        77 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~  155 (485)
                      ..+......+.+.|++++|++.|+++.+.. +.+...+..+..++.+.|++++|.+.|+++.+ .+.+..++..+..++.
T Consensus        26 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~  104 (537)
T 3fp2_A           26 VQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRASANE  104 (537)
T ss_dssp             HHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHH
Confidence            344445555556666666666666655543 23455555555566666666666666666555 3334555555556666


Q ss_pred             hcCcHHHHHHHHH------------------------------HHHhCC------CCCChh-------------------
Q 048394          156 KELMTERALALFE------------------------------KMDELK------FLGNTV-------------------  180 (485)
Q Consensus       156 ~~~~~~~A~~~~~------------------------------~m~~~~------~~p~~~-------------------  180 (485)
                      ..|++++|...|+                              ++....      ..|+..                   
T Consensus       105 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  184 (537)
T 3fp2_A          105 SLGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVN  184 (537)
T ss_dssp             HHTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSC
T ss_pred             HcCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHh
Confidence            6666666665554                              332210      001111                   


Q ss_pred             -----------hHHHHHHHHHh--------CCCcccHHHHHHHHHHcCCCcc--------HHHHHHHHHHHHhcCCHhHH
Q 048394          181 -----------AFNNLSTMYLR--------LGQPEKVRPLVNQMKQRNISLD--------NLTYIVWMQSYSHLNDIDGV  233 (485)
Q Consensus       181 -----------~~~~l~~~~~~--------~g~~~~a~~~~~~~~~~~~~p~--------~~~~~~l~~~~~~~~~~~~a  233 (485)
                                 ....+...+..        .|++++|..+|+++.+..  |+        ..++..+...+...|++++|
T Consensus       185 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A  262 (537)
T 3fp2_A          185 TSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN--TVDDPLRENAALALCYTGIFHFLKNNLLDA  262 (537)
T ss_dssp             CCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             hccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC--CCcchhhHHHHHHHHHHHHHHHhcccHHHH
Confidence                       11112212111        147889999999988753  33        23566677788899999999


Q ss_pred             HHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhc
Q 048394          234 ERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKST  313 (485)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  313 (485)
                      ...++.+.+   ..|+...+..+..++...|++++|...++++.+..|.+..++..+...+...|++++|...++++...
T Consensus       263 ~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  339 (537)
T 3fp2_A          263 QVLLQESIN---LHPTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSL  339 (537)
T ss_dssp             HHHHHHHHH---HCCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHh---cCCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            999999998   33448888899999999999999999999999988889999999999999999999999999999998


Q ss_pred             CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCC----c
Q 048394          314 FPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASAR----F  389 (485)
Q Consensus       314 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p----~  389 (485)
                      .+.+...+..+...+...|++++|.+.++++.+..+. +...+..+...+...|++++|...|+++.+.... .+    .
T Consensus       340 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~  417 (537)
T 3fp2_A          340 NPENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPT-LPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEV-QEKIHVG  417 (537)
T ss_dssp             CTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH-CSSCSST
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCc-chhhHHH
Confidence            8888889999999999999999999999999988654 6778888999999999999999999998875320 11    1


Q ss_pred             hhHHHHHHHHHHhc----------ccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcC
Q 048394          390 FKSRESFMIYYLRS----------RQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLN  459 (485)
Q Consensus       390 ~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  459 (485)
                      ...+......+...          |++++|...++++.+.     .+.+...+..+...+.+.|++++|.+.++++.+..
T Consensus       418 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~-----~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  492 (537)
T 3fp2_A          418 IGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACEL-----DPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILA  492 (537)
T ss_dssp             THHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHh-----CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            12233445667777          9999999999999997     45667889999999999999999999999999999


Q ss_pred             CCCHHHHH
Q 048394          460 CLDFSAYS  467 (485)
Q Consensus       460 ~~~~~~~~  467 (485)
                      |.+.....
T Consensus       493 ~~~~~~~~  500 (537)
T 3fp2_A          493 RTMDEKLQ  500 (537)
T ss_dssp             --CHHHHH
T ss_pred             CCcHHHHH
Confidence            87665544

>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=99.95  E-value=1.7e-24  Score=211.07  Aligned_cols=366  Identities=12%  Similarity=0.055  Sum_probs=299.4

Q ss_pred             hhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 048394          111 YTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMY  189 (485)
Q Consensus       111 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~  189 (485)
                      ...+..+...+.+.|++++|.+.|+++.. .+.+..+|..+..++.+.|++++|++.|+++.+.+.. +..++..+..++
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~  103 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPD-HSKALLRRASAN  103 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-hHHHHHHHHHHH
Confidence            45677788899999999999999999998 5567889999999999999999999999999987644 678899999999


Q ss_pred             HhCCCcccHHHHHHHHHHcCC------------------------------------CccHH------------------
Q 048394          190 LRLGQPEKVRPLVNQMKQRNI------------------------------------SLDNL------------------  215 (485)
Q Consensus       190 ~~~g~~~~a~~~~~~~~~~~~------------------------------------~p~~~------------------  215 (485)
                      ...|++++|...|+.+....-                                    .|+..                  
T Consensus       104 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  183 (537)
T 3fp2_A          104 ESLGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSV  183 (537)
T ss_dssp             HHHTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTS
T ss_pred             HHcCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHH
Confidence            999999999999964321100                                    01111                  


Q ss_pred             ------------HHHHHHHHHH--------hcCCHhHHHHHHHHHHhccCCCCcH-------HHHHHHHHHHHhcccHHH
Q 048394          216 ------------TYIVWMQSYS--------HLNDIDGVERVFYEMCNECEDKCRW-------TTYSNLASIYVKAELFEK  268 (485)
Q Consensus       216 ------------~~~~l~~~~~--------~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~  268 (485)
                                  ....+...+.        ..|++++|..+++.+.+  ..+.+.       .++..+...+...|++++
T Consensus       184 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~--~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~  261 (537)
T 3fp2_A          184 NTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLS--ANTVDDPLRENAALALCYTGIFHFLKNNLLD  261 (537)
T ss_dssp             CCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             hhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH--HCCCcchhhHHHHHHHHHHHHHHHhcccHHH
Confidence                        1111111111        12478899999999987  344443       356777788889999999


Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHcc
Q 048394          269 AELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRC  348 (485)
Q Consensus       269 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  348 (485)
                      |...++++.+..|. ..++..+...+...|++++|...++++....+.+..++..+...+...|++++|.+.++++.+..
T Consensus       262 A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~  340 (537)
T 3fp2_A          262 AQVLLQESINLHPT-PNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN  340 (537)
T ss_dssp             HHHHHHHHHHHCCC-HHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhcCCC-chHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            99999999997775 89999999999999999999999999999988889999999999999999999999999999876


Q ss_pred             CCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCC-Cc
Q 048394          349 SSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHW-RP  427 (485)
Q Consensus       349 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~  427 (485)
                      +. +...+..+...+...|++++|..+++++.+..   +.+...+..+...+...|++++|...++++.+....... ..
T Consensus       341 ~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~  416 (537)
T 3fp2_A          341 PE-NVYPYIQLACLLYKQGKFTESEAFFNETKLKF---PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHV  416 (537)
T ss_dssp             TT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSS
T ss_pred             CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHH
Confidence            55 67888899999999999999999999999874   445678888999999999999999999999987633211 11


Q ss_pred             cHHHHHHHHHHHhhc----------CChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          428 MQVTVDTFFRFFEEE----------KDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       428 ~~~~~~~l~~~~~~~----------~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      ....+......+...          |++++|...++++.+..|.+..++..++.+|.+.|++++|++
T Consensus       417 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  483 (537)
T 3fp2_A          417 GIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIE  483 (537)
T ss_dssp             TTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHH
Confidence            122344455677777          999999999999999999999999999999999999999874

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.95  E-value=1.2e-23  Score=193.87  Aligned_cols=330  Identities=11%  Similarity=0.005  Sum_probs=226.9

Q ss_pred             hhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 048394          112 TDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYL  190 (485)
Q Consensus       112 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~  190 (485)
                      ..+..+...+...|++++|...|+++.+ .+.+..++..+...+...|++++|...|+++.+.... +...|..+...+.
T Consensus         4 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~   82 (359)
T 3ieg_A            4 EKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMD-FTAARLQRGHLLL   82 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-cchHHHHHHHHHH
Confidence            3455555566666666666666666655 3334556666666666666666666666666554322 4455555666666


Q ss_pred             hCCCcccHHHHHHHHHHcCCCc----cHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccH
Q 048394          191 RLGQPEKVRPLVNQMKQRNISL----DNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELF  266 (485)
Q Consensus       191 ~~g~~~~a~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  266 (485)
                      ..|++++|...|+++.+.  .|    +...+..+...+.                        ...+..++..+...|++
T Consensus        83 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~------------------------~~~~~~~a~~~~~~~~~  136 (359)
T 3ieg_A           83 KQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADE------------------------MQRLRSQALDAFDGADY  136 (359)
T ss_dssp             HHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHH------------------------HHHHHHHHHHHHHTTCH
T ss_pred             HcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHH------------------------HHHHHHHHHHHHHccCH
Confidence            666666666666666553  23    2222222211000                        00111235666777777


Q ss_pred             HHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 048394          267 EKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWES  346 (485)
Q Consensus       267 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  346 (485)
                      ++|...++++.+..|.+...+..+...+...|++++|...++++....+.+...+..+...+...|++++|...++...+
T Consensus       137 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~  216 (359)
T 3ieg_A          137 TAAITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLK  216 (359)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            77777777777766667777777777777777777777777777777666777777777777777777777777777776


Q ss_pred             ccCCCCHHhHH------------HHHHHHHhcCcHHHHHHHHHHHHhcccccCCch-----hHHHHHHHHHHhcccHHHH
Q 048394          347 RCSSYDMRLAD------------VIIRAYLQKDMYEEAALIFNNAKKRANASARFF-----KSRESFMIYYLRSRQLDLA  409 (485)
Q Consensus       347 ~~~~~~~~~~~------------~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~-----~~~~~l~~~~~~~g~~~~A  409 (485)
                      ..+. +...+.            .+...+...|++++|...++++.+..    |+.     ..+..+...+...|++++|
T Consensus       217 ~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~----~~~~~~~~~~~~~la~~~~~~~~~~~A  291 (359)
T 3ieg_A          217 LDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE----PSVAEYTVRSKERICHCFSKDEKPVEA  291 (359)
T ss_dssp             HCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----CSSHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             hCcc-chHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC----CCchHHHHHHHHHHHHHHHHccCHHHH
Confidence            5433 333332            23667889999999999999998863    332     2244577888999999999


Q ss_pred             HHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCC
Q 048394          410 LNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGK  478 (485)
Q Consensus       410 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  478 (485)
                      ...++++.+.     .+.+..++..+...+...|++++|...++++.+..|.+..++..+..++...++
T Consensus       292 ~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~  355 (359)
T 3ieg_A          292 IRICSEVLQM-----EPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQRLLKQ  355 (359)
T ss_dssp             HHHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh-----CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHH
Confidence            9999999997     455788999999999999999999999999999999999999999998876543

>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=3e-22  Score=184.47  Aligned_cols=331  Identities=12%  Similarity=-0.039  Sum_probs=240.6

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHH
Q 048394           75 RKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNC  153 (485)
Q Consensus        75 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~  153 (485)
                      +...+..+...+...|++++|+..|+.+.+.. +.+...+..+..++...|++++|...|+++.+ .+.+...|..+...
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~   80 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHL   80 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHH
Confidence            35677888899999999999999999998875 35678888999999999999999999999988 44477899999999


Q ss_pred             HHhcCcHHHHHHHHHHHHhCCCC--CChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHh
Q 048394          154 YCKELMTERALALFEKMDELKFL--GNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDID  231 (485)
Q Consensus       154 ~~~~~~~~~A~~~~~~m~~~~~~--p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  231 (485)
                      +...|++++|...|+++.+....  .+...+..+...+.                       ...+..+...+...|+++
T Consensus        81 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-----------------------~~~~~~~a~~~~~~~~~~  137 (359)
T 3ieg_A           81 LLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADE-----------------------MQRLRSQALDAFDGADYT  137 (359)
T ss_dssp             HHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTTCHH
T ss_pred             HHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHccCHH
Confidence            99999999999999999986530  13344444422111                       112333455566677777


Q ss_pred             HHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhh
Q 048394          232 GVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILK  311 (485)
Q Consensus       232 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  311 (485)
                      +|.+.++.+.+  ..+.+...+..+..++...|++++|...++++.+..|.+..++..+...+...|++++|...+++..
T Consensus       138 ~A~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  215 (359)
T 3ieg_A          138 AAITFLDKILE--VCVWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECL  215 (359)
T ss_dssp             HHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH--hCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            77777777666  4455666666677777777777777777777776666667777777777777777777777777776


Q ss_pred             hcCCCChhhHH------------HHHHHHHhcCChhHHHHHHHHHHHccCCCCH----HhHHHHHHHHHhcCcHHHHHHH
Q 048394          312 STFPPTNTSYL------------VLLQALAKLNAIDILKQCFEEWESRCSSYDM----RLADVIIRAYLQKDMYEEAALI  375 (485)
Q Consensus       312 ~~~~~~~~~~~------------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~A~~~  375 (485)
                      +..+.+...+.            .+...+.+.|++++|...++.+.+..+. +.    ..+..+..++...|++++|...
T Consensus       216 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~  294 (359)
T 3ieg_A          216 KLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRI  294 (359)
T ss_dssp             HHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hhCccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHH
Confidence            66665444332            2366677888888888888888776544 33    2344577788888888888888


Q ss_pred             HHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHh
Q 048394          376 FNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFE  440 (485)
Q Consensus       376 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  440 (485)
                      +++..+..   +.+...+..+...|...|++++|...|+++.+.     .+.+...+..+..+..
T Consensus       295 ~~~~~~~~---~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~-----~p~~~~~~~~l~~~~~  351 (359)
T 3ieg_A          295 CSEVLQME---PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEH-----NENDQQIREGLEKAQR  351 (359)
T ss_dssp             HHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT-----CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhC---cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-----CCCChHHHHHHHHHHH
Confidence            88888763   446677888888888888888898888888876     3334555555554443

>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=99.93  E-value=1.3e-22  Score=184.61  Aligned_cols=294  Identities=11%  Similarity=0.025  Sum_probs=226.4

Q ss_pred             CChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHH
Q 048394          177 GNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNL  256 (485)
Q Consensus       177 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  256 (485)
                      .+...+..+...+...|++++|.++|+++.+.. +.+...+..++.++...|++++|..+++++.+  ..+.+...+..+
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l   96 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVD--LYPSNPVSWFAV   96 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTSTHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHH--hCcCCHHHHHHH
Confidence            355566667777777777777777777776653 23444555566777777788888888777776  455566677777


Q ss_pred             HHHHHhcc-cHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChh
Q 048394          257 ASIYVKAE-LFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAID  335 (485)
Q Consensus       257 ~~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  335 (485)
                      ...+...| ++++|...|+++.+..|.+...|..+...+...|++++|...++++....+.+...+..+...+...|+++
T Consensus        97 ~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           97 GCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHH
Confidence            77788888 78888888888877777777788888888888888888888888887777776677777888888888888


Q ss_pred             HHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhccc------ccCCchhHHHHHHHHHHhcccHHHH
Q 048394          336 ILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRAN------ASARFFKSRESFMIYYLRSRQLDLA  409 (485)
Q Consensus       336 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~------~~~p~~~~~~~l~~~~~~~g~~~~A  409 (485)
                      +|.+.++++.+..+. +...+..+...+...|++++|...++++.+...      .......++..+...|...|++++|
T Consensus       177 ~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  255 (330)
T 3hym_B          177 LAERFFSQALSIAPE-DPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEA  255 (330)
T ss_dssp             HHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHH
Confidence            888888888776544 677788888888888888888888888776421      0022346788888899999999999


Q ss_pred             HHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHH-HhCCC
Q 048394          410 LNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYI-AAGKL  479 (485)
Q Consensus       410 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~  479 (485)
                      ...++++.+.     .+.+...+..+...+...|++++|.+.++++.+..|.++.++..++.++. ..|+.
T Consensus       256 ~~~~~~a~~~-----~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          256 LDYHRQALVL-----IPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             HHHHHHHHHH-----STTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC-
T ss_pred             HHHHHHHHhh-----CccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCch
Confidence            9999999987     44567888889999999999999999999999999999999999999884 45544

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.91  E-value=3.8e-22  Score=184.62  Aligned_cols=283  Identities=13%  Similarity=-0.018  Sum_probs=210.2

Q ss_pred             CCCcccHHH-HHHHHHHcCC-Cc--cHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHH
Q 048394          192 LGQPEKVRP-LVNQMKQRNI-SL--DNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFE  267 (485)
Q Consensus       192 ~g~~~~a~~-~~~~~~~~~~-~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  267 (485)
                      .|++++|.+ .|++...... .|  +...+..+...+.+.|++++|...|+.+.+  ..+.+..++..++.+|...|+++
T Consensus        38 ~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~g~~~  115 (368)
T 1fch_A           38 LSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQ--QDPKHMEAWQYLGTTQAENEQEL  115 (368)
T ss_dssp             --------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHH--SCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCcCHH
Confidence            456666666 5554433210 01  234455666667777777777777777766  45556666777777777777777


Q ss_pred             HHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHH---------------HHHHHHhcC
Q 048394          268 KAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLV---------------LLQALAKLN  332 (485)
Q Consensus       268 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---------------l~~~~~~~~  332 (485)
                      +|...++++.+..|.+..++..+...+...|++++|...++++....+.+...+..               .+..+...|
T Consensus       116 ~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  195 (368)
T 1fch_A          116 LAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDS  195 (368)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcc
Confidence            77777777777666677777777777777777777777777777666553333321               133334889


Q ss_pred             ChhHHHHHHHHHHHccCCC-CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHH
Q 048394          333 AIDILKQCFEEWESRCSSY-DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALN  411 (485)
Q Consensus       333 ~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  411 (485)
                      ++++|...++++.+..+.. +..++..+...|...|++++|...|+++.+..   +.+...|..+...+...|++++|+.
T Consensus       196 ~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~---~~~~~~~~~l~~~~~~~g~~~~A~~  272 (368)
T 1fch_A          196 LFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR---PNDYLLWNKLGATLANGNQSEEAVA  272 (368)
T ss_dssp             HHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---cCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999998875442 57888999999999999999999999998874   4456788899999999999999999


Q ss_pred             HHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCC-----------HHHHHHHHHHHHHhCCCc
Q 048394          412 EMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLD-----------FSAYSLLIKTYIAAGKLA  480 (485)
Q Consensus       412 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-----------~~~~~~l~~~~~~~g~~~  480 (485)
                      .+++++..     .+.+...+..+..++.+.|++++|...++++.+..|.+           ..+|..++.+|...|+++
T Consensus       273 ~~~~al~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  347 (368)
T 1fch_A          273 AYRRALEL-----QPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSD  347 (368)
T ss_dssp             HHHHHHHH-----CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGG
T ss_pred             HHHHHHHh-----CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChH
Confidence            99999987     45667889999999999999999999999999988776           889999999999999999


Q ss_pred             chhc
Q 048394          481 SDMR  484 (485)
Q Consensus       481 ~A~~  484 (485)
                      +|.+
T Consensus       348 ~A~~  351 (368)
T 1fch_A          348 AYGA  351 (368)
T ss_dssp             GHHH
T ss_pred             hHHH
Confidence            9863

>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=5e-21  Score=174.14  Aligned_cols=294  Identities=10%  Similarity=-0.015  Sum_probs=213.1

Q ss_pred             CCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHH
Q 048394          141 AKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVW  220 (485)
Q Consensus       141 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  220 (485)
                      +.+...+..+...+...|++++|.++|+++...... +...+..++..+...|++++|..+++++.+.. +.+...+..+
T Consensus        19 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l   96 (330)
T 3hym_B           19 QENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPF-HASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAV   96 (330)
T ss_dssp             -CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-ChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHH
Confidence            345556666666666777777777777777665433 44556666666777777777777777776642 2345566667


Q ss_pred             HHHHHhcC-CHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCC
Q 048394          221 MQSYSHLN-DIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSN  299 (485)
Q Consensus       221 ~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  299 (485)
                      ...+...| ++++|.+.|+.+.+  ..+.+...+..++.++...|++++|...++++.+..|.+...+..+...+...|+
T Consensus        97 ~~~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~  174 (330)
T 3hym_B           97 GCYYLMVGHKNEHARRYLSKATT--LEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNN  174 (330)
T ss_dssp             HHHHHHSCSCHHHHHHHHHHHHT--TCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHH--hCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhh
Confidence            77777777 77777777777776  4455566777778888888888888888888777767677777778888888888


Q ss_pred             hhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccC--------CCCHHhHHHHHHHHHhcCcHHH
Q 048394          300 LDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCS--------SYDMRLADVIIRAYLQKDMYEE  371 (485)
Q Consensus       300 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--------~~~~~~~~~l~~~~~~~~~~~~  371 (485)
                      +++|...++++....+.+...+..+...+...|++++|...++++.+...        .....++..+...|...|++++
T Consensus       175 ~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  254 (330)
T 3hym_B          175 SKLAERFFSQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAE  254 (330)
T ss_dssp             HHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHH
Confidence            88888888888777777777788888888888888888888887766431        2245678888888888899999


Q ss_pred             HHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHH-hhcCChh
Q 048394          372 AALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFF-EEEKDVD  446 (485)
Q Consensus       372 A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~  446 (485)
                      |...+++..+..   +.+...+..+...|.+.|++++|...++++.+.     .+.+...+..+..++ ...|+.+
T Consensus       255 A~~~~~~a~~~~---~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~-----~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          255 ALDYHRQALVLI---PQNASTYSAIGYIHSLMGNFENAVDYFHTALGL-----RRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHHHHHS---TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTT-----CSCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHHHHhhC---ccchHHHHHHHHHHHHhccHHHHHHHHHHHHcc-----CCCchHHHHHHHHHHHHHhCchh
Confidence            999888888764   445677888888888889999999999888876     344666777777766 4555543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.90  E-value=7.7e-20  Score=177.53  Aligned_cols=401  Identities=9%  Similarity=0.028  Sum_probs=295.7

Q ss_pred             CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHH
Q 048394           72 KTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALL  151 (485)
Q Consensus        72 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li  151 (485)
                      .|-+...+..++. +.+.|+++.|..+|+++.+.. +-+...|..++..+.+.|++++|..+|++.....|+...|..++
T Consensus         9 ~P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p~~~lw~~~~   86 (530)
T 2ooe_A            9 NPYDLDAWSILIR-EAQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVLHIDLWKCYL   86 (530)
T ss_dssp             CTTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCCCHHHHHHHH
T ss_pred             CCCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCChHHHHHHH
Confidence            3557777888887 478899999999999998875 45677889999999999999999999999999668888888877


Q ss_pred             HHH-HhcCcHHHHHH----HHHHHHh-CCCCC-ChhhHHHHHHHHHh---------CCCcccHHHHHHHHHHcCCCccHH
Q 048394          152 NCY-CKELMTERALA----LFEKMDE-LKFLG-NTVAFNNLSTMYLR---------LGQPEKVRPLVNQMKQRNISLDNL  215 (485)
Q Consensus       152 ~~~-~~~~~~~~A~~----~~~~m~~-~~~~p-~~~~~~~l~~~~~~---------~g~~~~a~~~~~~~~~~~~~p~~~  215 (485)
                      ... ...|+.++|.+    +|++... .|..| +...|...+....+         .|++++|..+|++..+....+...
T Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~  166 (530)
T 2ooe_A           87 SYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQ  166 (530)
T ss_dssp             HHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHH
T ss_pred             HHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHH
Confidence            533 34577666654    7776654 24433 45677777776554         688999999999998731111123


Q ss_pred             HHHHHHHHH-------------HhcCCHhHHHHHHHHHH------hcc--CCCCc--------HHHHHHHHHHHHhc---
Q 048394          216 TYIVWMQSY-------------SHLNDIDGVERVFYEMC------NEC--EDKCR--------WTTYSNLASIYVKA---  263 (485)
Q Consensus       216 ~~~~l~~~~-------------~~~~~~~~a~~~~~~~~------~~~--~~~~~--------~~~~~~l~~~~~~~---  263 (485)
                      .|.......             .+.+++..|..++..+.      +..  ..+|+        ...|...+......   
T Consensus       167 ~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~  246 (530)
T 2ooe_A          167 LWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLR  246 (530)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSC
T ss_pred             HHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCcc
Confidence            343322211             13456777777776532      200  12443        23444444332221   


Q ss_pred             -cc----HHHHHHHHHHHHhcCCCChHHHHHHHHHHHh-------cCChh-------hHHHHHHHhhh-cCCCChhhHHH
Q 048394          264 -EL----FEKAELALKKLEEMKPRDRKAYHFLISLYCN-------TSNLD-------AVNRVWGILKS-TFPPTNTSYLV  323 (485)
Q Consensus       264 -~~----~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~-~~~~~~~~~~~  323 (485)
                       ++    .+.+..+|+++....|.++..|..++..+..       .|+++       +|..++++... ..|.+...+..
T Consensus       247 ~~~~~~~~~~a~~~y~~al~~~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~  326 (530)
T 2ooe_A          247 TEDQTLITKRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFA  326 (530)
T ss_dssp             CSCSHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHH
T ss_pred             CCcchhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHH
Confidence             22    2477889999998888899999999998886       78887       89999999987 45558899999


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHccCCCC-HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHH-HH
Q 048394          324 LLQALAKLNAIDILKQCFEEWESRCSSYD-MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIY-YL  401 (485)
Q Consensus       324 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~-~~  401 (485)
                      ++..+.+.|++++|.++|+.+.+..+. + ...|..++..+.+.|++++|..+|++..+..   +.+...|...... +.
T Consensus       327 ~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~---~~~~~~~~~~a~~~~~  402 (530)
T 2ooe_A          327 YADYEESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA---RTRHHVYVTAALMEYY  402 (530)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHSSSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT---TCCTHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHhCcccc-CchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc---CCchHHHHHHHHHHHH
Confidence            999999999999999999999986433 3 3588889998999999999999999998763   2223333322222 33


Q ss_pred             hcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCH----HHHHHHHHHHHHhC
Q 048394          402 RSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDF----SAYSLLIKTYIAAG  477 (485)
Q Consensus       402 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g  477 (485)
                      ..|+.++|..+|++.++..     +.+...|..++..+.+.|+.++|..+|+++.+..|.++    ..|...+......|
T Consensus       403 ~~~~~~~A~~~~e~al~~~-----p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G  477 (530)
T 2ooe_A          403 CSKDKSVAFKIFELGLKKY-----GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIG  477 (530)
T ss_dssp             HTCCHHHHHHHHHHHHHHH-----TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSS
T ss_pred             HcCChhHHHHHHHHHHHHC-----CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcC
Confidence            6899999999999999873     45688999999999999999999999999999766444    48888899988899


Q ss_pred             CCcchh
Q 048394          478 KLASDM  483 (485)
Q Consensus       478 ~~~~A~  483 (485)
                      +.+.+.
T Consensus       478 ~~~~~~  483 (530)
T 2ooe_A          478 DLASIL  483 (530)
T ss_dssp             CHHHHH
T ss_pred             CHHHHH
Confidence            887764

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.90  E-value=3.1e-21  Score=178.49  Aligned_cols=271  Identities=13%  Similarity=-0.019  Sum_probs=185.4

Q ss_pred             hhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHH
Q 048394          180 VAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASI  259 (485)
Q Consensus       180 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  259 (485)
                      ..+..+...+...|++++|...|+++.+.. +.+..++..+..++...|++++|...++.+.+  ..+.+..++..++.+
T Consensus        65 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~--~~~~~~~~~~~l~~~  141 (368)
T 1fch_A           65 PQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLE--LKPDNQTALMALAVS  141 (368)
T ss_dssp             SSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHh--cCCCCHHHHHHHHHH
Confidence            344455555555555555555555555442 23444555555555555555555555555555  234455555555666


Q ss_pred             HHhcccHHHHHHHHHHHHhcCCCChHHHHH---------------HHHHHHhcCChhhHHHHHHHhhhcCCC--ChhhHH
Q 048394          260 YVKAELFEKAELALKKLEEMKPRDRKAYHF---------------LISLYCNTSNLDAVNRVWGILKSTFPP--TNTSYL  322 (485)
Q Consensus       260 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~---------------l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~  322 (485)
                      |...|++++|...++++....|.+...+..               .+..+...|++++|...++++....+.  +..++.
T Consensus       142 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~  221 (368)
T 1fch_A          142 FTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQC  221 (368)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHH
Confidence            666666666666666655544433333321               133333788888888888888887777  678888


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHh
Q 048394          323 VLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLR  402 (485)
Q Consensus       323 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  402 (485)
                      .+...+...|++++|...++++.+..+. +..++..+...+...|++++|...|+++.+..   +.+...+..+...|.+
T Consensus       222 ~l~~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~---~~~~~~~~~l~~~~~~  297 (368)
T 1fch_A          222 GLGVLFNLSGEYDKAVDCFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQ---PGYIRSRYNLGISCIN  297 (368)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHH
Confidence            8888888888888888888888877544 67788888999999999999999999988764   4456778888889999


Q ss_pred             cccHHHHHHHHHHHHHHhhhcC------CCccHHHHHHHHHHHhhcCChhhHHHHHHHHhh
Q 048394          403 SRQLDLALNEMEAALSEAKQFH------WRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKS  457 (485)
Q Consensus       403 ~g~~~~A~~~~~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  457 (485)
                      .|++++|...|+++....+...      .+....+|..+..++...|++++|..++++.++
T Consensus       298 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  358 (368)
T 1fch_A          298 LGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARDLS  358 (368)
T ss_dssp             HTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTCHH
T ss_pred             CCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHHHH
Confidence            9999999999999988752110      011267899999999999999999988875443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.90  E-value=6.2e-20  Score=175.82  Aligned_cols=376  Identities=14%  Similarity=-0.010  Sum_probs=252.2

Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC-----C---CCCChhhHHHHHHHHHhhCCHHHHHHHHHhhccc----
Q 048394           73 TVRKDMLEYCVRSLRKFGRYRHALEVIEWMESR-----K---MHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEY----  140 (485)
Q Consensus        73 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~---~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----  140 (485)
                      ......|+.+...+...|++++|++.|++..+.     +   -+....+|+.+..+|...|++++|...+++..+.    
T Consensus        48 ~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~  127 (472)
T 4g1t_A           48 EFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKF  127 (472)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhc
Confidence            344667888999999999999999999987432     1   1223567889999999999999999999887651    


Q ss_pred             ----C-CCHhHHHHHHHHHHh--cCcHHHHHHHHHHHHhCCCCCChhhHHHHHHH---HHhCCCcccHHHHHHHHHHcCC
Q 048394          141 ----A-KNRYTYGALLNCYCK--ELMTERALALFEKMDELKFLGNTVAFNNLSTM---YLRLGQPEKVRPLVNQMKQRNI  210 (485)
Q Consensus       141 ----~-~~~~~~~~li~~~~~--~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~---~~~~g~~~~a~~~~~~~~~~~~  210 (485)
                          . ....++..+..++.+  .+++++|+..|++..+..+. +...+..+..+   +...++.++|++.+++..+.. 
T Consensus       128 ~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-  205 (472)
T 4g1t_A          128 SSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-  205 (472)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-
T ss_pred             ccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-
Confidence                1 124566666656555  45799999999999886533 44455555444   445688899999999988753 


Q ss_pred             CccHHHHHHHHHHHH----hcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHH
Q 048394          211 SLDNLTYIVWMQSYS----HLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKA  286 (485)
Q Consensus       211 ~p~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  286 (485)
                      +.+..++..+...+.    ..+++++|.+.+++...  ..+.+..++..+...|...|++++|...++++.+..|.+..+
T Consensus       206 p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~--~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~  283 (472)
T 4g1t_A          206 PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALE--KAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYL  283 (472)
T ss_dssp             SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHH--HCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHH
T ss_pred             CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH--hCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHH
Confidence            334555555554444    35678899999999887  577788889999999999999999999999999988989999


Q ss_pred             HHHHHHHHHhc-------------------CChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048394          287 YHFLISLYCNT-------------------SNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESR  347 (485)
Q Consensus       287 ~~~l~~~~~~~-------------------~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  347 (485)
                      +..+..+|...                   +..+.|...+++.....+.+..++..+...+...|++++|.+.|++..+.
T Consensus       284 ~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~  363 (472)
T 4g1t_A          284 HCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSK  363 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhc
Confidence            98888776532                   23456777777777777777778888888888888888888888888776


Q ss_pred             cCCCCHH--hHHHHHH-HHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcC
Q 048394          348 CSSYDMR--LADVIIR-AYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFH  424 (485)
Q Consensus       348 ~~~~~~~--~~~~l~~-~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  424 (485)
                      .+.+...  .+..+.. .+...|++++|+..|++..+.    .|+.....         +....+..++++.+..     
T Consensus       364 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i----~~~~~~~~---------~~~~~l~~~~~~~l~~-----  425 (472)
T 4g1t_A          364 ELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI----NQKSREKE---------KMKDKLQKIAKMRLSK-----  425 (472)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS----CCCCHHHH---------HHHHHHHHHHHHHHHH-----
T ss_pred             CCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc----CcccHHHH---------HHHHHHHHHHHHHHHh-----
Confidence            5443221  2222322 234678888888888888765    44433221         2234445566666665     


Q ss_pred             CCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHH
Q 048394          425 WRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLI  470 (485)
Q Consensus       425 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  470 (485)
                      .+.+..+|..+..++...|++++|.+.|+++++.+|.++.++..++
T Consensus       426 ~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~G  471 (472)
T 4g1t_A          426 NGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWNG  471 (472)
T ss_dssp             CC-CTTHHHHHHHHHHHHHHCC------------------------
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcCC
Confidence            4556778888888888888888999999888888887777666554

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.89  E-value=3.5e-18  Score=164.15  Aligned_cols=370  Identities=9%  Similarity=-0.035  Sum_probs=299.2

Q ss_pred             CCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh----hCCHHHHHHHHHhhcccCCCH
Q 048394           73 TVRKDMLEYCVRSLRK----FGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAK----TNGIAAAEKYFNGLSEYAKNR  144 (485)
Q Consensus        73 ~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~  144 (485)
                      ..++..+..+...+..    .+++++|+..|+...+.|   +...+..+...|..    .+++++|.++|++..+. .+.
T Consensus        36 ~g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~-~~~  111 (490)
T 2xm6_A           36 SGEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALK-GLP  111 (490)
T ss_dssp             TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-TCH
T ss_pred             CCCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-CCH
Confidence            3466777777777877    899999999999988775   56677778888888    88999999999988773 366


Q ss_pred             hHHHHHHHHHHh----cCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh----CCCcccHHHHHHHHHHcCCCccHHH
Q 048394          145 YTYGALLNCYCK----ELMTERALALFEKMDELKFLGNTVAFNNLSTMYLR----LGQPEKVRPLVNQMKQRNISLDNLT  216 (485)
Q Consensus       145 ~~~~~li~~~~~----~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~  216 (485)
                      ..+..|...|..    .+++++|+..|++..+.|   +...+..+...|..    .+++++|++.|++..+.|   +...
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a  185 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWS  185 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence            778888888888    789999999999998876   56678888888877    788999999999998875   5677


Q ss_pred             HHHHHHHHHh----cCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHh----cccHHHHHHHHHHHHhcCCCChHHHH
Q 048394          217 YIVWMQSYSH----LNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVK----AELFEKAELALKKLEEMKPRDRKAYH  288 (485)
Q Consensus       217 ~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~  288 (485)
                      +..+...|..    .++.++|.++|+...+ .+   +...+..+...|..    .+++++|...|++..+.  .+...+.
T Consensus       186 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~--~~~~a~~  259 (490)
T 2xm6_A          186 CNQLGYMYSRGLGVERNDAISAQWYRKSAT-SG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQ--GNSIAQF  259 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTT--TCHHHHH
T ss_pred             HHHHHHHHhcCCCCCcCHHHHHHHHHHHHH-CC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC--CCHHHHH
Confidence            7778888887    8999999999999887 32   45667778888886    78999999999988764  3467777


Q ss_pred             HHHHHHHh----cCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhc-----CChhHHHHHHHHHHHccCCCCHHhHHHH
Q 048394          289 FLISLYCN----TSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKL-----NAIDILKQCFEEWESRCSSYDMRLADVI  359 (485)
Q Consensus       289 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l  359 (485)
                      .+...|..    .+++++|...|++..+.+  +...+..+...|...     ++.++|...|++..+.+   +...+..+
T Consensus       260 ~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~--~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~l  334 (490)
T 2xm6_A          260 RLGYILEQGLAGAKEPLKALEWYRKSAEQG--NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANL  334 (490)
T ss_dssp             HHHHHHHHTTTSSCCHHHHHHHHHHHHTTT--CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHHCCCCCCCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHH
Confidence            88888887    889999999999987654  456777788888877     89999999999988875   55677778


Q ss_pred             HHHHHhcC---cHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHh----cccHHHHHHHHHHHHHHhhhcCCCccHHHH
Q 048394          360 IRAYLQKD---MYEEAALIFNNAKKRANASARFFKSRESFMIYYLR----SRQLDLALNEMEAALSEAKQFHWRPMQVTV  432 (485)
Q Consensus       360 ~~~~~~~~---~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  432 (485)
                      ...|...|   ++++|...|++..+.+     +...+..+...|..    .+++++|+.+|++..+.+       +...+
T Consensus       335 g~~y~~~g~~~~~~~A~~~~~~a~~~~-----~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~-------~~~a~  402 (490)
T 2xm6_A          335 GAIYFRLGSEEEHKKAVEWFRKAAAKG-----EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG-------LSAAQ  402 (490)
T ss_dssp             HHHHHHSCCHHHHHHHHHHHHHHHHTT-----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT-------CHHHH
T ss_pred             HHHHHhCCCcccHHHHHHHHHHHHHCC-----CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC-------CHHHH
Confidence            88887766   8899999999988764     34567777788887    789999999999998863       46677


Q ss_pred             HHHHHHHhh----cCChhhHHHHHHHHhhcCC---CCHHHHHHHHHHHHH
Q 048394          433 DTFFRFFEE----EKDVDGAEEFCKVLKSLNC---LDFSAYSLLIKTYIA  475 (485)
Q Consensus       433 ~~l~~~~~~----~~~~~~A~~~~~~~~~~~~---~~~~~~~~l~~~~~~  475 (485)
                      ..+...|..    .+++++|..+|+++.+.+|   .++.+...++.++..
T Consensus       403 ~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~  452 (490)
T 2xm6_A          403 VQLGEIYYYGLGVERDYVQAWAWFDTASTNDMNLFGTENRNITEKKLTAK  452 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHh
Confidence            778888887    8999999999999999884   366677666655443

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.89  E-value=1.2e-21  Score=181.16  Aligned_cols=261  Identities=13%  Similarity=-0.032  Sum_probs=210.1

Q ss_pred             cHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHH
Q 048394          213 DNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLIS  292 (485)
Q Consensus       213 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  292 (485)
                      +...+..+...+.+.|++++|...|+.+.+  ..+.+..++..++.+|...|++++|...|+++.+..|.+..++..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAIL--QDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence            344577777888888888888888888887  456678888888888888888888888888888877778888888888


Q ss_pred             HHHhcCChhhHHHHHHHhhhcCCCChhhH----------HHHHHHHHhcCChhHHHHHHHHHHHccCCC-CHHhHHHHHH
Q 048394          293 LYCNTSNLDAVNRVWGILKSTFPPTNTSY----------LVLLQALAKLNAIDILKQCFEEWESRCSSY-DMRLADVIIR  361 (485)
Q Consensus       293 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~  361 (485)
                      +|...|++++|...++++....+.+...+          ..+...+...|++++|.+.++++.+..+.. +..++..+..
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            88888888888888888877665533333          335788888999999999999998875442 5788888999


Q ss_pred             HHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhh
Q 048394          362 AYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEE  441 (485)
Q Consensus       362 ~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  441 (485)
                      .|...|++++|...|+++.+..   +.+..+|..+...|...|++++|+..|+++++.     .+.+..++..+..+|..
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-----~p~~~~~~~~l~~~~~~  293 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTVR---PEDYSLWNRLGATLANGDRSEEAVEAYTRALEI-----QPGFIRSRYNLGISCIN  293 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-----CCCchHHHHHHHHHHHH
Confidence            9999999999999999998874   456778899999999999999999999999987     44568888999999999


Q ss_pred             cCChhhHHHHHHHHhhcCCC------------CHHHHHHHHHHHHHhCCCcchh
Q 048394          442 EKDVDGAEEFCKVLKSLNCL------------DFSAYSLLIKTYIAAGKLASDM  483 (485)
Q Consensus       442 ~~~~~~A~~~~~~~~~~~~~------------~~~~~~~l~~~~~~~g~~~~A~  483 (485)
                      .|++++|...++++.+..|.            +..+|..++.++...|+.+.|.
T Consensus       294 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  347 (365)
T 4eqf_A          294 LGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQ  347 (365)
T ss_dssp             HTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHH
Confidence            99999999999999987765            3678999999999999887664

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.88  E-value=5.2e-21  Score=176.77  Aligned_cols=267  Identities=10%  Similarity=-0.062  Sum_probs=150.4

Q ss_pred             HhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHH
Q 048394          144 RYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQS  223 (485)
Q Consensus       144 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  223 (485)
                      ...|..+...+.+.|++++|...|+++...... +..+|..+...+...|++++|+..|+++.+.. +.+..++..+..+
T Consensus        65 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  142 (365)
T 4eqf_A           65 WPGAFEEGLKRLKEGDLPVTILFMEAAILQDPG-DAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVS  142 (365)
T ss_dssp             CTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            344666666666666666666666666665433 45566666666666666666666666666542 2345556666666


Q ss_pred             HHhcCCHhHHHHHHHHHHhccCCCCc----------HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCC--ChHHHHHHH
Q 048394          224 YSHLNDIDGVERVFYEMCNECEDKCR----------WTTYSNLASIYVKAELFEKAELALKKLEEMKPR--DRKAYHFLI  291 (485)
Q Consensus       224 ~~~~~~~~~a~~~~~~~~~~~~~~~~----------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~l~  291 (485)
                      |...|++++|...++++.+  ..+.+          ...+..+...+...|++++|...++++.+..|.  +..++..+.
T Consensus       143 ~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIK--QNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHH--HCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHH--hCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            6666666666666666655  11111          112233456666666677777776666665554  566666666


Q ss_pred             HHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHH
Q 048394          292 SLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEE  371 (485)
Q Consensus       292 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  371 (485)
                      ..+...|++++|...++++.+..+.+..++..+..++...|++++|.+.|+++.+..+. +..++..+..+|...|++++
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~  299 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPG-FIRSRYNLGISCINLGAYRE  299 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHCCCHHH
Confidence            66666666666666666666665555666666666666666666666666666555333 45555666666666666666


Q ss_pred             HHHHHHHHHhccccc---------CCchhHHHHHHHHHHhcccHHHHHHHHHH
Q 048394          372 AALIFNNAKKRANAS---------ARFFKSRESFMIYYLRSRQLDLALNEMEA  415 (485)
Q Consensus       372 A~~~~~~~~~~~~~~---------~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  415 (485)
                      |...|+++.+.....         ..+...|..+..++...|+.+.+..+.++
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            666666655432100         00134455555555555655555544443

>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=99.88  E-value=2.9e-20  Score=168.84  Aligned_cols=258  Identities=13%  Similarity=-0.001  Sum_probs=191.6

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Q 048394          216 TYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYC  295 (485)
Q Consensus       216 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  295 (485)
                      .+..+...+...|++++|..+|+.+.+  ..+.+...+..++.++...|++++|...++++.+..|.+..++..+...+.
T Consensus        23 ~~~~~a~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~  100 (327)
T 3cv0_A           23 NPMEEGLSMLKLANLAEAALAFEAVCQ--AAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHT  100 (327)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHHH
Confidence            344455556666666666666666655  344455566666666666666666666666666665656666666666666


Q ss_pred             hcCChhhHHHHHHHhhhcCCCChhhHHHH--------------HH-HHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHH
Q 048394          296 NTSNLDAVNRVWGILKSTFPPTNTSYLVL--------------LQ-ALAKLNAIDILKQCFEEWESRCSSYDMRLADVII  360 (485)
Q Consensus       296 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  360 (485)
                      ..|++++|...++++....+.+...+..+              .. .+...|++++|.+.++++.+..+. +..++..+.
T Consensus       101 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la  179 (327)
T 3cv0_A          101 NEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPN-DAQLHASLG  179 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTT-CHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCC-CHHHHHHHH
Confidence            66666666666666666555544443333              22 366778899999999998887655 778888899


Q ss_pred             HHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHh
Q 048394          361 RAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFE  440 (485)
Q Consensus       361 ~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  440 (485)
                      ..|...|++++|...++++.+..   +.+...+..+...+...|++++|...++++.+.     .+.+...+..+...+.
T Consensus       180 ~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~-----~~~~~~~~~~l~~~~~  251 (327)
T 3cv0_A          180 VLYNLSNNYDSAAANLRRAVELR---PDDAQLWNKLGATLANGNRPQEALDAYNRALDI-----NPGYVRVMYNMAVSYS  251 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-----CCCCHHHHHHHHHHHH
Confidence            99999999999999999988764   445677888888999999999999999999887     4456788888999999


Q ss_pred             hcCChhhHHHHHHHHhhcCCC------------CHHHHHHHHHHHHHhCCCcchhc
Q 048394          441 EEKDVDGAEEFCKVLKSLNCL------------DFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       441 ~~~~~~~A~~~~~~~~~~~~~------------~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      ..|++++|.+.++++.+..|.            +..+|..++.+|.+.|++++|..
T Consensus       252 ~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  307 (327)
T 3cv0_A          252 NMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVEL  307 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHH
Confidence            999999999999999998887            78899999999999999988753

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.87  E-value=9e-19  Score=167.72  Aligned_cols=354  Identities=12%  Similarity=0.003  Sum_probs=264.4

Q ss_pred             CChhhHHHHHHHHHhhCCHHHHHHHHHhhcc----------cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCC----
Q 048394          109 FSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE----------YAKNRYTYGALLNCYCKELMTERALALFEKMDELK----  174 (485)
Q Consensus       109 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----------~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~----  174 (485)
                      .....|+.+...+...|++++|++.|++..+          .+....+|+.+..+|...|++++|...+++..+..    
T Consensus        49 ~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~  128 (472)
T 4g1t_A           49 FKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFS  128 (472)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcc
Confidence            4456789999999999999999999988654          12235689999999999999999999999876421    


Q ss_pred             --CCC-ChhhHHHHHHHHHh--CCCcccHHHHHHHHHHcCCCcc-HHHHHHHHHH---HHhcCCHhHHHHHHHHHHhccC
Q 048394          175 --FLG-NTVAFNNLSTMYLR--LGQPEKVRPLVNQMKQRNISLD-NLTYIVWMQS---YSHLNDIDGVERVFYEMCNECE  245 (485)
Q Consensus       175 --~~p-~~~~~~~l~~~~~~--~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~  245 (485)
                        ..+ ...++..+..++..  .+++++|++.|++..+..  |+ ...+..+..+   +...++.++|++.+++..+  .
T Consensus       129 ~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~--p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~--l  204 (472)
T 4g1t_A          129 SPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK--PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIR--L  204 (472)
T ss_dssp             CSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHH--H
T ss_pred             cccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhh--c
Confidence              111 23456655555554  457899999999998853  43 4444444444   4456888899999999887  4


Q ss_pred             CCCcHHHHHHHHHHHHh----cccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhH
Q 048394          246 DKCRWTTYSNLASIYVK----AELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSY  321 (485)
Q Consensus       246 ~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  321 (485)
                      .+.+..++..+...+..    .+++++|...+++.....|.+..++..+...|...|++++|...++++.+..|.+..++
T Consensus       205 ~p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  284 (472)
T 4g1t_A          205 NPDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLH  284 (472)
T ss_dssp             CSSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHH
T ss_pred             CCcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHH
Confidence            56677777666665554    46788999999999998898999999999999999999999999999999988888888


Q ss_pred             HHHHHHHHhc-------------------CChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhc
Q 048394          322 LVLLQALAKL-------------------NAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKR  382 (485)
Q Consensus       322 ~~l~~~~~~~-------------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  382 (485)
                      ..+..+|...                   +..+.|...++...+..+. +..++..+...|...|++++|...|++..+.
T Consensus       285 ~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~  363 (472)
T 4g1t_A          285 CQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDN-LFRVCSILASLHALADQYEEAEYYFQKEFSK  363 (472)
T ss_dssp             HHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTT-TCCCHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCc-hhhhhhhHHHHHHHhccHHHHHHHHHHHHhc
Confidence            8887776432                   3356788888888777554 6677888999999999999999999999887


Q ss_pred             ccccCCchh--HHHHHHH-HHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcC
Q 048394          383 ANASARFFK--SRESFMI-YYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLN  459 (485)
Q Consensus       383 ~~~~~p~~~--~~~~l~~-~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  459 (485)
                      ..  .|...  .+..+.. .+...|++++|+..|++.+...      |+......         ....+.+++++.++..
T Consensus       364 ~~--~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~------~~~~~~~~---------~~~~l~~~~~~~l~~~  426 (472)
T 4g1t_A          364 EL--TPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKIN------QKSREKEK---------MKDKLQKIAKMRLSKN  426 (472)
T ss_dssp             CC--CHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSC------CCCHHHHH---------HHHHHHHHHHHHHHHC
T ss_pred             CC--CChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC------cccHHHHH---------HHHHHHHHHHHHHHhC
Confidence            43  33221  1222222 2357899999999999998853      55433322         2345667788888899


Q ss_pred             CCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          460 CLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       460 ~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      |.++.+|..|+.+|...|++++|+.
T Consensus       427 p~~~~~~~~LG~~~~~~g~~~~A~~  451 (472)
T 4g1t_A          427 GADSEALHVLAFLQELNEKMQQADE  451 (472)
T ss_dssp             C-CTTHHHHHHHHHHHHHHCC----
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999999999999999975

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.86  E-value=3.8e-17  Score=156.93  Aligned_cols=355  Identities=11%  Similarity=0.015  Sum_probs=295.2

Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHh----hCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHh----cCcHHHHHHH
Q 048394           95 ALEVIEWMESRKMHFSYTDFAVYLDLTAK----TNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCK----ELMTERALAL  166 (485)
Q Consensus        95 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~  166 (485)
                      +++.+....+.|   +...+..+...|..    .+++++|..+|++..+. .+...+..|...|..    .+++++|.+.
T Consensus        26 ~~~~~~~~a~~g---~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~-~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~  101 (490)
T 2xm6_A           26 NLEQLKQKAESG---EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQ-GYTPAEYVLGLRYMNGEGVPQDYAQAVIW  101 (490)
T ss_dssp             CHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHTSSSCCCHHHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHC-CCHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            355555555554   66777777777877    89999999999998773 467788889999998    8999999999


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHh----CCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHh----cCCHhHHHHHHH
Q 048394          167 FEKMDELKFLGNTVAFNNLSTMYLR----LGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSH----LNDIDGVERVFY  238 (485)
Q Consensus       167 ~~~m~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~  238 (485)
                      |++..+.|   +...+..|...|..    .+++++|.+.|++..+.|   +...+..+...|..    .+++++|.+.|+
T Consensus       102 ~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  175 (490)
T 2xm6_A          102 YKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYS  175 (490)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            99999876   66778888888888    789999999999998876   55677778888877    789999999999


Q ss_pred             HHHhccCCCCcHHHHHHHHHHHHh----cccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHh----cCChhhHHHHHHHh
Q 048394          239 EMCNECEDKCRWTTYSNLASIYVK----AELFEKAELALKKLEEMKPRDRKAYHFLISLYCN----TSNLDAVNRVWGIL  310 (485)
Q Consensus       239 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~  310 (485)
                      ...+ .   .+...+..+...|..    .+++++|...|++..+.  .++.++..+...|..    .+++++|...|++.
T Consensus       176 ~a~~-~---~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~--~~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a  249 (490)
T 2xm6_A          176 KAAE-Q---GNVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATS--GDELGQLHLADMYYFGIGVTQDYTQSRVLFSQS  249 (490)
T ss_dssp             HHHH-T---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             HHHH-C---CCHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHC--CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHH
Confidence            9988 3   367788889999988    89999999999998764  356788888888886    88999999999998


Q ss_pred             hhcCCCChhhHHHHHHHHHh----cCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhc-----CcHHHHHHHHHHHHh
Q 048394          311 KSTFPPTNTSYLVLLQALAK----LNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQK-----DMYEEAALIFNNAKK  381 (485)
Q Consensus       311 ~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~A~~~~~~~~~  381 (485)
                      .+.+  +...+..+...+..    .++.++|.+.|+...+.+   +...+..+...|...     +++++|...|++..+
T Consensus       250 ~~~~--~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~  324 (490)
T 2xm6_A          250 AEQG--NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAE  324 (490)
T ss_dssp             HTTT--CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHH
T ss_pred             HHCC--CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHh
Confidence            7754  45677778888887    899999999999998764   566777788888887     899999999999988


Q ss_pred             cccccCCchhHHHHHHHHHHhcc---cHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhh----cCChhhHHHHHHH
Q 048394          382 RANASARFFKSRESFMIYYLRSR---QLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEE----EKDVDGAEEFCKV  454 (485)
Q Consensus       382 ~~~~~~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~  454 (485)
                      .+.     ...+..+...|...|   ++++|+.+|++..+.       .+...+..+...|..    .+++++|..+|++
T Consensus       325 ~~~-----~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~-------~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~  392 (490)
T 2xm6_A          325 QGD-----ATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK-------GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRK  392 (490)
T ss_dssp             TTC-----HHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT-------TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHH
T ss_pred             cCC-----HHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC-------CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            752     245666777777655   899999999999886       456788888888888    8999999999999


Q ss_pred             HhhcCCCCHHHHHHHHHHHHH----hCCCcchhc
Q 048394          455 LKSLNCLDFSAYSLLIKTYIA----AGKLASDMR  484 (485)
Q Consensus       455 ~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~  484 (485)
                      +.+.+  ++.++..|+.+|..    .+++++|++
T Consensus       393 A~~~~--~~~a~~~Lg~~y~~g~g~~~d~~~A~~  424 (490)
T 2xm6_A          393 AAEQG--LSAAQVQLGEIYYYGLGVERDYVQAWA  424 (490)
T ss_dssp             HHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHH
T ss_pred             HHhCC--CHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence            99854  68899999999998    788888864

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.86  E-value=1.3e-19  Score=164.43  Aligned_cols=271  Identities=11%  Similarity=-0.040  Sum_probs=177.4

Q ss_pred             hHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHH
Q 048394          181 AFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIY  260 (485)
Q Consensus       181 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  260 (485)
                      .+..+...+...|++++|..+|+++.+.. +.+..++..+..++...|++++|.+.++++.+  ..+.+..++..++.+|
T Consensus        23 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~la~~~   99 (327)
T 3cv0_A           23 NPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARM--LDPKDIAVHAALAVSH   99 (327)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCcCCHHHHHHHHHHH
Confidence            44455555555556666666555555542 22444555555556666666666666666555  3444555556666666


Q ss_pred             HhcccHHHHHHHHHHHHhcCCCChHHHHHH--------------HH-HHHhcCChhhHHHHHHHhhhcCCCChhhHHHHH
Q 048394          261 VKAELFEKAELALKKLEEMKPRDRKAYHFL--------------IS-LYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLL  325 (485)
Q Consensus       261 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  325 (485)
                      ...|++++|...++++....|.+...+..+              .. .+...|++++|...++++....+.+...+..+.
T Consensus       100 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la  179 (327)
T 3cv0_A          100 TNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHASLG  179 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCCCHHHHHHHH
Confidence            666666666666666665544444444333              22 366677777888888777777766777777778


Q ss_pred             HHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhccc
Q 048394          326 QALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQ  405 (485)
Q Consensus       326 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  405 (485)
                      ..+...|++++|.+.++++.+..+. +..++..+...+...|++++|...|+++.+..   +.+...+..+...|...|+
T Consensus       180 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~~~l~~~~~~~g~  255 (327)
T 3cv0_A          180 VLYNLSNNYDSAAANLRRAVELRPD-DAQLWNKLGATLANGNRPQEALDAYNRALDIN---PGYVRVMYNMAVSYSNMSQ  255 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC---CCCHHHHHHHHHHHHHhcc
Confidence            8888888888888888877776543 56777778888888888888888888877763   3456677778888888888


Q ss_pred             HHHHHHHHHHHHHHhhhcCCC-------ccHHHHHHHHHHHhhcCChhhHHHHHHHHhhc
Q 048394          406 LDLALNEMEAALSEAKQFHWR-------PMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSL  458 (485)
Q Consensus       406 ~~~A~~~~~~~~~~~~~~~~~-------~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  458 (485)
                      +++|...++++..........       .+...+..+..++.+.|++++|..++++..+.
T Consensus       256 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  315 (327)
T 3cv0_A          256 YDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVEP  315 (327)
T ss_dssp             HHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSHH
T ss_pred             HHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            888888888888765110000       04667788888888888888888887765553

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.86  E-value=1.2e-17  Score=162.09  Aligned_cols=394  Identities=9%  Similarity=0.024  Sum_probs=290.0

Q ss_pred             CCcHHHHHHHHHHh--CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHH-HhhCCHHHHHH-
Q 048394           57 GGSVTGALNAYIME--GKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLT-AKTNGIAAAEK-  132 (485)
Q Consensus        57 ~~~~~~~~~~~~~~--g~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~~a~~-  132 (485)
                      .+.+..+...+.+.  -.|.+...+...+..+.+.|+++.|..+|++.....  |+...|..++... ...|+.+.|.+ 
T Consensus        25 ~~~~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~~~~~~~~~~~~~a~~~  102 (530)
T 2ooe_A           25 NQPIDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYLSYVRETKGKLPSYKEK  102 (530)
T ss_dssp             SSCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHHHHHHHHTTTSTTHHHH
T ss_pred             hCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHHHHHHHHccchhhHHHH
Confidence            34555555444432  356678888999999999999999999999998875  6777777777543 34577776665 


Q ss_pred             ---HHHhhcc----cCCCHhHHHHHHHHHHh---------cCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHH-------
Q 048394          133 ---YFNGLSE----YAKNRYTYGALLNCYCK---------ELMTERALALFEKMDELKFLGNTVAFNNLSTMY-------  189 (485)
Q Consensus       133 ---~~~~~~~----~~~~~~~~~~li~~~~~---------~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~-------  189 (485)
                         +|+....    .+++...|...+....+         .|+++.|..+|++.......+....|.......       
T Consensus       103 ~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~~~  182 (530)
T 2ooe_A          103 MAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINIHL  182 (530)
T ss_dssp             HHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCHHH
T ss_pred             HHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhchhH
Confidence               7776644    23467788888876655         789999999999998831111123343322211       


Q ss_pred             ------HhCCCcccHHHHHHHHH------HcC---CCcc--------HHHHHHHHHHHHhc----CCH----hHHHHHHH
Q 048394          190 ------LRLGQPEKVRPLVNQMK------QRN---ISLD--------NLTYIVWMQSYSHL----NDI----DGVERVFY  238 (485)
Q Consensus       190 ------~~~g~~~~a~~~~~~~~------~~~---~~p~--------~~~~~~l~~~~~~~----~~~----~~a~~~~~  238 (485)
                            .+.++++.|..++.+..      +..   ++|+        ...|...+......    ++.    ..+..+|+
T Consensus       183 ~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~  262 (530)
T 2ooe_A          183 AKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYE  262 (530)
T ss_dssp             HHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHH
Confidence                  12345677777776632      111   2443        23455544333221    232    37788999


Q ss_pred             HHHhccCCCCcHHHHHHHHHHHHh-------cccHH-------HHHHHHHHHHh-cCCCChHHHHHHHHHHHhcCChhhH
Q 048394          239 EMCNECEDKCRWTTYSNLASIYVK-------AELFE-------KAELALKKLEE-MKPRDRKAYHFLISLYCNTSNLDAV  303 (485)
Q Consensus       239 ~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a  303 (485)
                      +...  ..+.+...|..++..+.+       .|+++       +|..++++..+ ..|.+...|..++..+.+.|++++|
T Consensus       263 ~al~--~~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A  340 (530)
T 2ooe_A          263 QCLL--VLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKV  340 (530)
T ss_dssp             HHHH--HHTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHH--hCCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHH
Confidence            9988  567788888888888876       68876       99999999997 6788899999999999999999999


Q ss_pred             HHHHHHhhhcCCCCh-hhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHH-HHhcCcHHHHHHHHHHHHh
Q 048394          304 NRVWGILKSTFPPTN-TSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRA-YLQKDMYEEAALIFNNAKK  381 (485)
Q Consensus       304 ~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~A~~~~~~~~~  381 (485)
                      ..+|+++.+..+.+. ..|..++..+.+.|++++|.++|+...+.... +...|...+.. +...|+.++|..+|++..+
T Consensus       341 ~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~-~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~  419 (530)
T 2ooe_A          341 HSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLK  419 (530)
T ss_dssp             HHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTC-CTHHHHHHHHHHHHHTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCC-chHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Confidence            999999999776654 68999999999999999999999999886432 33333332222 3468999999999999988


Q ss_pred             cccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCcc--HHHHHHHHHHHhhcCChhhHHHHHHHHhhcC
Q 048394          382 RANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPM--QVTVDTFFRFFEEEKDVDGAEEFCKVLKSLN  459 (485)
Q Consensus       382 ~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  459 (485)
                      ..   +.+...|..++..+.+.|+.++|..+|++++....   ..|+  ...|..++......|+.+.+..+.+++.+..
T Consensus       420 ~~---p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~---~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~  493 (530)
T 2ooe_A          420 KY---GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS---LPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAF  493 (530)
T ss_dssp             HH---TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCC---SCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHT
T ss_pred             HC---CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccC---CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            63   34567888899999999999999999999998631   2232  4588888888889999999999999999987


Q ss_pred             CC
Q 048394          460 CL  461 (485)
Q Consensus       460 ~~  461 (485)
                      |.
T Consensus       494 p~  495 (530)
T 2ooe_A          494 RE  495 (530)
T ss_dssp             HH
T ss_pred             ch
Confidence            74

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.85  E-value=1.2e-18  Score=154.53  Aligned_cols=256  Identities=9%  Similarity=0.013  Sum_probs=190.3

Q ss_pred             HHHHHHcCChHHHHHHHHHHHhCCCCCCh--hhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcH
Q 048394           83 VRSLRKFGRYRHALEVIEWMESRKMHFSY--TDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMT  160 (485)
Q Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  160 (485)
                      ++.....|+++.|+..++......  |+.  .....+.++|...|+++.|+..++..  .+|+..++..+...+...++.
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~~--p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~--~~~~~~a~~~la~~~~~~~~~   81 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPSS--PERDVERDVFLYRAYLAQRKYGVVLDEIKPS--SAPELQAVRMFAEYLASHSRR   81 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCCS--HHHHHHHHHHHHHHHHHTTCHHHHHHHSCTT--SCHHHHHHHHHHHHHHCSTTH
T ss_pred             HHHHHHHHHHHHHHHHHHhcccCC--chhhHHHHHHHHHHHHHCCCHHHHHHHhccc--CChhHHHHHHHHHHHcCCCcH
Confidence            455667788888888887654433  332  34455677888888888888777553  345677788888888888888


Q ss_pred             HHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHH
Q 048394          161 ERALALFEKMDELKFLGN-TVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYE  239 (485)
Q Consensus       161 ~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  239 (485)
                      ++|++.++++...+..|+ ...+..+...+...|++++|++.+++      +.+...+..++..+.+.|++++|.+.++.
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            888888888887665454 44556666788888888888888876      35677788888888888888888888888


Q ss_pred             HHhccCCCCcHHH--HHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCC
Q 048394          240 MCNECEDKCRWTT--YSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPT  317 (485)
Q Consensus       240 ~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  317 (485)
                      +.+.  .+.+...  ...++..+...|++++|..+|+++.+..|.++..++.+..++.+.|++++|...++++....|.+
T Consensus       156 ~~~~--~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~  233 (291)
T 3mkr_A          156 MQDQ--DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGH  233 (291)
T ss_dssp             HHHH--CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHhh--CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            8872  2222211  12233444455888888888888888777788888888888888888888888888888888878


Q ss_pred             hhhHHHHHHHHHhcCChhH-HHHHHHHHHHccCC
Q 048394          318 NTSYLVLLQALAKLNAIDI-LKQCFEEWESRCSS  350 (485)
Q Consensus       318 ~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~~~  350 (485)
                      ..++..++..+...|+.++ +.++++++.+..+.
T Consensus       234 ~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~  267 (291)
T 3mkr_A          234 PETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRS  267 (291)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCC
Confidence            8888888888888888765 56788888776544

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.85  E-value=7.1e-19  Score=156.05  Aligned_cols=257  Identities=11%  Similarity=0.060  Sum_probs=162.9

Q ss_pred             HHhCCCcccHHHHHHHHHHcCCCccH--HHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccH
Q 048394          189 YLRLGQPEKVRPLVNQMKQRNISLDN--LTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELF  266 (485)
Q Consensus       189 ~~~~g~~~~a~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  266 (485)
                      ....|+++.|+..++.....  .|+.  .....+.++|...|+++.|+..++.     ..+|+..++..+...+...++.
T Consensus         9 ~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~-----~~~~~~~a~~~la~~~~~~~~~   81 (291)
T 3mkr_A            9 AFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP-----SSAPELQAVRMFAEYLASHSRR   81 (291)
T ss_dssp             HHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT-----TSCHHHHHHHHHHHHHHCSTTH
T ss_pred             HHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc-----cCChhHHHHHHHHHHHcCCCcH
Confidence            34456666666665554332  2332  2334455666666666666654422     2445556666666666666666


Q ss_pred             HHHHHHHHHHHhc--CCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 048394          267 EKAELALKKLEEM--KPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEW  344 (485)
Q Consensus       267 ~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  344 (485)
                      ++|.+.++++...  .|.+...+..+..++...|++++|...+++     +.+...+..++..+.+.|+.++|.+.++.+
T Consensus        82 ~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~-----~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~  156 (291)
T 3mkr_A           82 DAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ-----GDSLECMAMTVQILLKLDRLDLARKELKKM  156 (291)
T ss_dssp             HHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT-----CCSHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC-----CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            6776666666542  355566666666666777777777766665     335666666777777777777777777777


Q ss_pred             HHccCCCCHHhH---HHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhh
Q 048394          345 ESRCSSYDMRLA---DVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAK  421 (485)
Q Consensus       345 ~~~~~~~~~~~~---~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  421 (485)
                      .+..  |+....   ...+..+...|++++|..+|+++.+..   +.+...++.+..++.+.|++++|...+++++..  
T Consensus       157 ~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~---p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~--  229 (291)
T 3mkr_A          157 QDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC---SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDK--  229 (291)
T ss_dssp             HHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS---CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--
Confidence            6653  232111   122333445577888888888877763   556667777777778888888888888887776  


Q ss_pred             hcCCCccHHHHHHHHHHHhhcCChhh-HHHHHHHHhhcCCCCHHHHH
Q 048394          422 QFHWRPMQVTVDTFFRFFEEEKDVDG-AEEFCKVLKSLNCLDFSAYS  467 (485)
Q Consensus       422 ~~~~~~~~~~~~~l~~~~~~~~~~~~-A~~~~~~~~~~~~~~~~~~~  467 (485)
                         .+.+..++..++..+...|+.++ +.++++++.+..|.++.+..
T Consensus       230 ---~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~d  273 (291)
T 3mkr_A          230 ---DSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIKE  273 (291)
T ss_dssp             ---CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             ---CCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHHH
Confidence               44566777777777777777765 56777888887777766543

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.81  E-value=1.6e-18  Score=156.98  Aligned_cols=359  Identities=11%  Similarity=0.083  Sum_probs=167.8

Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHH
Q 048394           74 VRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNC  153 (485)
Q Consensus        74 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~  153 (485)
                      +++..+..+..++.+.|++++|++.|.+.      +|..+|..++..+...|++++|..+++...+..+++.+.+.++.+
T Consensus        30 ~~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~~~~~~i~~~Li~~  103 (449)
T 1b89_A           30 NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFA  103 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCccchhHHHHHHH
Confidence            44468889999999999999999999652      577788888999999999999999888877755667888899999


Q ss_pred             HHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHH
Q 048394          154 YCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGV  233 (485)
Q Consensus       154 ~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  233 (485)
                      |.+.|+++++.++++       .|+..+|+.+...|...|.+++|..+|..+         ..|..++.++.+.|++++|
T Consensus       104 Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~A  167 (449)
T 1b89_A          104 LAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAA  167 (449)
T ss_dssp             -----CHHHHTTTTT-------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHH
T ss_pred             HHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHH
Confidence            999999999888874       267779999999999999999999999866         4788899999999999999


Q ss_pred             HHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhc
Q 048394          234 ERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKST  313 (485)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  313 (485)
                      .+.++.+       .++.+|..++.+|+..|+++.|......+.    .++.-...++..|.+.|.+++|..+++.....
T Consensus       168 Vea~~KA-------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~----~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~l  236 (449)
T 1b89_A          168 VDGARKA-------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV----VHADELEELINYYQDRGYFEELITMLEAALGL  236 (449)
T ss_dssp             HHHHHHH-------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS
T ss_pred             HHHHHHc-------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH----hCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCC
Confidence            9999877       267888889999999999999966554422    24444556888899999999999999988877


Q ss_pred             CCCChhhHHHHHHHHHhc--CChhHHHHHHHHHHHccCCC------CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhccc-
Q 048394          314 FPPTNTSYLVLLQALAKL--NAIDILKQCFEEWESRCSSY------DMRLADVIIRAYLQKDMYEEAALIFNNAKKRAN-  384 (485)
Q Consensus       314 ~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-  384 (485)
                      .......|+.+.-+|++-  +++.+.++.|..-  .+++|      +...|..++-.|...++++.|..+.-+-...-. 
T Consensus       237 e~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~--ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~tm~~h~~~a~~  314 (449)
T 1b89_A          237 ERAHMGMFTELAILYSKFKPQKMREHLELFWSR--VNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWK  314 (449)
T ss_dssp             TTCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTT--SCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHHSTTTTCC
T ss_pred             cHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHhCChhhhh
Confidence            655777787777777763  3444444444321  11111      466788888889999999988775432211100 


Q ss_pred             --------ccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHh
Q 048394          385 --------ASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLK  456 (485)
Q Consensus       385 --------~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  456 (485)
                              +...+...|-..+..|..  ....++.-+-..+...      .|.   ...+..+.+.|++.-+..++..+.
T Consensus       315 ~~~f~~~~~kv~n~elyYkai~fyl~--~~p~~l~~ll~~l~~~------ld~---~r~v~~~~~~~~l~l~~~yl~~v~  383 (449)
T 1b89_A          315 EGQFKDIITKVANVELYYRAIQFYLE--FKPLLLNDLLMVLSPR------LDH---TRAVNYFSKVKQLPLVKPYLRSVQ  383 (449)
T ss_dssp             HHHHHHHHHHCSSTHHHHHHHHHHHH--HCGGGHHHHHHHHGGG------CCH---HHHHHHHHHTTCTTTTHHHHHHHH
T ss_pred             hHHHHHHHhchhHHHHHHHHHHHHHh--cCHHHHHHHHHHHHhc------cCc---HHHHHHHHHcCCcHHHHHHHHHHH
Confidence                    002233444444444441  1111122222211110      111   334445566666666666665555


Q ss_pred             hcCCCCHHHHHHHHHHHHHhCCCc
Q 048394          457 SLNCLDFSAYSLLIKTYIAAGKLA  480 (485)
Q Consensus       457 ~~~~~~~~~~~~l~~~~~~~g~~~  480 (485)
                      .  ..+..+-..|-..|....+++
T Consensus       384 ~--~n~~~vnealn~l~ieeed~~  405 (449)
T 1b89_A          384 N--HNNKSVNESLNNLFITEEDYQ  405 (449)
T ss_dssp             T--TCCHHHHHHHHHHHHHTTCHH
T ss_pred             H--hhHHHHHHHHHHHHHhhhhHH
Confidence            4  245555566666677666654

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.81  E-value=6.2e-20  Score=166.15  Aligned_cols=281  Identities=10%  Similarity=0.110  Sum_probs=97.7

Q ss_pred             hhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHH
Q 048394          123 KTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLV  202 (485)
Q Consensus       123 ~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  202 (485)
                      +.|++++|.++++++..    ..+|..|+.++.+.|++++|++.|.+.      +|..+|..++..+...|++++|+.++
T Consensus        15 ~~~~ld~A~~fae~~~~----~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl   84 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNE----PAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYL   84 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCC----hHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            55667777777777732    347777777777777777777777542      35557777777777777777777766


Q ss_pred             HHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCC
Q 048394          203 NQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPR  282 (485)
Q Consensus       203 ~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  282 (485)
                      +..++.  .+++.+.+.++.+|.+.|+++++.++++        .|+..+|..++..|...|++++|...|..+      
T Consensus        85 ~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~--------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a------  148 (449)
T 1b89_A           85 QMARKK--ARESYVETELIFALAKTNRLAELEEFIN--------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV------  148 (449)
T ss_dssp             --------------------------CHHHHTTTTT--------CC----------------CTTTHHHHHHHT------
T ss_pred             HHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc--------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh------
Confidence            655553  3445666677777777777777665553        244456666777777777777777777654      


Q ss_pred             ChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHH
Q 048394          283 DRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRA  362 (485)
Q Consensus       283 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  362 (485)
                        ..|..++.++.+.|++++|.+.+.++     .++.+|..++.+|...|+++.|......+     ..++.-...++..
T Consensus       149 --~n~~~LA~~L~~Lg~yq~AVea~~KA-----~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L-----~~~ad~l~~lv~~  216 (449)
T 1b89_A          149 --SNFGRLASTLVHLGEYQAAVDGARKA-----NSTRTWKEVCFACVDGKEFRLAQMCGLHI-----VVHADELEELINY  216 (449)
T ss_dssp             --TCHHHHHHHHHTTTCHHHHHHHHHHH-----TCHHHHHHHHHHHHHTTCHHHHHHTTTTT-----TTCHHHHHHHHHH
T ss_pred             --hhHHHHHHHHHHhccHHHHHHHHHHc-----CCchhHHHHHHHHHHcCcHHHHHHHHHHH-----HhCHhhHHHHHHH
Confidence              35667777777777777777777666     25666677777777777777774443321     1233334456666


Q ss_pred             HHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHh--cccHHHHHHHHHHHHHHhhhcCCCc------cHHHHHH
Q 048394          363 YLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLR--SRQLDLALNEMEAALSEAKQFHWRP------MQVTVDT  434 (485)
Q Consensus       363 ~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~--~g~~~~A~~~~~~~~~~~~~~~~~~------~~~~~~~  434 (485)
                      |.+.|++++|..+++......   +-....|+.+..+|++  -++..+.++.|..-+.      ++|      +...|.-
T Consensus       217 Yek~G~~eEai~lLe~aL~le---~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~in------i~k~~~~~~~~~~w~e  287 (449)
T 1b89_A          217 YQDRGYFEELITMLEAALGLE---RAHMGMFTELAILYSKFKPQKMREHLELFWSRVN------IPKVLRAAEQAHLWAE  287 (449)
T ss_dssp             HHHTTCHHHHHHHHHHHTTST---TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTSC------HHHHHHHHHTTTCHHH
T ss_pred             HHHCCCHHHHHHHHHHHhCCc---HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhc------CcHHHHHHHHHHHHHH
Confidence            777777777777776665443   3334455555555543  3344444444433222      122      2445666


Q ss_pred             HHHHHhhcCChhhHHH
Q 048394          435 FFRFFEEEKDVDGAEE  450 (485)
Q Consensus       435 l~~~~~~~~~~~~A~~  450 (485)
                      +...|...++++.|..
T Consensus       288 ~~~ly~~~~e~d~A~~  303 (449)
T 1b89_A          288 LVFLYDKYEEYDNAII  303 (449)
T ss_dssp             HHHHHHHTTCHHHHHH
T ss_pred             HHHHHHhhchHHHHHH
Confidence            6666666666665543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.80  E-value=1.8e-17  Score=144.78  Aligned_cols=238  Identities=12%  Similarity=0.005  Sum_probs=164.8

Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCC-------hHHH
Q 048394          215 LTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRD-------RKAY  287 (485)
Q Consensus       215 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-------~~~~  287 (485)
                      ..+..+...+...|++++|...|+.+.+ ..  .+..++..++.+|...|++++|...++++.+..|.+       ..++
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~-~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWE-LH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH-HS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHH-hh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            4455566666666666666666666666 22  555666666666666666666666666666633322       4666


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcC
Q 048394          288 HFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKD  367 (485)
Q Consensus       288 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  367 (485)
                      ..+...+...|++++|...++++....+.        ...+...|++++|.+.++.+....+. +...+..+...+...|
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~~~~--------~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  153 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTEHRT--------ADILTKLRNAEKELKKAEAEAYVNPE-KAEEARLEGKEYFTKS  153 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCC--------HHHHHHHHHHHHHHHHHHHHHHCCHH-HHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCch--------hHHHHHHhHHHHHHHHHHHHHHcCcc-hHHHHHHHHHHHHHhc
Confidence            66777777777777777777766665443        23455667777788777777765433 4566777778888888


Q ss_pred             cHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhh
Q 048394          368 MYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDG  447 (485)
Q Consensus       368 ~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  447 (485)
                      ++++|...|+++.+..   +.+...|..+...|...|++++|+..++++++.     .+.+...+..+..++...|++++
T Consensus       154 ~~~~A~~~~~~a~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-----~~~~~~~~~~l~~~~~~~g~~~~  225 (258)
T 3uq3_A          154 DWPNAVKAYTEMIKRA---PEDARGYSNRAAALAKLMSFPEAIADCNKAIEK-----DPNFVRAYIRKATAQIAVKEYAS  225 (258)
T ss_dssp             CHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             CHHHHHHHHHHHHhcC---cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh-----CHHHHHHHHHHHHHHHHHhhHHH
Confidence            8888888888887764   345667777778888888888888888888876     34557777788888888888888


Q ss_pred             HHHHHHHHhhcC------CCCHHHHHHHHHH
Q 048394          448 AEEFCKVLKSLN------CLDFSAYSLLIKT  472 (485)
Q Consensus       448 A~~~~~~~~~~~------~~~~~~~~~l~~~  472 (485)
                      |...++++.+..      |.+..++..+..+
T Consensus       226 A~~~~~~a~~~~~~~~~~p~~~~~~~~l~~~  256 (258)
T 3uq3_A          226 ALETLDAARTKDAEVNNGSSAREIDQLYYKA  256 (258)
T ss_dssp             HHHHHHHHHHHHHHHHTTTTHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhChhhcCCCchHHHHHHHHHh
Confidence            888888888877      6677776666544

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.79  E-value=2.3e-17  Score=139.84  Aligned_cols=204  Identities=15%  Similarity=0.074  Sum_probs=115.2

Q ss_pred             CcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHH
Q 048394          248 CRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQA  327 (485)
Q Consensus       248 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  327 (485)
                      ++...+..+...+.+.|++++|...|+++.+..|.+...+..+..++...|++++|...+++..+..|.+...+..+..+
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~   82 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVARTPRYLGGYMVLSEA   82 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            34444445555555555555555555555555555555555555555555555555555555555555454555555444


Q ss_pred             HHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHH
Q 048394          328 LAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLD  407 (485)
Q Consensus       328 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  407 (485)
                      +...+..               ...         .+...|++++|...|++..+..   +-+...+..+...+...|+++
T Consensus        83 ~~~~~~~---------------~~~---------~~~~~g~~~~A~~~~~~al~~~---P~~~~~~~~lg~~~~~~g~~~  135 (217)
T 2pl2_A           83 YVALYRQ---------------AED---------RERGKGYLEQALSVLKDAERVN---PRYAPLHLQRGLVYALLGERD  135 (217)
T ss_dssp             HHHHHHT---------------CSS---------HHHHHHHHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHhhhh---------------hhh---------hcccccCHHHHHHHHHHHHHhC---cccHHHHHHHHHHHHHcCChH
Confidence            4443000               000         0011177777777777776653   234455666666777777777


Q ss_pred             HHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          408 LALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       408 ~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      +|+..|+++++.     . .+...+..+..++...|++++|...++++.+..|.++.++..++.++.+.|++++|+.
T Consensus       136 ~A~~~~~~al~~-----~-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~  206 (217)
T 2pl2_A          136 KAEASLKQALAL-----E-DTPEIRSALAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAAR  206 (217)
T ss_dssp             HHHHHHHHHHHH-----C-CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------
T ss_pred             HHHHHHHHHHhc-----c-cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHH
Confidence            777777777766     3 5666677777777777777777777777777777777777777777777777777654

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.79  E-value=8e-17  Score=147.59  Aligned_cols=251  Identities=8%  Similarity=0.018  Sum_probs=200.4

Q ss_pred             HHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhccc-HHHHHHHHHHHHhcCCCChHHHHHHHH
Q 048394          214 NLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAEL-FEKAELALKKLEEMKPRDRKAYHFLIS  292 (485)
Q Consensus       214 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~A~~~~~~~~~~~~~~~~~~~~l~~  292 (485)
                      ...|..+...+...|++++|+..++++.+  ..+.+..+|..+..++...|+ +++|+..|+++....|.+...|..+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~--l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIE--LNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHH--hCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHH
Confidence            44566677777888888888888888887  566778888888888888886 888888888888888888888888888


Q ss_pred             HHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHh-cCcHHH
Q 048394          293 LYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQ-KDMYEE  371 (485)
Q Consensus       293 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~  371 (485)
                      ++...|++++|+..|+++....+.+..+|..+..++...|++++|+..++++.+..+. +...|+.+..++.. .|..++
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcchH
Confidence            8888888888888888888888888888888888888888888888888888887666 77888888888888 555466


Q ss_pred             H-----HHHHHHHHhcccccCCchhHHHHHHHHHHhcc--cHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcC-
Q 048394          372 A-----ALIFNNAKKRANASARFFKSRESFMIYYLRSR--QLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEK-  443 (485)
Q Consensus       372 A-----~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-  443 (485)
                      |     +..|++.++..   +-+...|..+...+...|  ++++|++.+.++ +.     .+.+...+..+...+.+.| 
T Consensus       254 A~~~~el~~~~~Al~l~---P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-----~p~~~~al~~La~~~~~~~~  324 (382)
T 2h6f_A          254 AVLEREVQYTLEMIKLV---PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-----SHSSPYLIAFLVDIYEDMLE  324 (382)
T ss_dssp             HHHHHHHHHHHHHHHHS---TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-----TCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-----CCCCHHHHHHHHHHHHHHhc
Confidence            6     47788887764   345567777777777777  688888888887 33     4455677788888887764 


Q ss_pred             -------C-hhhHHHHHHHH-hhcCCCCHHHHHHHHHHHHHh
Q 048394          444 -------D-VDGAEEFCKVL-KSLNCLDFSAYSLLIKTYIAA  476 (485)
Q Consensus       444 -------~-~~~A~~~~~~~-~~~~~~~~~~~~~l~~~~~~~  476 (485)
                             + +++|.++++++ .+.+|.....|..++..+...
T Consensus       325 ~~~~~~~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          325 NQCDNKEDILNKALELCEILAKEKDTIRKEYWRYIGRSLQSK  366 (382)
T ss_dssp             TTCSSHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH
T ss_pred             ccccchHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHH
Confidence                   2 58899999999 888898889998888887654

>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=99.79  E-value=1.2e-15  Score=154.10  Aligned_cols=358  Identities=11%  Similarity=0.054  Sum_probs=240.1

Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC--CCChhhHHHHHHH---------------------------HHh
Q 048394           73 TVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKM--HFSYTDFAVYLDL---------------------------TAK  123 (485)
Q Consensus        73 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~---------------------------~~~  123 (485)
                      ..++......+++|...|.+.+|+++++++.-.+-  .-+...-+.++.+                           +..
T Consensus       982 ~~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIkaD~~Rv~eyI~kLd~~d~~eIA~Iai~ 1061 (1630)
T 1xi4_A          982 TQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIANIAIS 1061 (1630)
T ss_pred             ccCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHhChhhHHHHHHHhhhccHHHHHHHHHh
Confidence            35677778889999999999999999999974421  0122333334333                           334


Q ss_pred             hCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHH
Q 048394          124 TNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVN  203 (485)
Q Consensus       124 ~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  203 (485)
                      .|.+++|..+|++...   .....+.++.   ..+++++|.++.++..      +..+|..+..++...|++++|++.|.
T Consensus      1062 lglyEEAf~IYkKa~~---~~~A~~VLie---~i~nldrAiE~Aervn------~p~vWsqLAKAql~~G~~kEAIdsYi 1129 (1630)
T 1xi4_A         1062 NELFEEAFAIFRKFDV---NTSAVQVLIE---HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYI 1129 (1630)
T ss_pred             CCCHHHHHHHHHHcCC---HHHHHHHHHH---HHhhHHHHHHHHHhcC------CHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            4556666666665532   2222222222   4456666666665441      35577778888888888888888775


Q ss_pred             HHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCC
Q 048394          204 QMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRD  283 (485)
Q Consensus       204 ~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  283 (485)
                      +.      -|...|..++.++.+.|++++|.+++....+ ..  ++....+.++.+|++.+++++.....      ..++
T Consensus      1130 KA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk-~~--~e~~Idt~LafaYAKl~rleele~fI------~~~n 1194 (1630)
T 1xi4_A         1130 KA------DDPSSYMEVVQAANTSGNWEELVKYLQMARK-KA--RESYVETELIFALAKTNRLAELEEFI------NGPN 1194 (1630)
T ss_pred             hc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHh-hc--ccccccHHHHHHHHhhcCHHHHHHHH------hCCC
Confidence            53      3556677778888888888888888877666 22  23222334777777777777533332      2335


Q ss_pred             hHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHH
Q 048394          284 RKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAY  363 (485)
Q Consensus       284 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  363 (485)
                      ...|..+...|...|++++|..+|..+        ..|..++.++.+.|+++.|.+.+++.      .+..+|..+..+|
T Consensus      1195 ~ad~~~iGd~le~eg~YeeA~~~Y~kA--------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~ac 1260 (1630)
T 1xi4_A         1195 NAHIQQVGDRCYDEKMYDAAKLLYNNV--------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFAC 1260 (1630)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhh--------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHH
Confidence            566667888888888888888888774        47777888888888888888888766      2567788788888


Q ss_pred             HhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhh--
Q 048394          364 LQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEE--  441 (485)
Q Consensus       364 ~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--  441 (485)
                      ...|++..|......+       ..+...+..++..|.+.|.+++|+.+++..+..     .+-....|.-+...+.+  
T Consensus      1261 ve~~Ef~LA~~cgl~I-------iv~~deLeeli~yYe~~G~feEAI~LlE~aL~L-----eraH~gmftELaiLyaKy~ 1328 (1630)
T 1xi4_A         1261 VDGKEFRLAQMCGLHI-------VVHADELEELINYYQDRGYFEELITMLEAALGL-----ERAHMGMFTELAILYSKFK 1328 (1630)
T ss_pred             hhhhHHHHHHHHHHhh-------hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc-----ChhHhHHHHHHHHHHHhCC
Confidence            8888888877766532       334456678888899999999999999888765     22334455555555544  


Q ss_pred             cCChhhHHHHHHHHhhcCC-----CCHHHHHHHHHHHHHhCCCcchh
Q 048394          442 EKDVDGAEEFCKVLKSLNC-----LDFSAYSLLIKTYIAAGKLASDM  483 (485)
Q Consensus       442 ~~~~~~A~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~A~  483 (485)
                      -++..++.+.|..-....+     .+...|..++-.|.+.|+++.|+
T Consensus      1329 peklmEhlk~f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~ 1375 (1630)
T 1xi4_A         1329 PQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI 1375 (1630)
T ss_pred             HHHHHHHHHHHHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHH
Confidence            3455666666665555444     47788999999999999999887

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.78  E-value=6.5e-17  Score=142.57  Aligned_cols=251  Identities=10%  Similarity=0.007  Sum_probs=165.0

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCC----hHHHHHHHH
Q 048394          217 YIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRD----RKAYHFLIS  292 (485)
Q Consensus       217 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~----~~~~~~l~~  292 (485)
                      +......+...|++++|+..|+.+.+  ..+.+...+..++.+|...|++++|...++++.+. +++    ..+|..+..
T Consensus         6 ~~~~a~~~~~~~~~~~A~~~~~~~l~--~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~-~~~~~~~~~~~~~lg~   82 (272)
T 3u4t_A            6 EFRYADFLFKNNNYAEAIEVFNKLEA--KKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSK-VNATKAKSADFEYYGK   82 (272)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHH--TTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTT-SCTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-cCchhHHHHHHHHHHH
Confidence            33445556666666666666666665  33344445556666666666666666666666652 222    223666666


Q ss_pred             HHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHH
Q 048394          293 LYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEA  372 (485)
Q Consensus       293 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  372 (485)
                      .+...|++++|...+++..+..+.+..++..+...+...|++++|.+.+++..+..+. +...+..+...+...+++++|
T Consensus        83 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A  161 (272)
T 3u4t_A           83 ILMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTT-DPKVFYELGQAYYYNKEYVKA  161 (272)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCC-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCC-cHHHHHHHHHHHHHHHHHHHH
Confidence            6777777777777777766666666666777777777777777777777766665333 555666666233334588888


Q ss_pred             HHHHHHHHhcccccCCchhHHHHHHHHHHhccc---HHHHHHHHHHHHHHhhhcCCCcc------HHHHHHHHHHHhhcC
Q 048394          373 ALIFNNAKKRANASARFFKSRESFMIYYLRSRQ---LDLALNEMEAALSEAKQFHWRPM------QVTVDTFFRFFEEEK  443 (485)
Q Consensus       373 ~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~  443 (485)
                      ...|+++.+..   +.+...+..+...+...|+   +++|...++++.+....   .|+      ...|..+...+...|
T Consensus       162 ~~~~~~a~~~~---p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~---~~~~~~~~~~~~~~~l~~~~~~~~  235 (272)
T 3u4t_A          162 DSSFVKVLELK---PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAP---GGAKYKDELIEANEYIAYYYTINR  235 (272)
T ss_dssp             HHHHHHHHHHS---TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGG---GGGGGHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhC---ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhc---ccccchHHHHHHHHHHHHHHHHcC
Confidence            88888887763   3335566667777777777   77888888888776421   122      256777888889999


Q ss_pred             ChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhC
Q 048394          444 DVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAG  477 (485)
Q Consensus       444 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  477 (485)
                      ++++|...++++.+..|.++.++..+.......+
T Consensus       236 ~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~~  269 (272)
T 3u4t_A          236 DKVKADAAWKNILALDPTNKKAIDGLKMKLEHHH  269 (272)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHC-------
T ss_pred             CHHHHHHHHHHHHhcCccHHHHHHHhhhhhcccc
Confidence            9999999999999999999999888877766554

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.78  E-value=9.1e-20  Score=178.06  Aligned_cols=150  Identities=11%  Similarity=0.080  Sum_probs=123.3

Q ss_pred             CChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-----cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHH
Q 048394          109 FSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-----YAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFN  183 (485)
Q Consensus       109 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~  183 (485)
                      ....+|+++|++|++.|++++|.++|++|.+     ..||..+||+||.+|++.|++++|.++|++|.+.|+.||..|||
T Consensus       125 ~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYn  204 (1134)
T 3spa_A          125 GQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYA  204 (1134)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHH
Confidence            3456899999999999999999999988753     68999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCc-ccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCc------HHHHHHH
Q 048394          184 NLSTMYLRLGQP-EKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCR------WTTYSNL  256 (485)
Q Consensus       184 ~l~~~~~~~g~~-~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~l  256 (485)
                      ++|.++++.|+. ++|.++|++|.+.|+.||..+|+.++.++.+.+    +++.++.+..  +..|+      ..+...|
T Consensus       205 tLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~----vL~~Vrkv~P--~f~p~~~~~~~~~t~~LL  278 (1134)
T 3spa_A          205 AALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT----VLKAVHKVKP--TFSLPPQLPPPVNTSKLL  278 (1134)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHH----HHHHHGGGCC--CCCCCCCCCCCCCCCTTT
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHH----HHHHHHHhCc--ccCCCCCCcccccchHHH
Confidence            999999999985 789999999999999999999999987665553    3334444422  33332      3333446


Q ss_pred             HHHHHhcc
Q 048394          257 ASIYVKAE  264 (485)
Q Consensus       257 ~~~~~~~~  264 (485)
                      .+.|.+.+
T Consensus       279 ~dl~s~d~  286 (1134)
T 3spa_A          279 RDVYAKDG  286 (1134)
T ss_dssp             HHHHCCCS
T ss_pred             HHHHccCC
Confidence            66666544

>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=99.78  E-value=7.5e-15  Score=148.42  Aligned_cols=350  Identities=9%  Similarity=0.103  Sum_probs=265.8

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcC
Q 048394           79 LEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKEL  158 (485)
Q Consensus        79 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~  158 (485)
                      ...+...+...|.+++|..+|++..     -.....+.++.   ..+++++|.++.++..    +..+|..+..++...|
T Consensus      1052 ~~eIA~Iai~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aervn----~p~vWsqLAKAql~~G 1119 (1630)
T 1xi4_A         1052 APDIANIAISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERCN----EPAVWSQLAKAQLQKG 1119 (1630)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhcC----CHHHHHHHHHHHHhCC
Confidence            3446778889999999999999852     12222233332   7789999999999774    5789999999999999


Q ss_pred             cHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHH
Q 048394          159 MTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFY  238 (485)
Q Consensus       159 ~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  238 (485)
                      ++++|++.|.+.      -|...|..++.++.+.|++++|.++|...++..  ++....+.++.+|++.+++++...+. 
T Consensus      1120 ~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI- 1190 (1630)
T 1xi4_A         1120 MVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI- 1190 (1630)
T ss_pred             CHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH-
Confidence            999999999664      367789999999999999999999999888754  44444456999999999988644332 


Q ss_pred             HHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCCh
Q 048394          239 EMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTN  318 (485)
Q Consensus       239 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  318 (485)
                         +    .++...+..++..|...|++++|...|..+        ..|..++.++.+.|++++|.+.+++.     .+.
T Consensus      1191 ---~----~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA--------~ny~rLA~tLvkLge~q~AIEaarKA-----~n~ 1250 (1630)
T 1xi4_A         1191 ---N----GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV--------SNFGRLASTLVHLGEYQAAVDGARKA-----NST 1250 (1630)
T ss_pred             ---h----CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh--------hHHHHHHHHHHHhCCHHHHHHHHHHh-----CCH
Confidence               2    234556667999999999999999999984        58999999999999999999999987     457


Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHH
Q 048394          319 TSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMI  398 (485)
Q Consensus       319 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~  398 (485)
                      .+|..+..+|...|++..|......+     ..++..+..++..|.+.|.+++|..+++.....+   +-....|.-+..
T Consensus      1251 ~aWkev~~acve~~Ef~LA~~cgl~I-----iv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le---raH~gmftELai 1322 (1630)
T 1xi4_A         1251 RTWKEVCFACVDGKEFRLAQMCGLHI-----VVHADELEELINYYQDRGYFEELITMLEAALGLE---RAHMGMFTELAI 1322 (1630)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHhh-----hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC---hhHhHHHHHHHH
Confidence            89999999999999999998876643     2367777889999999999999999998887653   334455666666


Q ss_pred             HHHh--cccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhh------------cCCCCHH
Q 048394          399 YYLR--SRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKS------------LNCLDFS  464 (485)
Q Consensus       399 ~~~~--~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~------------~~~~~~~  464 (485)
                      .|++  -++..++++.|..-....+--...-+...|.-++..|.+.|+++.|....-.-..            ..+.|+.
T Consensus      1323 LyaKy~peklmEhlk~f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~kv~n~e 1402 (1630)
T 1xi4_A         1323 LYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVE 1402 (1630)
T ss_pred             HHHhCCHHHHHHHHHHHHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhcccccHH
Confidence            6654  4556666666654333200000112567899999999999999998732211111            1355888


Q ss_pred             HHHHHHHHHHHhC
Q 048394          465 AYSLLIKTYIAAG  477 (485)
Q Consensus       465 ~~~~l~~~~~~~g  477 (485)
                      .|...+..|....
T Consensus      1403 lyykai~Fyl~~~ 1415 (1630)
T 1xi4_A         1403 LYYRAIQFYLEFK 1415 (1630)
T ss_pred             HHHHHHHHHHhhC
Confidence            8888888888665

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.78  E-value=4.1e-17  Score=141.20  Aligned_cols=221  Identities=13%  Similarity=-0.022  Sum_probs=163.7

Q ss_pred             CcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHH
Q 048394          248 CRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQA  327 (485)
Q Consensus       248 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  327 (485)
                      .....+..++..+...|++++|...|+++.+..|.+...+..+...+...|++++|...++++....+.+...+..+...
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~  100 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNV  100 (243)
T ss_dssp             ---------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            34455666777777888888888888888777777788888888888888888888888888887777777888888888


Q ss_pred             HHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHH
Q 048394          328 LAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLD  407 (485)
Q Consensus       328 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  407 (485)
                      +...|++++|.+.++++.+.... +...+..+...+...|++++|...++++.+..   +.+...+..+...+...|+++
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRAGME-NGDLFYMLGTVLVKLEQPKLALPYLQRAVELN---ENDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHTCC-SHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC---CccHHHHHHHHHHHHHcCCHH
Confidence            88888888888888888877544 67778888888999999999999999888764   445677888888899999999


Q ss_pred             HHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhC
Q 048394          408 LALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAG  477 (485)
Q Consensus       408 ~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  477 (485)
                      +|...++++.+.     .+.+..++..+..++...|++++|...++++.+..|.++.++..+.......|
T Consensus       177 ~A~~~~~~~~~~-----~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~  241 (243)
T 2q7f_A          177 EALSQFAAVTEQ-----DPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHMLALHAKKLLGHHHH  241 (243)
T ss_dssp             HHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCHHHHHHHTC------
T ss_pred             HHHHHHHHHHHh-----CcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchHHHHHHHHHHHhhcc
Confidence            999999999887     44567788889999999999999999999999999999988888776655444

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.77  E-value=1.5e-16  Score=138.96  Aligned_cols=224  Identities=16%  Similarity=0.095  Sum_probs=117.2

Q ss_pred             HhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCC--Ccc----HHHH
Q 048394          144 RYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNI--SLD----NLTY  217 (485)
Q Consensus       144 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~p~----~~~~  217 (485)
                      ...|..+...+...|++++|...|++..+..  .+..+|..+..++...|++++|++.+++..+...  .|+    ..++
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            3456666666666777777777777766655  4666666666666667777777766666655310  011    3455


Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhc
Q 048394          218 IVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNT  297 (485)
Q Consensus       218 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  297 (485)
                      ..+...+...|++++|...++.+.+   ..|+.       ..+...|++++|...++.+....|.+...+..+...+...
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~---~~~~~-------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLT---EHRTA-------DILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH---HCCCH-------HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHh---cCchh-------HHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHh
Confidence            5555666666666666666666655   22232       2344445555555555555554444444555555555555


Q ss_pred             CChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHH
Q 048394          298 SNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFN  377 (485)
Q Consensus       298 ~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  377 (485)
                      |++++|...++++....+.+...+..+...+...|++++|...++.+.+..+. +...+..+..++...|++++|...|+
T Consensus       153 ~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~  231 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKATAQIAVKEYASALETLD  231 (258)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHH-HHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            55555555555554444444444444444444444444444444444443222 23334444444444444444444444


Q ss_pred             HHH
Q 048394          378 NAK  380 (485)
Q Consensus       378 ~~~  380 (485)
                      +..
T Consensus       232 ~a~  234 (258)
T 3uq3_A          232 AAR  234 (258)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            433

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.77  E-value=6.2e-17  Score=142.90  Aligned_cols=249  Identities=12%  Similarity=0.070  Sum_probs=165.2

Q ss_pred             hcCCHhHHHHHHHHHHhccC--CCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhH
Q 048394          226 HLNDIDGVERVFYEMCNECE--DKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAV  303 (485)
Q Consensus       226 ~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  303 (485)
                      ..|++++|+..++++.+...  .+.+..++..++.++...|++++|...|+++.+..|.+..+|..+...+...|++++|
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A   96 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAA   96 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHHH
Confidence            34667777777777766211  1224556667777777777777777777777776676777777777777777777777


Q ss_pred             HHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcc
Q 048394          304 NRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRA  383 (485)
Q Consensus       304 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  383 (485)
                      ...++++....+.+..++..+...+...|++++|.+.++++.+..+.  .......+..+...|++++|...+++.....
T Consensus        97 ~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~--~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~  174 (275)
T 1xnf_A           97 YEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPN--DPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  174 (275)
T ss_dssp             HHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC--ChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            77777777776666777777777777777777777777777765432  2233333344455678888888887776653


Q ss_pred             cccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCH
Q 048394          384 NASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDF  463 (485)
Q Consensus       384 ~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~  463 (485)
                         +++...+ .++..+...++.++|+..++++....... .+.+...+..+...+...|++++|...++++.+..|.+.
T Consensus       175 ---~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~  249 (275)
T 1xnf_A          175 ---DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSL-AEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNF  249 (275)
T ss_dssp             ---CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHH-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTC
T ss_pred             ---CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccc-cccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhH
Confidence               3333333 35566667777778888887776543110 001246677777888888888888888888888777664


Q ss_pred             HHHHHHHHHHHHhCCCcchhc
Q 048394          464 SAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       464 ~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      ..+   +.++...|++++|++
T Consensus       250 ~~~---~~~~~~l~~~~~a~~  267 (275)
T 1xnf_A          250 VEH---RYALLELSLLGQDQD  267 (275)
T ss_dssp             HHH---HHHHHHHHHHHHC--
T ss_pred             HHH---HHHHHHHHHHHhhHH
Confidence            433   556667777777764

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.77  E-value=9.6e-17  Score=136.03  Aligned_cols=199  Identities=16%  Similarity=0.063  Sum_probs=126.5

Q ss_pred             CccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHH
Q 048394          211 SLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFL  290 (485)
Q Consensus       211 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  290 (485)
                      +++...+..+...+.+.|++++|...|+...+  ..|.+...+..+..++.+.|++++|...++++.+..|.+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALK--ENPQDPEALYWLARTQLKLGLVNPALENGKTLVARTPRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHH
Confidence            34555666667777777777777777777776  5666677777777777777777777777777777777777777777


Q ss_pred             HHHHHhc-----------CChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHH
Q 048394          291 ISLYCNT-----------SNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVI  359 (485)
Q Consensus       291 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  359 (485)
                      ..++...           |++++|...+++..+..|.+...+..+..++...|++++|+..|++..+..  .+...+..+
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~l  157 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHH
Confidence            7777777           777777777777666666666666666666777777777777777666665  366666666


Q ss_pred             HHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHH
Q 048394          360 IRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAA  416 (485)
Q Consensus       360 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  416 (485)
                      ..+|...|++++|...|++..+..   +.+...+..+...+...|++++|+..+++.
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~~---P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQA---PKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHS---TTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC---CCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            666777777777777777666653   334455556666666667777776666654

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.76  E-value=2.7e-19  Score=174.84  Aligned_cols=150  Identities=16%  Similarity=0.108  Sum_probs=124.8

Q ss_pred             HhHHHHHHHHHHhcCcHHHHHHHHHHHHh---CCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHH
Q 048394          144 RYTYGALLNCYCKELMTERALALFEKMDE---LKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVW  220 (485)
Q Consensus       144 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~---~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  220 (485)
                      ..+||+||++|++.|++++|.++|++|.+   .|+.||+.|||+||.+|++.|++++|.++|++|.+.|+.||..||+++
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            45899999999999999999999988764   589999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCH-hHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHh-cCC-----CChHHHHHHHHH
Q 048394          221 MQSYSHLNDI-DGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEE-MKP-----RDRKAYHFLISL  293 (485)
Q Consensus       221 ~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~-----~~~~~~~~l~~~  293 (485)
                      |.++++.|+. ++|.++|++|.+ .|+.||..+|+.++....+.+    .++..+++.. ..|     +...+...|.+.
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 LQCMGRQDQDAGTIERCLEQMSQ-EGLKLQALFTAVLLSEEDRAT----VLKAVHKVKPTFSLPPQLPPPVNTSKLLRDV  281 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHH-HTCCSHHHHHHSCCCHHHHHH----HHHHHGGGCCCCCCCCCCCCCCCCCTTTHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHH-cCCCCChhhcccccChhhHHH----HHHHHHHhCcccCCCCCCcccccchHHHHHH
Confidence            9999999985 789999999999 899999999999987665543    3333333322 111     224455566677


Q ss_pred             HHhcC
Q 048394          294 YCNTS  298 (485)
Q Consensus       294 ~~~~~  298 (485)
                      |.+.+
T Consensus       282 ~s~d~  286 (1134)
T 3spa_A          282 YAKDG  286 (1134)
T ss_dssp             HCCCS
T ss_pred             HccCC
Confidence            77655

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.76  E-value=9e-16  Score=130.90  Aligned_cols=215  Identities=11%  Similarity=-0.019  Sum_probs=166.9

Q ss_pred             CCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHH
Q 048394          247 KCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQ  326 (485)
Q Consensus       247 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  326 (485)
                      +.+...+..++..+...|++++|...++++.+..|.+...+..+...+...|++++|...++++....+.+..++..++.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~   84 (225)
T 2vq2_A            5 NQVSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGW   84 (225)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHH
Confidence            34556667777778888888888888888777777777788888888888888888888888887777767777788888


Q ss_pred             HHHhc-CChhHHHHHHHHHHHccCCC-CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcc
Q 048394          327 ALAKL-NAIDILKQCFEEWESRCSSY-DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSR  404 (485)
Q Consensus       327 ~~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  404 (485)
                      .+... |++++|...++.+.+.+..| +...+..+...+...|++++|...++++.+..   +.+...+..+...+...|
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~la~~~~~~~  161 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ---PQFPPAFKELARTKMLAG  161 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS---TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCchHHHHHHHHHHHcC
Confidence            88888 88888888888887732222 35677778888888888888888888888764   334667778888888899


Q ss_pred             cHHHHHHHHHHHHHHhhhcCCC-ccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHH
Q 048394          405 QLDLALNEMEAALSEAKQFHWR-PMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLL  469 (485)
Q Consensus       405 ~~~~A~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  469 (485)
                      ++++|...++++....     + .+...+..+...+...|+.+.|..+++.+.+..|.++.....+
T Consensus       162 ~~~~A~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  222 (225)
T 2vq2_A          162 QLGDADYYFKKYQSRV-----EVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANFPYSEELQTVL  222 (225)
T ss_dssp             CHHHHHHHHHHHHHHH-----CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-----CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHh
Confidence            9999999999888874     3 4566677777777888889999888888888888887776554

>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=99.76  E-value=5.1e-16  Score=135.12  Aligned_cols=209  Identities=13%  Similarity=0.004  Sum_probs=123.4

Q ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHh
Q 048394          251 TTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAK  330 (485)
Q Consensus       251 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  330 (485)
                      ..+..++..+...|++++|...++++.+..|.+...+..+...+...|++++|...++++....+.+...+..+...+..
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~  117 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYE  117 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHH
Confidence            34444555555555555555555555554454555555555555555555555555555555554455555555555666


Q ss_pred             cCChhHHHHHHHHHHHccCCC-CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHH
Q 048394          331 LNAIDILKQCFEEWESRCSSY-DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLA  409 (485)
Q Consensus       331 ~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  409 (485)
                      .|++++|.+.++++.+.+..| +...+..+...+...|++++|...++++.+..   +.+...+..+...|...|++++|
T Consensus       118 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          118 QKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN---RNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             TTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---SCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC---cccHHHHHHHHHHHHHcCCHHHH
Confidence            666666666666555421222 34455556666666666666666666666553   23345566666666677777777


Q ss_pred             HHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHH
Q 048394          410 LNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYS  467 (485)
Q Consensus       410 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  467 (485)
                      ...++++.+.     .+.+...+..+...+...|++++|.++++++.+..|.++....
T Consensus       195 ~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  247 (252)
T 2ho1_A          195 RQYYDLFAQG-----GGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGSLEYQE  247 (252)
T ss_dssp             HHHHHHHHTT-----SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSHHHHH
T ss_pred             HHHHHHHHHh-----CcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCHHHHH
Confidence            7777776664     3345556666666666777777777777777776666665544

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.75  E-value=2.8e-16  Score=148.60  Aligned_cols=347  Identities=12%  Similarity=0.068  Sum_probs=239.5

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCH---HHHHHHHHhhcccCCCHhHHHHHHHHHHhc
Q 048394           81 YCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGI---AAAEKYFNGLSEYAKNRYTYGALLNCYCKE  157 (485)
Q Consensus        81 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~---~~a~~~~~~~~~~~~~~~~~~~li~~~~~~  157 (485)
                      .+...+.+.|++++|+++|++..+.|   +...+..+...|...|+.   ++|.++|++..+.  +...+..|...+...
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~--~~~A~~~Lg~~~~~~   82 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT--SPRAQARLGRLLAAK   82 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC------------------------------CHHHHHHHHHTC
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC--CHHHHHHHHHHHHhC
Confidence            35667788999999999999998876   334444566666677877   8999999998874  667777777755555


Q ss_pred             C-----cHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCc---ccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCC
Q 048394          158 L-----MTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQP---EKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLND  229 (485)
Q Consensus       158 ~-----~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~---~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  229 (485)
                      +     ++++|+..|++..+.|.   ...+..|...|...+..   .++.+.+......|   +......+...|...+.
T Consensus        83 ~~~~~~~~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~  156 (452)
T 3e4b_A           83 PGATEAEHHEAESLLKKAFANGE---GNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGT  156 (452)
T ss_dssp             --CCHHHHHHHHHHHHHHHHTTC---SSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTC
T ss_pred             CCCCCcCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCC
Confidence            4     88999999999998763   34778888888776654   44555555555555   34456667777888775


Q ss_pred             HhHHHH----HHHHHHhccCCCCcHHHHHHHHHHHHhcc---cHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhc----C
Q 048394          230 IDGVER----VFYEMCNECEDKCRWTTYSNLASIYVKAE---LFEKAELALKKLEEMKPRDRKAYHFLISLYCNT----S  298 (485)
Q Consensus       230 ~~~a~~----~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~  298 (485)
                      ++++..    +++....  +.   +..+..+..+|...|   +.++|+..|++..+..+++...+..+...|...    +
T Consensus       157 ~~~~~~~a~~~~~~a~~--~~---~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~  231 (452)
T 3e4b_A          157 YDQHLDDVERICKAALN--TT---DICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTP  231 (452)
T ss_dssp             GGGGHHHHHHHHHHHTT--TC---TTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSC
T ss_pred             cccCHHHHHHHHHHHHc--CC---HHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCC
Confidence            555444    4444433  22   237778999999999   999999999999998888888878888888765    7


Q ss_pred             ChhhHHHHHHHhhhcCCCChhhHHHHHHH-H--HhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcC-----cHH
Q 048394          299 NLDAVNRVWGILKSTFPPTNTSYLVLLQA-L--AKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKD-----MYE  370 (485)
Q Consensus       299 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~  370 (485)
                      ++++|...|++..   +.+...+..+... +  ...++.++|.+.|++..+.|   +...+..|...|. .|     +++
T Consensus       232 d~~~A~~~~~~aa---~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~  304 (452)
T 3e4b_A          232 DEKTAQALLEKIA---PGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAK  304 (452)
T ss_dssp             CHHHHHHHHHHHG---GGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHH
T ss_pred             CHHHHHHHHHHHc---CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHH
Confidence            8999999999987   3477777788777 4  46899999999999998876   6777777888887 45     999


Q ss_pred             HHHHHHHHHHhcccccCCchhHHHHHHHHHHh----cccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhh----c
Q 048394          371 EAALIFNNAKKRANASARFFKSRESFMIYYLR----SRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEE----E  442 (485)
Q Consensus       371 ~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~  442 (485)
                      +|...|++.. .|   .|  ..+..|...|..    ..++++|..+|++..+.|    .   ......|...|..    .
T Consensus       305 ~A~~~~~~Aa-~g---~~--~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g----~---~~A~~~Lg~~y~~G~g~~  371 (452)
T 3e4b_A          305 AAEAHFEKAV-GR---EV--AADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG----Q---NSADFAIAQLFSQGKGTK  371 (452)
T ss_dssp             HHHHHHHTTT-TT---CH--HHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT----C---TTHHHHHHHHHHSCTTBC
T ss_pred             HHHHHHHHHh-CC---CH--HHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC----h---HHHHHHHHHHHHhCCCCC
Confidence            9999999887 54   22  455556666655    349999999999998875    2   3344455555543    4


Q ss_pred             CChhhHHHHHHHHhhcCCCCH
Q 048394          443 KDVDGAEEFCKVLKSLNCLDF  463 (485)
Q Consensus       443 ~~~~~A~~~~~~~~~~~~~~~  463 (485)
                      +|.++|..+|++..+.++++.
T Consensus       372 ~d~~~A~~~~~~A~~~g~~~a  392 (452)
T 3e4b_A          372 PDPLNAYVFSQLAKAQDTPEA  392 (452)
T ss_dssp             CCHHHHHHHHHHHHTTCCHHH
T ss_pred             CCHHHHHHHHHHHHHCCCHHH
Confidence            689999999999998775443

>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=1e-15  Score=134.86  Aligned_cols=233  Identities=13%  Similarity=0.121  Sum_probs=119.8

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCcc--HHHHHHHHHHH
Q 048394          147 YGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLD--NLTYIVWMQSY  224 (485)
Q Consensus       147 ~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~  224 (485)
                      +......+...|++++|+..|++..+.... +...+..+..++...|++++|++.+++..+.+..|+  ...|..+...+
T Consensus         6 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~   84 (272)
T 3u4t_A            6 EFRYADFLFKNNNYAEAIEVFNKLEAKKYN-SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKIL   84 (272)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHTTCC-CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHH
Confidence            334444555555666666666555554322 333555555555555555555555555555221111  12245555555


Q ss_pred             HhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHH
Q 048394          225 SHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVN  304 (485)
Q Consensus       225 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  304 (485)
                      ...|++++|.+.|+...+  ..+.+..++..+..+|...|++++|...+++..+..|.+...+..+...+...+++++|.
T Consensus        85 ~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~  162 (272)
T 3u4t_A           85 MKKGQDSLAIQQYQAAVD--RDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKAD  162 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHH--HSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcccHHHHHHHHHHHHh--cCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555555  233344555555555555566666665555555555555555555552222333555555


Q ss_pred             HHHHHhhhcCCCChhhHHHHHHHHHhcCC---hhHHHHHHHHHHHcc-CCCC------HHhHHHHHHHHHhcCcHHHHHH
Q 048394          305 RVWGILKSTFPPTNTSYLVLLQALAKLNA---IDILKQCFEEWESRC-SSYD------MRLADVIIRAYLQKDMYEEAAL  374 (485)
Q Consensus       305 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~-~~~~------~~~~~~l~~~~~~~~~~~~A~~  374 (485)
                      ..++++.+..+.+...+..+...+...|+   .++|...++++.+.. ..|+      ..+|..+...|...|++++|..
T Consensus       163 ~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  242 (272)
T 3u4t_A          163 SSFVKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADA  242 (272)
T ss_dssp             HHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            55555555555555555555555555555   555555555544331 0111      1344445555555555666665


Q ss_pred             HHHHHHhc
Q 048394          375 IFNNAKKR  382 (485)
Q Consensus       375 ~~~~~~~~  382 (485)
                      .|+++.+.
T Consensus       243 ~~~~al~~  250 (272)
T 3u4t_A          243 AWKNILAL  250 (272)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhc
Confidence            55555554

>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=99.73  E-value=2.2e-15  Score=138.09  Aligned_cols=244  Identities=8%  Similarity=-0.057  Sum_probs=128.1

Q ss_pred             HHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCC-HhHHHHHHHHHHhccCCCCcHHHHHHHHHHHH
Q 048394          183 NNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLND-IDGVERVFYEMCNECEDKCRWTTYSNLASIYV  261 (485)
Q Consensus       183 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  261 (485)
                      +.+...+...|++++|++.+++.+... +-+...|..+..++...|+ +++|+..|+++..  ..+.+...|..+..++.
T Consensus       101 ~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~--l~P~~~~a~~~~g~~~~  177 (382)
T 2h6f_A          101 DYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIE--EQPKNYQVWHHRRVLVE  177 (382)
T ss_dssp             HHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHH
Confidence            333333444444444444444444321 1123334444444444443 5555555555554  34444555555555555


Q ss_pred             hcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHh-cCChhHH---
Q 048394          262 KAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAK-LNAIDIL---  337 (485)
Q Consensus       262 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a---  337 (485)
                      ..|++++|+..|+++....|.+..+|..+..++...|++++|+..++++.+..+.+...|+.+..++.. .|..++|   
T Consensus       178 ~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~~~~a~~~lg~~l~~l~~~~~eA~~~  257 (382)
T 2h6f_A          178 WLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAVLE  257 (382)
T ss_dssp             HHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHHHHH
T ss_pred             HccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCcchHHHHH
Confidence            555555555555555555555555555555555555556666666665555555555555555555555 3333444   


Q ss_pred             --HHHHHHHHHccCCCCHHhHHHHHHHHHhcC--cHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcc---------
Q 048394          338 --KQCFEEWESRCSSYDMRLADVIIRAYLQKD--MYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSR---------  404 (485)
Q Consensus       338 --~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---------  404 (485)
                        ++.+++..+..+. +...|+.+..++...|  ++++|...+.++ +.+   ..+...+..+...|.+.|         
T Consensus       258 ~el~~~~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~---p~~~~al~~La~~~~~~~~~~~~~~~~  332 (382)
T 2h6f_A          258 REVQYTLEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS---HSSPYLIAFLVDIYEDMLENQCDNKED  332 (382)
T ss_dssp             HHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT---CCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             HHHHHHHHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC---CCCHHHHHHHHHHHHHHhcccccchHH
Confidence              3556666655444 5556666666666655  466666666665 321   334455666666666553         


Q ss_pred             cHHHHHHHHHHH-HHHhhhcCCCccHHHHHHHHHHH
Q 048394          405 QLDLALNEMEAA-LSEAKQFHWRPMQVTVDTFFRFF  439 (485)
Q Consensus       405 ~~~~A~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~  439 (485)
                      ..++|+++|+++ .+.     .+.....|..+...+
T Consensus       333 ~~~~A~~~~~~l~~~~-----DP~r~~~w~~~~~~l  363 (382)
T 2h6f_A          333 ILNKALELCEILAKEK-----DTIRKEYWRYIGRSL  363 (382)
T ss_dssp             HHHHHHHHHHHHHHTT-----CGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHh-----CchhHHHHHHHHHHH
Confidence            246777777776 443     222344555444443

>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=99.73  E-value=3.7e-15  Score=129.67  Aligned_cols=201  Identities=10%  Similarity=-0.011  Sum_probs=151.5

Q ss_pred             HHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHH
Q 048394          214 NLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISL  293 (485)
Q Consensus       214 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  293 (485)
                      ...+..+...+...|++++|...++.+.+  ..+.+...+..++.+|...|++++|...++++.+..|.+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALE--IDPSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHh--cCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHH
Confidence            45566666777777777777777777776  3455667777777788888888888888888777667677778888888


Q ss_pred             HHhcCChhhHHHHHHHhhh--cCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHH
Q 048394          294 YCNTSNLDAVNRVWGILKS--TFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEE  371 (485)
Q Consensus       294 ~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  371 (485)
                      +...|++++|...++++..  ..+.+...+..+...+...|++++|.+.++++.+..+. +...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRN-QPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCCHHH
Confidence            8888888888888887776  33336667777788888888888888888887776544 56777778888888888888


Q ss_pred             HHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHh
Q 048394          372 AALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEA  420 (485)
Q Consensus       372 A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  420 (485)
                      |...++++.+..   +.+...+..+...+...|++++|.++++++.+..
T Consensus       194 A~~~~~~~~~~~---~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          194 ARQYYDLFAQGG---GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHHTTS---CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhC---cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            888888877653   4455667777777788888888888888887763

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.73  E-value=3.2e-16  Score=146.65  Aligned_cols=307  Identities=13%  Similarity=0.014  Sum_probs=182.1

Q ss_pred             CHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCC----hhhHHHHHHHHHhCCCcccHHHHHHHHHHc----CCCc-c
Q 048394          143 NRYTYGALLNCYCKELMTERALALFEKMDELKFLGN----TVAFNNLSTMYLRLGQPEKVRPLVNQMKQR----NISL-D  213 (485)
Q Consensus       143 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~p-~  213 (485)
                      ....+......+...|++++|...|++..+.+.. +    ..+|..+...+...|++++|...+++....    +..| .
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            4445556666667777777777777777665322 2    234566666666777777777777666442    1111 1


Q ss_pred             HHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCc----HHHHHHHHHHHHhccc--------------------HHHH
Q 048394          214 NLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCR----WTTYSNLASIYVKAEL--------------------FEKA  269 (485)
Q Consensus       214 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~--------------------~~~A  269 (485)
                      ..++..+...+...|++++|...+++..+......+    ..++..+...|...|+                    +++|
T Consensus        87 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A  166 (406)
T 3sf4_A           87 AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAA  166 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHH
Confidence            334555555666666666666666655541111111    2244555555555555                    4444


Q ss_pred             HHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcC-CC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048394          270 ELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTF-PP-TNTSYLVLLQALAKLNAIDILKQCFEEWESR  347 (485)
Q Consensus       270 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  347 (485)
                      ...+++....                           +.   ..+ .+ ...++..+...+...|++++|.+.+++..+.
T Consensus       167 ~~~~~~al~~---------------------------~~---~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  216 (406)
T 3sf4_A          167 VDFYEENLSL---------------------------VT---ALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLI  216 (406)
T ss_dssp             HHHHHHHHHH---------------------------HH---HTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH---------------------------HH---hccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            4444443321                           00   000 01 2345556666666667777777666665543


Q ss_pred             cCC-CC----HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCc----hhHHHHHHHHHHhcccHHHHHHHHHHHHH
Q 048394          348 CSS-YD----MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARF----FKSRESFMIYYLRSRQLDLALNEMEAALS  418 (485)
Q Consensus       348 ~~~-~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  418 (485)
                      ... ++    ..++..+...|...|++++|...+++..+.... .++    ..++..+...|...|++++|...+++...
T Consensus       217 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  295 (406)
T 3sf4_A          217 AKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQ-LKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLA  295 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh-CcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            211 11    236667777888888888888888877654210 111    34566777788888888888888888877


Q ss_pred             HhhhcCCCcc-HHHHHHHHHHHhhcCChhhHHHHHHHHhhcCC------CCHHHHHHHHHHHHHhCCCcc
Q 048394          419 EAKQFHWRPM-QVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNC------LDFSAYSLLIKTYIAAGKLAS  481 (485)
Q Consensus       419 ~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~------~~~~~~~~l~~~~~~~g~~~~  481 (485)
                      .....+..+. ..++..+...+...|++++|...++++.+..+      ....++..++.++...|+...
T Consensus       296 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  365 (406)
T 3sf4_A          296 IAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSYS  365 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhHH
Confidence            6432211111 45667777888888888888888888877532      246678888888888887654

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.72  E-value=7.7e-16  Score=133.12  Aligned_cols=200  Identities=15%  Similarity=0.100  Sum_probs=114.5

Q ss_pred             HHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHH
Q 048394          214 NLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISL  293 (485)
Q Consensus       214 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  293 (485)
                      ...|..+...+...|++++|...|+++.+  ..+.+...+..++.++...|++++|...++++.+..|.+..++..+...
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~  100 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIE--ENKEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNV  100 (243)
T ss_dssp             -------------------CCTTHHHHHT--TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            33444455555566666666666666655  3444555666666666666666666666666666555566666666666


Q ss_pred             HHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHH
Q 048394          294 YCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAA  373 (485)
Q Consensus       294 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  373 (485)
                      +...|++++|...++++.+..+.+...+..+...+...|++++|.+.++++.+..+. +...+..+...+...|++++|.
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~  179 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRAGMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNEN-DTEARFQFGMCLANEGMLDEAL  179 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHcCCHHHHH
Confidence            666666666666666666665555566666666666666666666666666655433 4556666666666667777777


Q ss_pred             HHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          374 LIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       374 ~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      ..|+++.+..   +.+..++..+...|...|++++|...++++.+.
T Consensus       180 ~~~~~~~~~~---~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          180 SQFAAVTEQD---PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHC---TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC---cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            7766666553   334455666666666777777777777776665

>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=7e-15  Score=125.35  Aligned_cols=201  Identities=10%  Similarity=0.001  Sum_probs=156.0

Q ss_pred             cHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHH
Q 048394          213 DNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLIS  292 (485)
Q Consensus       213 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  292 (485)
                      +...+..+...+...|++++|.+.++.+.+  ..+.+...+..++.+|...|++++|...++++....|.+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALK--SDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--hCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHH
Confidence            455666777778888888888888888777  455567777778888888888888888888888777777888888888


Q ss_pred             HHHhc-CChhhHHHHHHHhhh--cCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcH
Q 048394          293 LYCNT-SNLDAVNRVWGILKS--TFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMY  369 (485)
Q Consensus       293 ~~~~~-~~~~~a~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  369 (485)
                      .+... |++++|...++++..  ..+.+...+..+...+...|++++|...++++.+..+. +...+..+...+...|++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQ-FPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CchHHHHHHHHHHHcCCH
Confidence            88888 888888888888877  22234677778888888888888888888888776544 577777888888888888


Q ss_pred             HHHHHHHHHHHhcccccC-CchhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          370 EEAALIFNNAKKRANASA-RFFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       370 ~~A~~~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      ++|..+++++.+..   + .+...+..+...+...|+.++|..+++.+...
T Consensus       164 ~~A~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          164 GDADYYFKKYQSRV---EVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC---CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            88888888887764   3 56666777777778888888888888888765

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.72  E-value=1.1e-15  Score=143.16  Aligned_cols=308  Identities=13%  Similarity=0.013  Sum_probs=203.0

Q ss_pred             CChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCC-----HhHHHHHHHHHHhcCcHHHHHHHHHHHHhC----CCCC-C
Q 048394          109 FSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKN-----RYTYGALLNCYCKELMTERALALFEKMDEL----KFLG-N  178 (485)
Q Consensus       109 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-----~~~~~~li~~~~~~~~~~~A~~~~~~m~~~----~~~p-~  178 (485)
                      .....+......+...|++++|...|++..+..|+     ..+|..+...+...|++++|...|++....    +..| .
T Consensus         7 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~   86 (406)
T 3sf4_A            7 ASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGE   86 (406)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHH
Confidence            44556667788889999999999999999884443     357888999999999999999999987543    2112 2


Q ss_pred             hhhHHHHHHHHHhCCCcccHHHHHHHHHHc----CCCc-cHHHHHHHHHHHHhcCC--------------------HhHH
Q 048394          179 TVAFNNLSTMYLRLGQPEKVRPLVNQMKQR----NISL-DNLTYIVWMQSYSHLND--------------------IDGV  233 (485)
Q Consensus       179 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~~~--------------------~~~a  233 (485)
                      ..++..+...+...|++++|...+++..+.    +..+ ...++..+...|...|+                    +++|
T Consensus        87 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A  166 (406)
T 3sf4_A           87 AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAA  166 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHH
Confidence            456788889999999999999999998764    1111 14477788888999999                    8888


Q ss_pred             HHHHHHHHhcc---C-CCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHH
Q 048394          234 ERVFYEMCNEC---E-DKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGI  309 (485)
Q Consensus       234 ~~~~~~~~~~~---~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  309 (485)
                      ...++......   + .+....++..+...|...|++++|...+++..+..+....                        
T Consensus       167 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~------------------------  222 (406)
T 3sf4_A          167 VDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGD------------------------  222 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTC------------------------
T ss_pred             HHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCC------------------------
Confidence            88887765411   1 1112335566666677777777777776666552111100                        


Q ss_pred             hhhcCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCC-C----CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcc
Q 048394          310 LKSTFPP-TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSS-Y----DMRLADVIIRAYLQKDMYEEAALIFNNAKKRA  383 (485)
Q Consensus       310 ~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  383 (485)
                           .. ...++..+...+...|++++|...+++..+.... .    ...++..+...|...|++++|...+++..+..
T Consensus       223 -----~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  297 (406)
T 3sf4_A          223 -----KAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIA  297 (406)
T ss_dssp             -----HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             -----cHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHH
Confidence                 00 1223444555555555555555555554432111 0    14466677778888888888888888776542


Q ss_pred             cccCC----chhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCc-cHHHHHHHHHHHhhcCChh
Q 048394          384 NASAR----FFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRP-MQVTVDTFFRFFEEEKDVD  446 (485)
Q Consensus       384 ~~~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~  446 (485)
                      .. .+    ...++..+...|...|++++|...+++..+.....+..+ ...++..+...+...|+..
T Consensus       298 ~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  364 (406)
T 3sf4_A          298 QE-LNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSY  364 (406)
T ss_dssp             HH-TTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             Hh-cCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhH
Confidence            10 11    144667778888889999999999998877643322222 2445666667777777653

>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=99.71  E-value=1e-12  Score=128.45  Aligned_cols=415  Identities=8%  Similarity=0.005  Sum_probs=293.8

Q ss_pred             cHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCC---HHHHHHHHH
Q 048394           59 SVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNG---IAAAEKYFN  135 (485)
Q Consensus        59 ~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~  135 (485)
                      +....++.-+.. .|-|...+..++..+.+.+.++.+..+|+.+...- +.+...|...+..-.+.|+   ++.+.++|+
T Consensus        50 d~i~~lE~~l~~-np~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~f-P~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfe  127 (679)
T 4e6h_A           50 DVIGKLNDMIEE-QPTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRF-PLMANIWCMRLSLEFDKMEELDAAVIEPVLA  127 (679)
T ss_dssp             CHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC--CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHH-CcCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhhCCcchHHHHHHHHH
Confidence            333344444443 36799999999999999999999999999998874 5667788888888888888   999999999


Q ss_pred             hhcccC---CCHhHHHHHHHHHHhcCcH--------HHHHHHHHHHHh-CCC-CCC-hhhHHHHHHHHHh---------C
Q 048394          136 GLSEYA---KNRYTYGALLNCYCKELMT--------ERALALFEKMDE-LKF-LGN-TVAFNNLSTMYLR---------L  192 (485)
Q Consensus       136 ~~~~~~---~~~~~~~~li~~~~~~~~~--------~~A~~~~~~m~~-~~~-~p~-~~~~~~l~~~~~~---------~  192 (485)
                      +.....   |++..|...+....+.++.        +...++|+.... .|. .|+ ...|...+.....         .
T Consensus       128 Ral~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq  207 (679)
T 4e6h_A          128 RCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQ  207 (679)
T ss_dssp             HHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHH
T ss_pred             HHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHH
Confidence            999944   9999999888766655543        345578887654 455 444 4577777765442         3


Q ss_pred             CCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHh-------------cCCHhHHHHHHHHHHhcc-C----CC-------
Q 048394          193 GQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSH-------------LNDIDGVERVFYEMCNEC-E----DK-------  247 (485)
Q Consensus       193 g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~-------------~~~~~~a~~~~~~~~~~~-~----~~-------  247 (485)
                      ++++.+..+|+..+......-..+|......-..             ..+++.|...+.++.... +    .+       
T Consensus       208 ~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~  287 (679)
T 4e6h_A          208 QRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQAT  287 (679)
T ss_dssp             HHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCC
T ss_pred             hHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccch
Confidence            3567788899988853211122333222211111             122344555554432200 1    11       


Q ss_pred             ----C-----c---HHHHHHHHHHHHhcc-------cHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHH-HHH
Q 048394          248 ----C-----R---WTTYSNLASIYVKAE-------LFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVN-RVW  307 (485)
Q Consensus       248 ----~-----~---~~~~~~l~~~~~~~~-------~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~  307 (485)
                          |     +   ...|...+..--..+       ..+.+..+|+++....|.....|...+..+...|+.++|. .+|
T Consensus       288 ~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~p~~~~lW~~ya~~~~~~~~~~~a~r~il  367 (679)
T 4e6h_A          288 ESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHVCFAPEIWFNMANYQGEKNTDSTVITKYL  367 (679)
T ss_dssp             TTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSCCTTHHHHHH
T ss_pred             hccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence                1     0   133444444322222       2345667899988888889999999999999999999997 999


Q ss_pred             HHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccC---------CC------------CHHhHHHHHHHHHhc
Q 048394          308 GILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCS---------SY------------DMRLADVIIRAYLQK  366 (485)
Q Consensus       308 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---------~~------------~~~~~~~l~~~~~~~  366 (485)
                      ++.....|.+...+...+....+.|+++.|.++|+.+.+...         .|            ...+|...+....+.
T Consensus       368 ~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~  447 (679)
T 4e6h_A          368 KLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRI  447 (679)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHc
Confidence            999987777888888888889999999999999999876420         13            234688888888888


Q ss_pred             CcHHHHHHHHHHHHhc-ccccCCchhHHHHHHHHHHhc-ccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCC
Q 048394          367 DMYEEAALIFNNAKKR-ANASARFFKSRESFMIYYLRS-RQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKD  444 (485)
Q Consensus       367 ~~~~~A~~~~~~~~~~-~~~~~p~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  444 (485)
                      |+.+.|..+|.++.+. +   ......|...+..-.+. ++.+.|..+|+..++.     ++.+...|..++......|+
T Consensus       448 ~~l~~AR~vf~~A~~~~~---~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-----~p~~~~~w~~y~~fe~~~~~  519 (679)
T 4e6h_A          448 QGLAASRKIFGKCRRLKK---LVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-----FATDGEYINKYLDFLIYVNE  519 (679)
T ss_dssp             HCHHHHHHHHHHHHHTGG---GSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-----HTTCHHHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHhcC---CCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-----CCCchHHHHHHHHHHHhCCC
Confidence            9999999999999876 3   22334443333333344 4589999999999998     55677788888888888999


Q ss_pred             hhhHHHHHHHHhhcCCC---CHHHHHHHHHHHHHhCCCcchh
Q 048394          445 VDGAEEFCKVLKSLNCL---DFSAYSLLIKTYIAAGKLASDM  483 (485)
Q Consensus       445 ~~~A~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~  483 (485)
                      .+.|..+|+++++..|+   ....|..++..-.+.|+.+.+.
T Consensus       520 ~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~  561 (679)
T 4e6h_A          520 ESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVR  561 (679)
T ss_dssp             HHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999998773   5678999999999999887654

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.69  E-value=4.7e-15  Score=130.78  Aligned_cols=248  Identities=13%  Similarity=-0.026  Sum_probs=149.8

Q ss_pred             CCCcccHHHHHHHHHHcCC---CccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHH
Q 048394          192 LGQPEKVRPLVNQMKQRNI---SLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEK  268 (485)
Q Consensus       192 ~g~~~~a~~~~~~~~~~~~---~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  268 (485)
                      .|++++|+..|+++.+...   +.+..++..+...+...|++++|...|+.+.+  ..+.+..++..++.+|...|++++
T Consensus        18 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           18 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALA--IRPDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHTTCHHH
T ss_pred             cchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHccCHHH
Confidence            4556666666666665421   11344556666666667777777777776666  344556666677777777777777


Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHcc
Q 048394          269 AELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRC  348 (485)
Q Consensus       269 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  348 (485)
                      |...++++.+..|.+..++..+..++...|++++|...++++....+.+..... .+..+...|++++|...+.......
T Consensus        96 A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~A~~~~~~~~~~~  174 (275)
T 1xnf_A           96 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSL-WLYLAEQKLDEKQAKEVLKQHFEKS  174 (275)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH-HHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHHH-HHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            777777777766666677777777777777777777777777666655432222 2233355577777777776666553


Q ss_pred             CCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCC-chhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCc
Q 048394          349 SSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASAR-FFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRP  427 (485)
Q Consensus       349 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  427 (485)
                      .. +...+. ++..+...++.++|...+++..+......| +...+..+...|...|++++|...|++++...     +.
T Consensus       175 ~~-~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-----p~  247 (275)
T 1xnf_A          175 DK-EQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN-----VH  247 (275)
T ss_dssp             CC-CSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CT
T ss_pred             Cc-chHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-----ch
Confidence            32 333333 556666667777777777776654210011 14566677777777788888888887777652     11


Q ss_pred             cHHHHHHHHHHHhhcCChhhHHHHH
Q 048394          428 MQVTVDTFFRFFEEEKDVDGAEEFC  452 (485)
Q Consensus       428 ~~~~~~~l~~~~~~~~~~~~A~~~~  452 (485)
                      +...   ...++...|++++|.+.+
T Consensus       248 ~~~~---~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          248 NFVE---HRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             TCHH---HHHHHHHHHHHHHC----
T ss_pred             hHHH---HHHHHHHHHHHHhhHHHH
Confidence            2222   234555666777766554

>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=99.69  E-value=1.4e-13  Score=121.18  Aligned_cols=229  Identities=12%  Similarity=0.016  Sum_probs=153.6

Q ss_pred             HHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHh----cccHHHHHHHHHHHHhcCCCChHHHHH
Q 048394          214 NLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVK----AELFEKAELALKKLEEMKPRDRKAYHF  289 (485)
Q Consensus       214 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~  289 (485)
                      ..++..+...+...|++++|.+.|+...+    +.+...+..+...|..    .+++++|...|++..+..  +..++..
T Consensus         6 ~~a~~~lg~~~~~~~~~~~A~~~~~~a~~----~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~--~~~a~~~   79 (273)
T 1ouv_A            6 PKELVGLGAKSYKEKDFTQAKKYFEKACD----LKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN--YSNGCHL   79 (273)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHH
T ss_pred             hHHHHHHHHHHHhCCCHHHHHHHHHHHHH----CCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC--CHHHHHH
Confidence            34455555566666666666666666655    1233455556666666    666666666666665532  4566666


Q ss_pred             HHHHHHh----cCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHh----cCChhHHHHHHHHHHHccCCCCHHhHHHHHH
Q 048394          290 LISLYCN----TSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAK----LNAIDILKQCFEEWESRCSSYDMRLADVIIR  361 (485)
Q Consensus       290 l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  361 (485)
                      +...|..    .+++++|...|++..+.+  +..++..+...|..    .+++++|.+.|++..+.+   +...+..+..
T Consensus        80 lg~~~~~g~~~~~~~~~A~~~~~~a~~~~--~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~  154 (273)
T 1ouv_A           80 LGNLYYSGQGVSQNTNKALQYYSKACDLK--YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGS  154 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHhCCCCcccCHHHHHHHHHHHHHcC--CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHH
Confidence            6666666    667777777776666543  55666667777776    777777777777777654   4556666777


Q ss_pred             HHHh----cCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHh----cccHHHHHHHHHHHHHHhhhcCCCccHHHHH
Q 048394          362 AYLQ----KDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLR----SRQLDLALNEMEAALSEAKQFHWRPMQVTVD  433 (485)
Q Consensus       362 ~~~~----~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  433 (485)
                      .|..    .+++++|...|++..+.+     +...+..+...|..    .+++++|+.++++..+.+      | ...+.
T Consensus       155 ~~~~~~~~~~~~~~A~~~~~~a~~~~-----~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~------~-~~a~~  222 (273)
T 1ouv_A          155 LYDAGRGTPKDLKKALASYDKACDLK-----DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE------N-GGGCF  222 (273)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT-----CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT------C-HHHHH
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCC-----CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC------C-HHHHH
Confidence            7776    788888888888877653     23556667777777    888888888888887763      3 55666


Q ss_pred             HHHHHHhh----cCChhhHHHHHHHHhhcCCCCHHH
Q 048394          434 TFFRFFEE----EKDVDGAEEFCKVLKSLNCLDFSA  465 (485)
Q Consensus       434 ~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~  465 (485)
                      .+...+..    .+++++|.+.++++.+.+|++...
T Consensus       223 ~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~  258 (273)
T 1ouv_A          223 NLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKGACD  258 (273)
T ss_dssp             HHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHcCCCcccCHHHHHHHHHHHHHcCCHHHHH
Confidence            67777777    788888888888888877655433

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.68  E-value=4e-15  Score=141.58  Aligned_cols=211  Identities=12%  Similarity=-0.043  Sum_probs=182.3

Q ss_pred             ccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCCh-hhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHH
Q 048394          264 ELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNL-DAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFE  342 (485)
Q Consensus       264 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  342 (485)
                      +.++++...++......+.+...+..+..++...|++ ++|...|++..+..+.+...+..+..+|...|++++|.+.|+
T Consensus        82 ~~~~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           82 EEMEKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            3466777777777666777888899999999999999 999999999988888888899999999999999999999999


Q ss_pred             HHHHccCCCCHHhHHHHHHHHHhc---------CcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhc--------cc
Q 048394          343 EWESRCSSYDMRLADVIIRAYLQK---------DMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRS--------RQ  405 (485)
Q Consensus       343 ~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~--------g~  405 (485)
                      +..+..  |+...+..+...|...         |++++|...|++..+..   +.+...|..+...|...        |+
T Consensus       162 ~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~lg~~~~~~~~~~~~~~g~  236 (474)
T 4abn_A          162 GALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD---VLDGRSWYILGNAYLSLYFNTGQNPKI  236 (474)
T ss_dssp             HHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHHHHhhccccch
Confidence            988864  5568888888999998         99999999999998874   44567788888888888        99


Q ss_pred             HHHHHHHHHHHHHHhhhcCCC---ccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcch
Q 048394          406 LDLALNEMEAALSEAKQFHWR---PMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASD  482 (485)
Q Consensus       406 ~~~A~~~~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  482 (485)
                      +++|+..|+++++..     +   .+...|..+..++...|++++|.+.|+++.+..|.+..++..++.++...|++++|
T Consensus       237 ~~~A~~~~~~al~~~-----p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eA  311 (474)
T 4abn_A          237 SQQALSAYAQAEKVD-----RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSL  311 (474)
T ss_dssp             HHHHHHHHHHHHHHC-----GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-----CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999873     3   47888899999999999999999999999999999999999999999999999888


Q ss_pred             hc
Q 048394          483 MR  484 (485)
Q Consensus       483 ~~  484 (485)
                      ++
T Consensus       312 i~  313 (474)
T 4abn_A          312 LE  313 (474)
T ss_dssp             HH
T ss_pred             HH
Confidence            74

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.68  E-value=1.4e-15  Score=142.64  Aligned_cols=276  Identities=12%  Similarity=0.015  Sum_probs=173.3

Q ss_pred             hhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccH----HHHHHHHHHHHhcCCHhHHHHHHHHHHhcc----CCCCcHH
Q 048394          180 VAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDN----LTYIVWMQSYSHLNDIDGVERVFYEMCNEC----EDKCRWT  251 (485)
Q Consensus       180 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~  251 (485)
                      ..+..+...+...|++++|+..|+++.+.+. .+.    ..+..+...|...|++++|...+++..+..    ..+....
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAGT-EDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhcc-cChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            3445566677778888888888888777532 122    356667777778888888888887766511    1233445


Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhc------CCCChHHHHHHHHHHHhcCC-----------------hhhHHHHHH
Q 048394          252 TYSNLASIYVKAELFEKAELALKKLEEM------KPRDRKAYHFLISLYCNTSN-----------------LDAVNRVWG  308 (485)
Q Consensus       252 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~  308 (485)
                      ++..+...|...|++++|...++++...      .+....++..+...|...|+                 +++|...++
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            6677777777888888888887777662      22334566777777777777                 777777766


Q ss_pred             HhhhcC----C-C-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCC-CC----HHhHHHHHHHHHhcCcHHHHHHHHH
Q 048394          309 ILKSTF----P-P-TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSS-YD----MRLADVIIRAYLQKDMYEEAALIFN  377 (485)
Q Consensus       309 ~~~~~~----~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~A~~~~~  377 (485)
                      +.....    . + ...++..+...+...|++++|.+.+++..+.... .+    ..++..+...|...|++++|...++
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            654321    1 1 3345666666777777777777777766554221 11    1255666667777777777777777


Q ss_pred             HHHhcccccCCc-------hhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCc-cHHHHHHHHHHHhhcCChhhHH
Q 048394          378 NAKKRANASARF-------FKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRP-MQVTVDTFFRFFEEEKDVDGAE  449 (485)
Q Consensus       378 ~~~~~~~~~~p~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~  449 (485)
                      +..+.    .+.       ..++..+...|...|++++|...+++.+......+..+ ...++..+...+...|++++|.
T Consensus       288 ~al~~----~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  363 (411)
T 4a1s_A          288 RTLAL----AVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERAL  363 (411)
T ss_dssp             HHHHH----HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHH----HHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHH
Confidence            76654    443       34555666666777777777777777766643221111 1235556666677777777777


Q ss_pred             HHHHHHhhcCC
Q 048394          450 EFCKVLKSLNC  460 (485)
Q Consensus       450 ~~~~~~~~~~~  460 (485)
                      ..++++.+..+
T Consensus       364 ~~~~~al~~~~  374 (411)
T 4a1s_A          364 KYAEQHLQLAX  374 (411)
T ss_dssp             HHHHHHHHHCC
T ss_pred             HHHHHHHHHHh
Confidence            77777766543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.67  E-value=5.3e-15  Score=138.73  Aligned_cols=275  Identities=11%  Similarity=-0.026  Sum_probs=220.2

Q ss_pred             HhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCCh----hhHHHHHHHHHhCCCcccHHHHHHHHHHc----C-CCccH
Q 048394          144 RYTYGALLNCYCKELMTERALALFEKMDELKFLGNT----VAFNNLSTMYLRLGQPEKVRPLVNQMKQR----N-ISLDN  214 (485)
Q Consensus       144 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~-~~p~~  214 (485)
                      ...+..+...+...|++++|...|+++.+.+.. +.    ..|..+...|...|++++|+..+++..+.    + .....
T Consensus        48 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  126 (411)
T 4a1s_A           48 CLELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEA  126 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHH
Confidence            445666778889999999999999999886533 32    46888999999999999999999999764    1 12345


Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHHHHhcc---C-CCCcHHHHHHHHHHHHhccc-----------------HHHHHHHH
Q 048394          215 LTYIVWMQSYSHLNDIDGVERVFYEMCNEC---E-DKCRWTTYSNLASIYVKAEL-----------------FEKAELAL  273 (485)
Q Consensus       215 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~-~~~~~~~~~~l~~~~~~~~~-----------------~~~A~~~~  273 (485)
                      .++..+...|...|++++|...+++..+..   + .+....++..+..+|...|+                 +++|...+
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            677888889999999999999999887621   1 23345678889999999999                 99999999


Q ss_pred             HHHHhcC------CCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC------ChhhHHHHHHHHHhcCChhHHHHHH
Q 048394          274 KKLEEMK------PRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP------TNTSYLVLLQALAKLNAIDILKQCF  341 (485)
Q Consensus       274 ~~~~~~~------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~  341 (485)
                      ++..+..      +....++..+...|...|++++|...+++.....+.      ....+..+...+...|++++|.+.+
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            9877621      123457888999999999999999999988765443      2237888999999999999999999


Q ss_pred             HHHHHccCCCC-----HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCc----hhHHHHHHHHHHhcccHHHHHHH
Q 048394          342 EEWESRCSSYD-----MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARF----FKSRESFMIYYLRSRQLDLALNE  412 (485)
Q Consensus       342 ~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~  412 (485)
                      ++..+......     ..++..+...|...|++++|...+++..+.... .++    ..++..+...|...|++++|...
T Consensus       287 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  365 (411)
T 4a1s_A          287 KRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQE-LGDRIGEARACWSLGNAHSAIGGHERALKY  365 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH-HTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH-CCChHHHHHHHHHHHHHHHHhccHHHHHHH
Confidence            99988755321     567788999999999999999999998876320 112    23677888899999999999999


Q ss_pred             HHHHHHHh
Q 048394          413 MEAALSEA  420 (485)
Q Consensus       413 ~~~~~~~~  420 (485)
                      +++..+..
T Consensus       366 ~~~al~~~  373 (411)
T 4a1s_A          366 AEQHLQLA  373 (411)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHHH
Confidence            99999873

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.67  E-value=9.2e-14  Score=124.61  Aligned_cols=185  Identities=9%  Similarity=0.032  Sum_probs=86.2

Q ss_pred             hHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChH-HHHHHHHHHHhcCChhhHHHHHHH
Q 048394          231 DGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRK-AYHFLISLYCNTSNLDAVNRVWGI  309 (485)
Q Consensus       231 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~  309 (485)
                      ++|..+|++..+ .-.+.+...|..++..+.+.|++++|..+|+++.+..|.+.. +|..++..+.+.|++++|..+|++
T Consensus        81 ~~A~~~~~rAl~-~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  159 (308)
T 2ond_A           81 DEAANIYERAIS-TLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKK  159 (308)
T ss_dssp             HHHHHHHHHHHT-TTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH-HhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            455555555544 112333444455555555555555555555555554443333 455555555555555555555555


Q ss_pred             hhhcCCCChhhHHHHHHHHH-hcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcc-cccC
Q 048394          310 LKSTFPPTNTSYLVLLQALA-KLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRA-NASA  387 (485)
Q Consensus       310 ~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~  387 (485)
                      ..+..+.+...|...+.... ..|+.++|.++|+...+..+. +...|..++..+.+.|++++|..+|++..... .  .
T Consensus       160 a~~~~p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l--~  236 (308)
T 2ond_A          160 AREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL--P  236 (308)
T ss_dssp             HHTSTTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS--C
T ss_pred             HHhcCCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCC--C
Confidence            55444433333332222211 135555555555555444332 44445555555555555555555555554431 1  2


Q ss_pred             C--chhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          388 R--FFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       388 p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      |  ....|..++..+.+.|+.++|..+++++.+.
T Consensus       237 p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          237 PEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            2  2334444444444555555555555555544

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.66  E-value=9e-14  Score=124.65  Aligned_cols=222  Identities=10%  Similarity=0.001  Sum_probs=135.5

Q ss_pred             hHHHHHHHHHHhccCCCCcHHHHHHHHHHHHh-------cccH-------HHHHHHHHHHHh-cCCCChHHHHHHHHHHH
Q 048394          231 DGVERVFYEMCNECEDKCRWTTYSNLASIYVK-------AELF-------EKAELALKKLEE-MKPRDRKAYHFLISLYC  295 (485)
Q Consensus       231 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~-------~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~  295 (485)
                      ++|..+|+++..  ..+.+...|..++..+..       .|++       ++|..+|++... ..|.+...|..++..+.
T Consensus        33 ~~a~~~~~~al~--~~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLL--VLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHH--HHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH--HcCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            445555555555  344445555555544432       3543       677777777776 46666667777777777


Q ss_pred             hcCChhhHHHHHHHhhhcCCCChh-hHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHH-hcCcHHHHH
Q 048394          296 NTSNLDAVNRVWGILKSTFPPTNT-SYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYL-QKDMYEEAA  373 (485)
Q Consensus       296 ~~~~~~~a~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~A~  373 (485)
                      ..|++++|..+|+++.+..+.+.. .|..++..+.+.|++++|..+|++..+..+. +...|...+.... ..|++++|.
T Consensus       111 ~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~a~~~~~~~~~~~~A~  189 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             hcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHcCCHHHHH
Confidence            777777777777777665555443 6666777777777777777777777665432 3444443333221 257777777


Q ss_pred             HHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCc--cHHHHHHHHHHHhhcCChhhHHHH
Q 048394          374 LIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRP--MQVTVDTFFRFFEEEKDVDGAEEF  451 (485)
Q Consensus       374 ~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~  451 (485)
                      .+|++..+..   +.+...|..++..+.+.|++++|..+|++++...   ..+|  ....|..++....+.|+.+.|..+
T Consensus       190 ~~~~~al~~~---p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~---~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~  263 (308)
T 2ond_A          190 KIFELGLKKY---GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG---SLPPEKSGEIWARFLAFESNIGDLASILKV  263 (308)
T ss_dssp             HHHHHHHHHH---TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSS---SSCGGGCHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             HHHHHHHHhC---CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcc---CCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            7777766653   3345566666666677777777777777776641   0233  345666666666667777777777


Q ss_pred             HHHHhhcCCC
Q 048394          452 CKVLKSLNCL  461 (485)
Q Consensus       452 ~~~~~~~~~~  461 (485)
                      ++++.+..|.
T Consensus       264 ~~~a~~~~p~  273 (308)
T 2ond_A          264 EKRRFTAFRE  273 (308)
T ss_dssp             HHHHHHHTTT
T ss_pred             HHHHHHHccc
Confidence            7777776665

>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=9.7e-15  Score=132.66  Aligned_cols=281  Identities=12%  Similarity=0.027  Sum_probs=134.7

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHhCCCCCC----hhhHHHHHHHHHhCCCcccHHHHHHHHHHc----CCCc-cHHHHHH
Q 048394          149 ALLNCYCKELMTERALALFEKMDELKFLGN----TVAFNNLSTMYLRLGQPEKVRPLVNQMKQR----NISL-DNLTYIV  219 (485)
Q Consensus       149 ~li~~~~~~~~~~~A~~~~~~m~~~~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~p-~~~~~~~  219 (485)
                      .....+...|++++|...|+++.+.... +    ...+..+...+...|++++|.+.+++..+.    +..| ...++..
T Consensus        10 ~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~   88 (338)
T 3ro2_A           10 LEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGN   88 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHH
Confidence            3444555566666666666666554321 1    234555555666666666666666554432    1111 1334555


Q ss_pred             HHHHHHhcCCHhHHHHHHHHHHhccCCCCc----HHHHHHHHHHHHhccc--------------------HHHHHHHHHH
Q 048394          220 WMQSYSHLNDIDGVERVFYEMCNECEDKCR----WTTYSNLASIYVKAEL--------------------FEKAELALKK  275 (485)
Q Consensus       220 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~--------------------~~~A~~~~~~  275 (485)
                      +...+...|++++|...+++..+.....++    ..++..+...|...|+                    +++|...+++
T Consensus        89 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~  168 (338)
T 3ro2_A           89 LGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEE  168 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHH
Confidence            566666666666666666665441111111    2355566666666666                    6666666655


Q ss_pred             HHhc------CCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccC
Q 048394          276 LEEM------KPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCS  349 (485)
Q Consensus       276 ~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  349 (485)
                      ....      .+....++..+...+...|++++|...+++.....+....                             .
T Consensus       169 a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~-----------------------------~  219 (338)
T 3ro2_A          169 NLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGD-----------------------------K  219 (338)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC-----------------------------H
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCC-----------------------------h
Confidence            4431      0011223444444445555555555544443322111000                             0


Q ss_pred             CCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhccccc---CCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCC
Q 048394          350 SYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANAS---ARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWR  426 (485)
Q Consensus       350 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  426 (485)
                      .....++..+...+...|++++|...+++..+.....   .....++..+...|...|++++|...++++.......+..
T Consensus       220 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~  299 (338)
T 3ro2_A          220 AAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDR  299 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCc
Confidence            0012244445555555555555555555544321000   0012344555555566666666666665555443222122


Q ss_pred             c-cHHHHHHHHHHHhhcCChhhHHHHHHHHhhcC
Q 048394          427 P-MQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLN  459 (485)
Q Consensus       427 ~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  459 (485)
                      + ...++..+...+...|++++|...++++.+..
T Consensus       300 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  333 (338)
T 3ro2_A          300 IGEGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  333 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH
Confidence            2 24455555666666666666666666665543

>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=99.66  E-value=2.8e-13  Score=119.30  Aligned_cols=216  Identities=12%  Similarity=-0.020  Sum_probs=189.8

Q ss_pred             CcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHh----cCChhhHHHHHHHhhhcCCCChhhHHH
Q 048394          248 CRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCN----TSNLDAVNRVWGILKSTFPPTNTSYLV  323 (485)
Q Consensus       248 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  323 (485)
                      -+..++..+...|...|++++|...|++..+  +.+..++..+...|..    .+++++|...|++..+.+  +...+..
T Consensus         4 ~~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~--~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~--~~~a~~~   79 (273)
T 1ouv_A            4 QDPKELVGLGAKSYKEKDFTQAKKYFEKACD--LKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN--YSNGCHL   79 (273)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHH--CCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC--CHHHHHH
Confidence            4567778899999999999999999999887  5567889999999999    999999999999998775  6788889


Q ss_pred             HHHHHHh----cCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHh----cCcHHHHHHHHHHHHhcccccCCchhHHHH
Q 048394          324 LLQALAK----LNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQ----KDMYEEAALIFNNAKKRANASARFFKSRES  395 (485)
Q Consensus       324 l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~  395 (485)
                      +...|..    .+++++|.+.|++..+.+   +...+..+...|..    .+++++|...|++..+.+     +...+..
T Consensus        80 lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~-----~~~a~~~  151 (273)
T 1ouv_A           80 LGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN-----DGDGCTI  151 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT-----CHHHHHH
T ss_pred             HHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC-----cHHHHHH
Confidence            9999999    999999999999998874   77888889999999    999999999999999864     3456677


Q ss_pred             HHHHHHh----cccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhh----cCChhhHHHHHHHHhhcCCCCHHHHH
Q 048394          396 FMIYYLR----SRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEE----EKDVDGAEEFCKVLKSLNCLDFSAYS  467 (485)
Q Consensus       396 l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~  467 (485)
                      +...|..    .+++++|+.+|++..+.+       +...+..+...+..    .+++++|...++++.+.++  +.++.
T Consensus       152 lg~~~~~~~~~~~~~~~A~~~~~~a~~~~-------~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~--~~a~~  222 (273)
T 1ouv_A          152 LGSLYDAGRGTPKDLKKALASYDKACDLK-------DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN--GGGCF  222 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT-------CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC--HHHHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHHHHCC-------CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC--HHHHH
Confidence            7788887    999999999999998863       45777888888988    9999999999999999765  78899


Q ss_pred             HHHHHHHH----hCCCcchhc
Q 048394          468 LLIKTYIA----AGKLASDMR  484 (485)
Q Consensus       468 ~l~~~~~~----~g~~~~A~~  484 (485)
                      .++.+|..    .+++++|++
T Consensus       223 ~l~~~~~~g~~~~~~~~~A~~  243 (273)
T 1ouv_A          223 NLGAMQYNGEGVTRNEKQAIE  243 (273)
T ss_dssp             HHHHHHHTTSSSSCCSTTHHH
T ss_pred             HHHHHHHcCCCcccCHHHHHH
Confidence            99999999    999999874

>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=4.4e-15  Score=134.96  Aligned_cols=261  Identities=13%  Similarity=0.000  Sum_probs=163.6

Q ss_pred             HHHHHhcCCHhHHHHHHHHHHhccCCCCc----HHHHHHHHHHHHhcccHHHHHHHHHHHHhc------CCCChHHHHHH
Q 048394          221 MQSYSHLNDIDGVERVFYEMCNECEDKCR----WTTYSNLASIYVKAELFEKAELALKKLEEM------KPRDRKAYHFL  290 (485)
Q Consensus       221 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~------~~~~~~~~~~l  290 (485)
                      ...+...|++++|...|+++.+.  .+.+    ...+..+...|...|++++|...++++...      .+....++..+
T Consensus        12 g~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   89 (338)
T 3ro2_A           12 GERLCKSGDCRAGVSFFEAAVQV--GTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNL   89 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHH
Confidence            33444455555555555555441  1112    234444555555555555555555544431      11123445555


Q ss_pred             HHHHHhcCChhhHHHHHHHhhhcCCC------ChhhHHHHHHHHHhcCC--------------------hhHHHHHHHHH
Q 048394          291 ISLYCNTSNLDAVNRVWGILKSTFPP------TNTSYLVLLQALAKLNA--------------------IDILKQCFEEW  344 (485)
Q Consensus       291 ~~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~  344 (485)
                      ...+...|++++|...+++.....+.      ...++..+...+...|+                    +++|.+.+++.
T Consensus        90 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a  169 (338)
T 3ro2_A           90 GNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEEN  169 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHH
Confidence            55555556666655555554432211      12355556666666666                    67777666665


Q ss_pred             HHc----cCC-CCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCC----chhHHHHHHHHHHhcccHHHHHHHHHH
Q 048394          345 ESR----CSS-YDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASAR----FFKSRESFMIYYLRSRQLDLALNEMEA  415 (485)
Q Consensus       345 ~~~----~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~  415 (485)
                      .+.    +.. ....++..+...+...|++++|...+++..+.... .+    ...++..+...+...|++++|...+++
T Consensus       170 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  248 (338)
T 3ro2_A          170 LSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKE-FGDKAAERRAYSNLGNAYIFLGEFETASEYYKK  248 (338)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH-HTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh-cCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            432    111 12446777888899999999999999988754210 11    123677888889999999999999999


Q ss_pred             HHHHhhhcCCCc-cHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCC------CHHHHHHHHHHHHHhCCCcchhc
Q 048394          416 ALSEAKQFHWRP-MQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL------DFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       416 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      ........+..+ ...++..+...+...|++++|...++++.+..+.      ...++..++.+|.+.|++++|++
T Consensus       249 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  324 (338)
T 3ro2_A          249 TLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMH  324 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            987653221111 1557778889999999999999999999886432      25688999999999999999874

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.65  E-value=6.3e-14  Score=115.39  Aligned_cols=165  Identities=13%  Similarity=0.054  Sum_probs=83.9

Q ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHH
Q 048394          250 WTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALA  329 (485)
Q Consensus       250 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  329 (485)
                      ..+|..++.+|...|++++|+..|++..+..|.+..++..+..+|...|++++|...+.......+.+...+..+...+.
T Consensus         5 ~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (184)
T 3vtx_A            5 TTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTTSAEAYYILGSANF   84 (184)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHH
Confidence            44455555555555555555555555555555555555555555555555555555555555554444444445555555


Q ss_pred             hcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHH
Q 048394          330 KLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLA  409 (485)
Q Consensus       330 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  409 (485)
                      ..++++.|...+.+..+..+. +...+..+...|...|++++|...|++..+.+   +.+..+|..+...|.+.|++++|
T Consensus        85 ~~~~~~~a~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~---p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           85 MIDEKQAAIDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIK---PGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhc---chhhhHHHHHHHHHHHCCCHHHH
Confidence            555555555555554444332 34444444555555555555555555544442   22334444444445555555555


Q ss_pred             HHHHHHHHH
Q 048394          410 LNEMEAALS  418 (485)
Q Consensus       410 ~~~~~~~~~  418 (485)
                      +..|+++++
T Consensus       161 ~~~~~~al~  169 (184)
T 3vtx_A          161 VKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            555555444

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.64  E-value=2.6e-14  Score=132.65  Aligned_cols=298  Identities=7%  Similarity=0.010  Sum_probs=197.7

Q ss_pred             HHhcCcHHHHHHHHHHHHhCC--C--CCChhhHHHHHHH--HHhCCCcccHH-----------HHHHHHHHcCCCccHHH
Q 048394          154 YCKELMTERALALFEKMDELK--F--LGNTVAFNNLSTM--YLRLGQPEKVR-----------PLVNQMKQRNISLDNLT  216 (485)
Q Consensus       154 ~~~~~~~~~A~~~~~~m~~~~--~--~p~~~~~~~l~~~--~~~~g~~~~a~-----------~~~~~~~~~~~~p~~~~  216 (485)
                      +.+.+++++|..+++++.+.-  .  .++...|-.++..  ....++++.+.           +.++.+....  .+...
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~--~~~~~   99 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQ--ARLTG   99 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHT--HHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcC--CCchh
Confidence            457899999999998886531  2  2233333444332  22334455555           7777766532  22222


Q ss_pred             HHH------HHHHHHhcCCHhHHHHHHHHHHhccCCCC----cHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCC--C--
Q 048394          217 YIV------WMQSYSHLNDIDGVERVFYEMCNECEDKC----RWTTYSNLASIYVKAELFEKAELALKKLEEMKP--R--  282 (485)
Q Consensus       217 ~~~------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~--  282 (485)
                      +..      ....+...|++++|...+++..+.....+    ...++..+..+|...|++++|...+.+..+..+  +  
T Consensus       100 ~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~  179 (383)
T 3ulq_A          100 LLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAY  179 (383)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTT
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccc
Confidence            222      44566788999999999988876211112    346778888888899999999999888887211  1  


Q ss_pred             ---ChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC------ChhhHHHHHHHHHhcCChhHHHHHHHHHHHc----cC
Q 048394          283 ---DRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP------TNTSYLVLLQALAKLNAIDILKQCFEEWESR----CS  349 (485)
Q Consensus       283 ---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~  349 (485)
                         ...+++.+...|...|++++|...+++.....+.      ...++..+...|...|++++|.+.+++..+.    +.
T Consensus       180 ~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~  259 (383)
T 3ulq_A          180 NIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNI  259 (383)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcc
Confidence               1356778888888889999998888877654322      2346778888888888888888888887762    22


Q ss_pred             -CCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhccccc-CC-chhHHHHHHHHHHhccc---HHHHHHHHHHHHHHhhhc
Q 048394          350 -SYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANAS-AR-FFKSRESFMIYYLRSRQ---LDLALNEMEAALSEAKQF  423 (485)
Q Consensus       350 -~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~  423 (485)
                       .....++..+...|...|++++|...+++..+..... .| ....+..+...|...|+   +++|+.++++...     
T Consensus       260 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~-----  334 (383)
T 3ulq_A          260 LPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKML-----  334 (383)
T ss_dssp             GGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTC-----
T ss_pred             chhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcC-----
Confidence             2235677778888888888888888888877652100 11 12234556666777787   6777777766522     


Q ss_pred             CCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcC
Q 048394          424 HWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLN  459 (485)
Q Consensus       424 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  459 (485)
                       .+.....+..+...|...|++++|...++++.+..
T Consensus       335 -~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~~  369 (383)
T 3ulq_A          335 -YADLEDFAIDVAKYYHERKNFQKASAYFLKVEQVR  369 (383)
T ss_dssp             -HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence             12334566677788888888888888888887643

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.63  E-value=1.2e-13  Score=113.79  Aligned_cols=167  Identities=20%  Similarity=0.146  Sum_probs=136.4

Q ss_pred             cHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHH
Q 048394          213 DNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLIS  292 (485)
Q Consensus       213 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  292 (485)
                      +..+|..+...|...|++++|++.|++..+  ..|.+..++..++.+|.+.|++++|...+..+....|.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLK--ADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCchhHHHHHHHHH
Confidence            456777788888888888888888888877  566677788888888888888888888888888877777888888888


Q ss_pred             HHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHH
Q 048394          293 LYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEA  372 (485)
Q Consensus       293 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  372 (485)
                      .+...++++.+...+.+.....+.+...+..+...+.+.|++++|++.|++..+..+. +..+|..+..+|.+.|++++|
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPG-FIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcch-hhhHHHHHHHHHHHCCCHHHH
Confidence            8888888888888888888877777888888888888888888888888888877655 677788888888888888888


Q ss_pred             HHHHHHHHhc
Q 048394          373 ALIFNNAKKR  382 (485)
Q Consensus       373 ~~~~~~~~~~  382 (485)
                      ...|++.++.
T Consensus       161 ~~~~~~al~~  170 (184)
T 3vtx_A          161 VKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHhC
Confidence            8888888775

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.63  E-value=4.2e-14  Score=133.66  Aligned_cols=371  Identities=11%  Similarity=-0.003  Sum_probs=243.4

Q ss_pred             CcHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCh---HHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhC-----CHHH
Q 048394           58 GSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRY---RHALEVIEWMESRKMHFSYTDFAVYLDLTAKTN-----GIAA  129 (485)
Q Consensus        58 ~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~~~~~---~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----~~~~  129 (485)
                      ++..+++..+.+.-..-++..+..+...+...|++   ++|++.|+...+.    +...+..+...+...+     ++++
T Consensus        17 g~~~~A~~~~~~aa~~g~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~~~~~~~~~~~~   92 (452)
T 3e4b_A           17 GDTVTAQQNYQQLAELGYSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAAKPGATEAEHHE   92 (452)
T ss_dssp             HHHHHHHHHHHHHHHHTCCTGGGTCC--------------------------------CHHHHHHHHHTC--CCHHHHHH
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHhCCCCCCcCHHH
Confidence            34444444443321112344555566666667777   8999999988754    4455556666454444     7889


Q ss_pred             HHHHHHhhcccCCCHhHHHHHHHHHHhcCcHH---HHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHH
Q 048394          130 AEKYFNGLSEYAKNRYTYGALLNCYCKELMTE---RALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMK  206 (485)
Q Consensus       130 a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~---~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  206 (485)
                      |.++|++..+. -+...+..|...|...+..+   ++.+.+.+....|   +...+..+...|...+.++++......+.
T Consensus        93 A~~~~~~Aa~~-g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~~~~~a~~~~  168 (452)
T 3e4b_A           93 AESLLKKAFAN-GEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTYDQHLDDVERIC  168 (452)
T ss_dssp             HHHHHHHHHHT-TCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCGGGGHHHHHHHH
T ss_pred             HHHHHHHHHHC-CCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHH
Confidence            99999998872 22337777888887766544   3455555555544   45678888888988887777766654444


Q ss_pred             HcCCCccHHHHHHHHHHHHhcC---CHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhc----ccHHHHHHHHHHHHhc
Q 048394          207 QRNISLDNLTYIVWMQSYSHLN---DIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKA----ELFEKAELALKKLEEM  279 (485)
Q Consensus       207 ~~~~~p~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~A~~~~~~~~~~  279 (485)
                      +.-...+...+..+...|...|   +.++|++.|+...+  ..+++...+..+...|...    +++++|...|++..  
T Consensus       169 ~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~--~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa--  244 (452)
T 3e4b_A          169 KAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVS--RGTVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA--  244 (452)
T ss_dssp             HHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH--TTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG--
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHH--CCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc--
Confidence            3322234447788888999999   99999999999988  5566777666788888665    69999999999986  


Q ss_pred             CCCChHHHHHHHHH-H--HhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcC-----ChhHHHHHHHHHHHccCCC
Q 048394          280 KPRDRKAYHFLISL-Y--CNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLN-----AIDILKQCFEEWESRCSSY  351 (485)
Q Consensus       280 ~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~  351 (485)
                       +.++..+..+... +  ...+++++|...|++..+.+  +...+..+...|. .|     +.++|.+.|++.. .|   
T Consensus       245 -~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g--~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---  316 (452)
T 3e4b_A          245 -PGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD--QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR---  316 (452)
T ss_dssp             -GGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT---
T ss_pred             -CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC--CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC---
Confidence             6678888888887 4  56899999999999988765  5777778888887 45     9999999999887 32   


Q ss_pred             CHHhHHHHHHHHHh----cCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHh----cccHHHHHHHHHHHHHHhhhc
Q 048394          352 DMRLADVIIRAYLQ----KDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLR----SRQLDLALNEMEAALSEAKQF  423 (485)
Q Consensus       352 ~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~  423 (485)
                      ++..+..|...|..    ..++++|...|++..+.|.   |  .....|...|..    ..+.++|..+|+...+.|   
T Consensus       317 ~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~--~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g---  388 (452)
T 3e4b_A          317 EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ---N--SADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQD---  388 (452)
T ss_dssp             CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC---T--THHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTC---
T ss_pred             CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh---H--HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCC---
Confidence            67777778888876    4499999999999998763   3  344456556653    468999999999999885   


Q ss_pred             CCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhc
Q 048394          424 HWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSL  458 (485)
Q Consensus       424 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  458 (485)
                       . ++.......+......++..+|.++.++..+.
T Consensus       389 -~-~~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~~  421 (452)
T 3e4b_A          389 -T-PEANDLATQLEAPLTPAQRAEGQRLVQQELAA  421 (452)
T ss_dssp             -C-HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             -C-HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence             2 33333333333334445677777777766553

>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=99.61  E-value=2.5e-11  Score=118.64  Aligned_cols=384  Identities=7%  Similarity=-0.038  Sum_probs=270.1

Q ss_pred             hHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCc---HHHHHHHH
Q 048394           92 YRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELM---TERALALF  167 (485)
Q Consensus        92 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~---~~~A~~~~  167 (485)
                      ..+.+..|+.....+ +-|...|..++..+.+.+.++.+..+|+++.. .+.....|...+..-.+.++   ++.+..+|
T Consensus        48 ~~d~i~~lE~~l~~n-p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lf  126 (679)
T 4e6h_A           48 ESDVIGKLNDMIEEQ-PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRFPLMANIWCMRLSLEFDKMEELDAAVIEPVL  126 (679)
T ss_dssp             CSCHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC--CCCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhhCCcchHHHHHHHH
Confidence            444555666665655 46899999999999999999999999999999 66778899999999889999   99999999


Q ss_pred             HHHHhCCC-CCChhhHHHHHHHHHhCCCc--------ccHHHHHHHHHHc-CC-Ccc-HHHHHHHHHHHH---------h
Q 048394          168 EKMDELKF-LGNTVAFNNLSTMYLRLGQP--------EKVRPLVNQMKQR-NI-SLD-NLTYIVWMQSYS---------H  226 (485)
Q Consensus       168 ~~m~~~~~-~p~~~~~~~l~~~~~~~g~~--------~~a~~~~~~~~~~-~~-~p~-~~~~~~l~~~~~---------~  226 (485)
                      ++...... .|++..|...+....+.++.        +.+.++|+..... |. .|+ ...|...+....         .
T Consensus       127 eRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~ee  206 (679)
T 4e6h_A          127 ARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEE  206 (679)
T ss_dssp             HHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHH
T ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHH
Confidence            99988642 37888888888766665544        3345778776653 65 554 467777776543         2


Q ss_pred             cCCHhHHHHHHHHHHhccCCCCcHHHH---HHHHHHH----------HhcccHHHHHHHHHHHHh----c---CCC----
Q 048394          227 LNDIDGVERVFYEMCNECEDKCRWTTY---SNLASIY----------VKAELFEKAELALKKLEE----M---KPR----  282 (485)
Q Consensus       227 ~~~~~~a~~~~~~~~~~~~~~~~~~~~---~~l~~~~----------~~~~~~~~A~~~~~~~~~----~---~~~----  282 (485)
                      .++++.+.++|+.+.. ........+|   ..+...+          -...+++.|...+..+..    .   .|.    
T Consensus       207 q~~~~~~R~iy~raL~-iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~  285 (679)
T 4e6h_A          207 QQRVQYIRKLYKTLLC-QPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQ  285 (679)
T ss_dssp             HHHHHHHHHHHHHHTT-SCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTT
T ss_pred             HhHHHHHHHHHHHHHh-CccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhcccccccc
Confidence            4457889999999886 2111122233   2222111          012345556666655443    1   111    


Q ss_pred             ---------C------hHHHHHHHHHHHhcC-------ChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHH-H
Q 048394          283 ---------D------RKAYHFLISLYCNTS-------NLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILK-Q  339 (485)
Q Consensus       283 ---------~------~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~  339 (485)
                               +      ...|...+..--..+       ..+.+..+|++.....+.....|...+..+...|+.++|. +
T Consensus       286 ~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~p~~~~lW~~ya~~~~~~~~~~~a~r~  365 (679)
T 4e6h_A          286 ATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHVCFAPEIWFNMANYQGEKNTDSTVITK  365 (679)
T ss_dssp             CCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSCCTTHHHH
T ss_pred             chhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCcHHHHHHH
Confidence                     0      134555555433332       1234567899998888889999999999999999999996 9


Q ss_pred             HHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhccc-------ccCCc------------hhHHHHHHHHH
Q 048394          340 CFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRAN-------ASARF------------FKSRESFMIYY  400 (485)
Q Consensus       340 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-------~~~p~------------~~~~~~l~~~~  400 (485)
                      +|+......+ .+...|-..+....+.|++++|..+|+++.....       ...|+            ...|...+...
T Consensus       366 il~rAi~~~P-~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~e  444 (679)
T 4e6h_A          366 YLKLGQQCIP-NSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTM  444 (679)
T ss_dssp             HHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCC-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHH
Confidence            9999987644 3677788888889999999999999999886410       00132            23677778877


Q ss_pred             HhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhc-CChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCC
Q 048394          401 LRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEE-KDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKL  479 (485)
Q Consensus       401 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  479 (485)
                      .+.|+.+.|..+|.++++..    ..+....|...+..-.+. ++.+.|.++|+..++..|.++..|..++......|+.
T Consensus       445 rR~~~l~~AR~vf~~A~~~~----~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~  520 (679)
T 4e6h_A          445 KRIQGLAASRKIFGKCRRLK----KLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEE  520 (679)
T ss_dssp             HHHHCHHHHHHHHHHHHHTG----GGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHcCCHHHHHHHHHHHHHhc----CCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCH
Confidence            88999999999999998761    112344454443333343 5599999999999999999999999999999888887


Q ss_pred             cch
Q 048394          480 ASD  482 (485)
Q Consensus       480 ~~A  482 (485)
                      +.|
T Consensus       521 ~~A  523 (679)
T 4e6h_A          521 SQV  523 (679)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            765

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.61  E-value=1.8e-13  Score=127.00  Aligned_cols=232  Identities=10%  Similarity=0.024  Sum_probs=143.9

Q ss_pred             HHHHHHhCCCcccHHHHHHHHHHc----CCCc-cHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCC-----cHHHHH
Q 048394          185 LSTMYLRLGQPEKVRPLVNQMKQR----NISL-DNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKC-----RWTTYS  254 (485)
Q Consensus       185 l~~~~~~~g~~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~  254 (485)
                      ....+...|++++|+..|++..+.    +-.+ ...++..+...|...|+++.|...+++..+.....+     ...++.
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            334445556666666666655542    1111 234455556666666666666666665554111111     234566


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCC--CC----hHHHHHHHHHHHhcCChhhHHHHHHHhhh-----cCCC-ChhhHH
Q 048394          255 NLASIYVKAELFEKAELALKKLEEMKP--RD----RKAYHFLISLYCNTSNLDAVNRVWGILKS-----TFPP-TNTSYL  322 (485)
Q Consensus       255 ~l~~~~~~~~~~~~A~~~~~~~~~~~~--~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~-~~~~~~  322 (485)
                      .+..+|...|++++|...+++..+..+  ++    ..++..+..+|...|++++|...+++...     ...+ ...++.
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            667777777777777777777665211  11    24666777777777777777777777666     3313 566677


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHccC---CC-CHHhHHHHHHHHHhcCc---HHHHHHHHHHHHhcccccCCchhHHHH
Q 048394          323 VLLQALAKLNAIDILKQCFEEWESRCS---SY-DMRLADVIIRAYLQKDM---YEEAALIFNNAKKRANASARFFKSRES  395 (485)
Q Consensus       323 ~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~-~~~~~~~l~~~~~~~~~---~~~A~~~~~~~~~~~~~~~p~~~~~~~  395 (485)
                      .+...+.+.|++++|...+++..+...   .| ....+..+...|...|+   +++|..++++....    ......+..
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~----~~~~~~~~~  344 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLY----ADLEDFAID  344 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCH----HHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCH----HHHHHHHHH
Confidence            778888888888888888877655321   11 12335667777888888   77777777665211    223345667


Q ss_pred             HHHHHHhcccHHHHHHHHHHHHHHh
Q 048394          396 FMIYYLRSRQLDLALNEMEAALSEA  420 (485)
Q Consensus       396 l~~~~~~~g~~~~A~~~~~~~~~~~  420 (485)
                      +...|...|++++|...+++..+..
T Consensus       345 la~~y~~~g~~~~A~~~~~~al~~~  369 (383)
T 3ulq_A          345 VAKYYHERKNFQKASAYFLKVEQVR  369 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHH
Confidence            8888889999999999999887764

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.60  E-value=7.1e-14  Score=132.96  Aligned_cols=193  Identities=11%  Similarity=0.004  Sum_probs=88.5

Q ss_pred             cHHHHHHHHHHHHhcCCH-hHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHH
Q 048394          213 DNLTYIVWMQSYSHLNDI-DGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLI  291 (485)
Q Consensus       213 ~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  291 (485)
                      +...+..+...+...|++ ++|++.|++..+  ..+.+...+..+..+|...|++++|...|+++.+..|. ...+..+.
T Consensus       101 ~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~--~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~lg  177 (474)
T 4abn_A          101 EAQALMLKGKALNVTPDYSPEAEVLLSKAVK--LEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHCKN-KVSLQNLS  177 (474)
T ss_dssp             CHHHHHHHHHHHTSSSSCCHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCCC-HHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccccHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-HHHHHHHH
Confidence            344444444555555555 555555555544  23334445555555555555555555555555544332 44445555


Q ss_pred             HHHHhc---------CChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhc--------CChhHHHHHHHHHHHccCC--CC
Q 048394          292 SLYCNT---------SNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKL--------NAIDILKQCFEEWESRCSS--YD  352 (485)
Q Consensus       292 ~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~--~~  352 (485)
                      .++...         |++++|...+++..+..+.+...+..+..+|...        |++++|.+.|++..+..+.  -+
T Consensus       178 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~  257 (474)
T 4abn_A          178 MVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSN  257 (474)
T ss_dssp             HHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGC
T ss_pred             HHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccC
Confidence            555554         4445555555544444444444444444444444        4444444444444443220  13


Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHH
Q 048394          353 MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALN  411 (485)
Q Consensus       353 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  411 (485)
                      ...|..+..+|...|++++|...|++..+..   +.+...+..+...+...|++++|+.
T Consensus       258 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~---p~~~~a~~~l~~~~~~lg~~~eAi~  313 (474)
T 4abn_A          258 PDLHLNRATLHKYEESYGEALEGFSQAAALD---PAWPEPQQREQQLLEFLSRLTSLLE  313 (474)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444444444432   1222233334444444444444443

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.58  E-value=2.8e-14  Score=128.19  Aligned_cols=241  Identities=10%  Similarity=0.058  Sum_probs=125.2

Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHHHHhcc------CCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--------C
Q 048394          215 LTYIVWMQSYSHLNDIDGVERVFYEMCNEC------EDKCRWTTYSNLASIYVKAELFEKAELALKKLEEM--------K  280 (485)
Q Consensus       215 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--------~  280 (485)
                      .++..+...+...|++++|..+++++.+..      ..+....++..+..+|...|++++|...++++...        .
T Consensus        28 ~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  107 (311)
T 3nf1_A           28 RTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDH  107 (311)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCC
Confidence            334444444445555555555554444310      12223344444555555555555555555554442        1


Q ss_pred             CCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcC-------CC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHc-----
Q 048394          281 PRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTF-------PP-TNTSYLVLLQALAKLNAIDILKQCFEEWESR-----  347 (485)
Q Consensus       281 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----  347 (485)
                      +....++..+...|...|++++|...++++....       .+ ....+..+...+...|++++|.+.++++.+.     
T Consensus       108 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~  187 (311)
T 3nf1_A          108 PAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKL  187 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHh
Confidence            2223445555555556666666665555554431       11 4455666666677777777777777766553     


Q ss_pred             -cCCC-CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccc-----cCCch-h------HHHHHHHHHHhcccHHHHHHHH
Q 048394          348 -CSSY-DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANA-----SARFF-K------SRESFMIYYLRSRQLDLALNEM  413 (485)
Q Consensus       348 -~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-----~~p~~-~------~~~~l~~~~~~~g~~~~A~~~~  413 (485)
                       +..| ...++..+...|...|++++|...++++.+....     ..+.. .      .+..+...+...+.+.++...+
T Consensus       188 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  267 (311)
T 3nf1_A          188 GPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWY  267 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHH
Confidence             1111 2445666777777778888888777777653100     01111 1      1122223334455666666677


Q ss_pred             HHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCC
Q 048394          414 EAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNC  460 (485)
Q Consensus       414 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  460 (485)
                      +.....     .+....++..+..+|.+.|++++|.++++++.+..|
T Consensus       268 ~~~~~~-----~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~  309 (311)
T 3nf1_A          268 KACKVD-----SPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRK  309 (311)
T ss_dssp             -----------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC
T ss_pred             hhcCCC-----CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhh
Confidence            776654     344567788888889999999999999998887655

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.58  E-value=2.5e-14  Score=128.54  Aligned_cols=238  Identities=13%  Similarity=0.065  Sum_probs=175.5

Q ss_pred             CCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--------CCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhc----
Q 048394          246 DKCRWTTYSNLASIYVKAELFEKAELALKKLEEM--------KPRDRKAYHFLISLYCNTSNLDAVNRVWGILKST----  313 (485)
Q Consensus       246 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----  313 (485)
                      .+....++..+...+...|++++|...++++.+.        .+....++..+...|...|++++|...++++...    
T Consensus        23 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  102 (311)
T 3nf1_A           23 IPARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKT  102 (311)
T ss_dssp             SCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Confidence            4455678889999999999999999999998872        3445678889999999999999999999988765    


Q ss_pred             --C-CC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHcc------CCC-CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhc
Q 048394          314 --F-PP-TNTSYLVLLQALAKLNAIDILKQCFEEWESRC------SSY-DMRLADVIIRAYLQKDMYEEAALIFNNAKKR  382 (485)
Q Consensus       314 --~-~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  382 (485)
                        . .+ ...++..+...+...|++++|.+.++++.+..      ..| ....+..+...+...|++++|..+++++.+.
T Consensus       103 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~  182 (311)
T 3nf1_A          103 LGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEI  182 (311)
T ss_dssp             HCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             hCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence              2 22 67788999999999999999999999987652      122 3567888999999999999999999998775


Q ss_pred             ------ccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhc---CCCc-------cHHHHHHHHHHHhhcCChh
Q 048394          383 ------ANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQF---HWRP-------MQVTVDTFFRFFEEEKDVD  446 (485)
Q Consensus       383 ------~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~-------~~~~~~~l~~~~~~~~~~~  446 (485)
                            +. ......++..+...|...|++++|...++++.+.....   ...+       ....+..+...+...+.+.
T Consensus       183 ~~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  261 (311)
T 3nf1_A          183 YQTKLGPD-DPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFG  261 (311)
T ss_dssp             HHHTSCTT-CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSC
T ss_pred             HHHHhCCC-CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHH
Confidence                  11 02234567888899999999999999999998753111   0111       1223333445556677788


Q ss_pred             hHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          447 GAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       447 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      +|...++......|....++..++.+|.+.|++++|++
T Consensus       262 ~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  299 (311)
T 3nf1_A          262 EYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAET  299 (311)
T ss_dssp             CCC---------CHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHH
Confidence            88888998888888899999999999999999999974

>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=6.4e-12  Score=116.22  Aligned_cols=232  Identities=8%  Similarity=-0.035  Sum_probs=166.3

Q ss_pred             HHHHHHhcCCHhHHHHHHHHHHhccCCCC----cHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCC--C-----ChHHHH
Q 048394          220 WMQSYSHLNDIDGVERVFYEMCNECEDKC----RWTTYSNLASIYVKAELFEKAELALKKLEEMKP--R-----DRKAYH  288 (485)
Q Consensus       220 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~-----~~~~~~  288 (485)
                      ....+...|++++|...|++..+.....+    ...++..+..+|...|+++.|...+++..+..+  +     ...+++
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            34456778899999999988876222222    345677888888899999999988888877211  1     245677


Q ss_pred             HHHHHHHhcCChhhHHHHHHHhhhcC----CC--ChhhHHHHHHHHHhcCChhHHHHHHHHHHH-----ccCCCCHHhHH
Q 048394          289 FLISLYCNTSNLDAVNRVWGILKSTF----PP--TNTSYLVLLQALAKLNAIDILKQCFEEWES-----RCSSYDMRLAD  357 (485)
Q Consensus       289 ~l~~~~~~~~~~~~a~~~~~~~~~~~----~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  357 (485)
                      .+..+|...|++++|...+++..+..    .+  ...++..+..+|...|++++|.+.+++..+     ..+. ...++.
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~-~~~~~~  265 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDL-LPKVLF  265 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGG-HHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChh-HHHHHH
Confidence            88888999999999998888776532    11  345678888899999999999999998876     4333 367788


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHhcccc--cCCchhHHHHHHHHHHhccc---HHHHHHHHHHHHHHhhhcCCCccHHHH
Q 048394          358 VIIRAYLQKDMYEEAALIFNNAKKRANA--SARFFKSRESFMIYYLRSRQ---LDLALNEMEAALSEAKQFHWRPMQVTV  432 (485)
Q Consensus       358 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~~~~  432 (485)
                      .+..+|.+.|++++|...+++..+....  .......+..+...|...|+   +.+|+..+++...      .+.....+
T Consensus       266 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~------~~~~~~~~  339 (378)
T 3q15_A          266 GLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNL------HAYIEACA  339 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTC------HHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCC------hhHHHHHH
Confidence            8889999999999999999988765210  01122334555555666777   7777777776321      22334566


Q ss_pred             HHHHHHHhhcCChhhHHHHHHHHhhc
Q 048394          433 DTFFRFFEEEKDVDGAEEFCKVLKSL  458 (485)
Q Consensus       433 ~~l~~~~~~~~~~~~A~~~~~~~~~~  458 (485)
                      ..+...|...|++++|...++++.+.
T Consensus       340 ~~la~~y~~~g~~~~A~~~~~~al~~  365 (378)
T 3q15_A          340 RSAAAVFESSCHFEQAAAFYRKVLKA  365 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            77888999999999999999988764

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.56  E-value=1.3e-11  Score=114.04  Aligned_cols=303  Identities=13%  Similarity=0.011  Sum_probs=194.5

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChh----hHHHHHHHHHhCCCcccHHHHHHHHHHcCC-Ccc----HHH
Q 048394          146 TYGALLNCYCKELMTERALALFEKMDELKFLGNTV----AFNNLSTMYLRLGQPEKVRPLVNQMKQRNI-SLD----NLT  216 (485)
Q Consensus       146 ~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~----~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~p~----~~~  216 (485)
                      ........+...|++++|...+++........+..    +++.+...+...|++++|.+.+++.....- .++    ..+
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            34444556677899999999999887754322221    456666778888999999988888765310 111    223


Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHhcc---CCC--C-cHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCC-----ChH
Q 048394          217 YIVWMQSYSHLNDIDGVERVFYEMCNEC---EDK--C-RWTTYSNLASIYVKAELFEKAELALKKLEEMKPR-----DRK  285 (485)
Q Consensus       217 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~--~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-----~~~  285 (485)
                      +..+...+...|++++|...+++.....   +.+  | ....+..+...+...|++++|...+++.....+.     ...
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            4556677888899999988888776521   221  2 3445666788888888899988888888773331     234


Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHhhhcCCC--ChhhHH-----HHHHHHHhcCChhHHHHHHHHHHHccCCCC---HHh
Q 048394          286 AYHFLISLYCNTSNLDAVNRVWGILKSTFPP--TNTSYL-----VLLQALAKLNAIDILKQCFEEWESRCSSYD---MRL  355 (485)
Q Consensus       286 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~  355 (485)
                      ++..+...+...|++++|...+++.......  ....+.     ..+..+...|+.++|...++........+.   ...
T Consensus       176 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  255 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  255 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHH
Confidence            5677778888888888888888877654222  211121     233446678888888888877765433211   224


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhcccccCC---ch-hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHH
Q 048394          356 ADVIIRAYLQKDMYEEAALIFNNAKKRANASAR---FF-KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVT  431 (485)
Q Consensus       356 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p---~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  431 (485)
                      +..+...+...|++++|...+++....... .+   +. ..+..+..++...|+.++|...+++........        
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~~~--------  326 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNENARS-LRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRT--------  326 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH--------
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHh-CcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhccc--------
Confidence            556777788888888888888887665320 11   11 245555666778888888888888887764111        


Q ss_pred             HHHHHHHHhhcCChhhHHHHHHHHhhcCCC
Q 048394          432 VDTFFRFFEEEKDVDGAEEFCKVLKSLNCL  461 (485)
Q Consensus       432 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  461 (485)
                        ..+..+...|  +....+++.+....|.
T Consensus       327 --g~~~~~~~~g--~~~~~ll~~~~~~~~~  352 (373)
T 1hz4_A          327 --GFISHFVIEG--EAMAQQLRQLIQLNTL  352 (373)
T ss_dssp             --CCCHHHHTTH--HHHHHHHHHHHHTTCS
T ss_pred             --cHHHHHHHcc--HHHHHHHHHHHhCCCC
Confidence              1223333444  5566677777776664

>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=99.54  E-value=4.4e-12  Score=108.25  Aligned_cols=209  Identities=8%  Similarity=-0.062  Sum_probs=148.7

Q ss_pred             CcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCC-CChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHH
Q 048394          248 CRWTTYSNLASIYVKAELFEKAELALKKLEEMKP-RDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQ  326 (485)
Q Consensus       248 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  326 (485)
                      .++..+...+..+...|++++|...|++..+..| ++...+..+..++...|++++|...+++.....+.+...+..+..
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   84 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSA   84 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHH
Confidence            3456666677777777777777777777777555 666777777777777777777777777777777767777777777


Q ss_pred             HHHhcCChhHHHHHHHHHHHccCCCCH-------HhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCc---hhHHHHH
Q 048394          327 ALAKLNAIDILKQCFEEWESRCSSYDM-------RLADVIIRAYLQKDMYEEAALIFNNAKKRANASARF---FKSRESF  396 (485)
Q Consensus       327 ~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~---~~~~~~l  396 (485)
                      .+...|++++|.+.+++..+..+. +.       ..|..+...+...|++++|...|++..+.    .|+   ...|..+
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~----~p~~~~~~~~~~l  159 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV----TSKKWKTDALYSL  159 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS----SCHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc----CCCcccHHHHHHH
Confidence            777788888888888777776443 34       45777778888889999999999988876    443   4566666


Q ss_pred             HHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHH
Q 048394          397 MIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTY  473 (485)
Q Consensus       397 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  473 (485)
                      ...|...|+     ..++++...     ...+...+....  ....+.+++|...++++.+..|.++.+...+..+.
T Consensus       160 ~~~~~~~~~-----~~~~~a~~~-----~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~  224 (228)
T 4i17_A          160 GVLFYNNGA-----DVLRKATPL-----ASSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVK  224 (228)
T ss_dssp             HHHHHHHHH-----HHHHHHGGG-----TTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHH-----HHHHHHHhc-----ccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHH
Confidence            666655543     344555444     223344444333  33456789999999999999999998888877654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.54  E-value=1.3e-12  Score=120.90  Aligned_cols=228  Identities=10%  Similarity=-0.031  Sum_probs=175.0

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcC--CC----ChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC-------Chh
Q 048394          253 YSNLASIYVKAELFEKAELALKKLEEMK--PR----DRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-------TNT  319 (485)
Q Consensus       253 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-------~~~  319 (485)
                      +...+..+...|++++|...++++....  .+    ...++..+...|...|+++.|...+.+.......       ...
T Consensus       104 ~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  183 (378)
T 3q15_A          104 LFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQ  183 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHH
T ss_pred             HHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHH
Confidence            3445667788999999999999998721  12    3567888999999999999999999987764322       345


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHccC--C---CCHHhHHHHHHHHHhcCcHHHHHHHHHHHHh-----cccccCCc
Q 048394          320 SYLVLLQALAKLNAIDILKQCFEEWESRCS--S---YDMRLADVIIRAYLQKDMYEEAALIFNNAKK-----RANASARF  389 (485)
Q Consensus       320 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~p~  389 (485)
                      +++.+...|...|++++|.+.+++..+...  .   ....++..+..+|...|++++|...+++..+     ..   +..
T Consensus       184 ~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~---~~~  260 (378)
T 3q15_A          184 SLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP---DLL  260 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG---GGH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC---hhH
Confidence            778899999999999999999998876321  1   1245778899999999999999999999887     33   233


Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCC---hhhHHHHHHHHhhcCCCCHHHH
Q 048394          390 FKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKD---VDGAEEFCKVLKSLNCLDFSAY  466 (485)
Q Consensus       390 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~A~~~~~~~~~~~~~~~~~~  466 (485)
                      ..++..+...|.+.|++++|...+++..+.....+.+.....+..+...+...++   +.+|...+++. ...+.....+
T Consensus       261 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~  339 (378)
T 3q15_A          261 PKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACA  339 (378)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHH
Confidence            5677888899999999999999999999875332233334456666677778888   77777777662 2223456678


Q ss_pred             HHHHHHHHHhCCCcchhc
Q 048394          467 SLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       467 ~~l~~~~~~~g~~~~A~~  484 (485)
                      ..++..|...|++++|++
T Consensus       340 ~~la~~y~~~g~~~~A~~  357 (378)
T 3q15_A          340 RSAAAVFESSCHFEQAAA  357 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHH
Confidence            899999999999999974

>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=1.5e-12  Score=106.96  Aligned_cols=166  Identities=14%  Similarity=0.042  Sum_probs=84.3

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhc
Q 048394          287 YHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQK  366 (485)
Q Consensus       287 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  366 (485)
                      +..+...+...|++++|...++++....+.+...+..+...+...|++++|...++++.+..+. +...+..+...+...
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~   89 (186)
T 3as5_A           11 YRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADAPD-NVKVATVLGLTYVQV   89 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHh
Confidence            3344444444455555555554444444444444444555555555555555555554444322 344445555555555


Q ss_pred             CcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChh
Q 048394          367 DMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVD  446 (485)
Q Consensus       367 ~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  446 (485)
                      |++++|...++++.+..   +.+...+..+...+...|++++|...++++...     .+.+...+..+...+...|+++
T Consensus        90 ~~~~~A~~~~~~~~~~~---~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-----~~~~~~~~~~la~~~~~~~~~~  161 (186)
T 3as5_A           90 QKYDLAVPLLIKVAEAN---PINFNVRFRLGVALDNLGRFDEAIDSFKIALGL-----RPNEGKVHRAIAFSYEQMGRHE  161 (186)
T ss_dssp             TCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCHH
T ss_pred             cCHHHHHHHHHHHHhcC---cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhc-----CccchHHHHHHHHHHHHcCCHH
Confidence            55555555555555442   233444455555555555555555555555554     2334455555555555555566


Q ss_pred             hHHHHHHHHhhcCCC
Q 048394          447 GAEEFCKVLKSLNCL  461 (485)
Q Consensus       447 ~A~~~~~~~~~~~~~  461 (485)
                      +|...++++.+..|.
T Consensus       162 ~A~~~~~~~~~~~~~  176 (186)
T 3as5_A          162 EALPHFKKANELDEG  176 (186)
T ss_dssp             HHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHcCCC
Confidence            665555555554443

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.50  E-value=5.4e-11  Score=109.76  Aligned_cols=295  Identities=13%  Similarity=0.072  Sum_probs=203.0

Q ss_pred             HHHHHHHHhhCCHHHHHHHHHhhcc-cCCC-H----hHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCC-CC----hhhHH
Q 048394          115 AVYLDLTAKTNGIAAAEKYFNGLSE-YAKN-R----YTYGALLNCYCKELMTERALALFEKMDELKFL-GN----TVAFN  183 (485)
Q Consensus       115 ~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~-~----~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~-p~----~~~~~  183 (485)
                      ......+...|++++|...+++... .+++ .    .+++.+...+...|++++|...+++....... ++    ..++.
T Consensus        18 ~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   97 (373)
T 1hz4_A           18 ALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLI   97 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            3344566678999999999988766 2222 2    24666777888899999999999887653211 11    12356


Q ss_pred             HHHHHHHhCCCcccHHHHHHHHHHc----CCC--c-cHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccC---CCCcHHHH
Q 048394          184 NLSTMYLRLGQPEKVRPLVNQMKQR----NIS--L-DNLTYIVWMQSYSHLNDIDGVERVFYEMCNECE---DKCRWTTY  253 (485)
Q Consensus       184 ~l~~~~~~~g~~~~a~~~~~~~~~~----~~~--p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~  253 (485)
                      .+...+...|++++|...+++..+.    +..  | ....+..+...+...|++++|...+++......   .+....++
T Consensus        98 ~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  177 (373)
T 1hz4_A           98 QQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCL  177 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHH
Confidence            6777888999999999999998864    211  2 234566677888899999999999998776221   11134567


Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhc-CC-CChHHHH-----HHHHHHHhcCChhhHHHHHHHhhhcCCCC----hhhHH
Q 048394          254 SNLASIYVKAELFEKAELALKKLEEM-KP-RDRKAYH-----FLISLYCNTSNLDAVNRVWGILKSTFPPT----NTSYL  322 (485)
Q Consensus       254 ~~l~~~~~~~~~~~~A~~~~~~~~~~-~~-~~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~  322 (485)
                      ..+...+...|++++|...+++.... .. .....+.     ..+..+...|++++|...+++.....+.+    ...+.
T Consensus       178 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~  257 (373)
T 1hz4_A          178 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWR  257 (373)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHH
Confidence            77888899999999999999988762 22 1212222     23344778999999999999887654432    22456


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHccCCCC-----HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHH
Q 048394          323 VLLQALAKLNAIDILKQCFEEWESRCSSYD-----MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFM  397 (485)
Q Consensus       323 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~  397 (485)
                      .+...+...|++++|...++..........     ...+..+..++...|+.++|...+++......   +     ...+
T Consensus       258 ~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~---~-----~g~~  329 (373)
T 1hz4_A          258 NIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLAN---R-----TGFI  329 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH---H-----HCCC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhc---c-----ccHH
Confidence            778888899999999999998876532211     12556677788889999999999998887632   1     1122


Q ss_pred             HHHHhcccHHHHHHHHHHHHHH
Q 048394          398 IYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       398 ~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      ..+...|  +....+++.+...
T Consensus       330 ~~~~~~g--~~~~~ll~~~~~~  349 (373)
T 1hz4_A          330 SHFVIEG--EAMAQQLRQLIQL  349 (373)
T ss_dssp             HHHHTTH--HHHHHHHHHHHHT
T ss_pred             HHHHHcc--HHHHHHHHHHHhC
Confidence            3445555  5566677776665

>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=99.50  E-value=4.8e-12  Score=103.89  Aligned_cols=161  Identities=17%  Similarity=0.097  Sum_probs=73.1

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHh
Q 048394          217 YIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCN  296 (485)
Q Consensus       217 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  296 (485)
                      +..+...+...|++++|...++.+.+  ..+.+...+..++.++...|++++|...++++.+..|.+...+..+...+..
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~   88 (186)
T 3as5_A           11 YRDKGISHAKAGRYSQAVMLLEQVYD--ADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADAPDNVKVATVLGLTYVQ   88 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTTTCC--TTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHH--hCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHH
Confidence            33344444445555555555554443  2333444444444555555555555555555444444444444444444444


Q ss_pred             cCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHH
Q 048394          297 TSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIF  376 (485)
Q Consensus       297 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  376 (485)
                      .|++++|...++++....+.+...+..+...+...|++++|.+.++++.+..+. +...+..+...+...|++++|...+
T Consensus        89 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~  167 (186)
T 3as5_A           89 VQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPN-EGKVHRAIAFSYEQMGRHEEALPHF  167 (186)
T ss_dssp             HTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCHHHHHHHH
Confidence            444444444444444444334444444444444444444444444444433222 3334444444444444444444444


Q ss_pred             HHHH
Q 048394          377 NNAK  380 (485)
Q Consensus       377 ~~~~  380 (485)
                      +++.
T Consensus       168 ~~~~  171 (186)
T 3as5_A          168 KKAN  171 (186)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>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=99.49  E-value=1.6e-12  Score=128.59  Aligned_cols=170  Identities=15%  Similarity=0.032  Sum_probs=122.3

Q ss_pred             CCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHH
Q 048394          246 DKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLL  325 (485)
Q Consensus       246 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  325 (485)
                      .|.+..+|+.+..+|.+.|++++|+..|++..+..|.+..+|..+..+|.+.|++++|+..|++..+..+.+..+|..+.
T Consensus         5 ~P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~~~a~~nLg   84 (723)
T 4gyw_A            5 CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMG   84 (723)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            34456677777777777777777777777777777777777777777777777777777777777777776777777777


Q ss_pred             HHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhccc
Q 048394          326 QALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQ  405 (485)
Q Consensus       326 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  405 (485)
                      .++...|++++|++.|++..+..+. +...|+.+..+|...|++++|+..|++.++..   +-+...+..+...+...|+
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~---P~~~~a~~~L~~~l~~~g~  160 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLK---PDFPDAYCNLAHCLQIVCD  160 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---SCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCChHHHhhhhhHHHhccc
Confidence            7777777777777777777766544 56677777777777777777777777777653   3344566667777777777


Q ss_pred             HHHHHHHHHHHHHH
Q 048394          406 LDLALNEMEAALSE  419 (485)
Q Consensus       406 ~~~A~~~~~~~~~~  419 (485)
                      +++|.+.++++++.
T Consensus       161 ~~~A~~~~~kal~l  174 (723)
T 4gyw_A          161 WTDYDERMKKLVSI  174 (723)
T ss_dssp             CTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            77777777776665

>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=99.49  E-value=1.8e-12  Score=128.28  Aligned_cols=167  Identities=9%  Similarity=-0.045  Sum_probs=156.5

Q ss_pred             cHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHH
Q 048394          213 DNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLIS  292 (485)
Q Consensus       213 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  292 (485)
                      +...++.+...|.+.|++++|++.|++..+  ..+.+..++..+..+|.+.|++++|+..|+++.+..|.+..+|..+..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~--l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALE--VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            467899999999999999999999999998  567788999999999999999999999999999999999999999999


Q ss_pred             HHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHH
Q 048394          293 LYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEA  372 (485)
Q Consensus       293 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  372 (485)
                      +|...|++++|.+.|++..+..+.+..++..+..++...|++++|++.|++..+..+. +...+..+..+|...|++++|
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~-~~~a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPD-FPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHhhhhhHHHhcccHHHH
Confidence            9999999999999999999999889999999999999999999999999999998666 788899999999999999999


Q ss_pred             HHHHHHHHhc
Q 048394          373 ALIFNNAKKR  382 (485)
Q Consensus       373 ~~~~~~~~~~  382 (485)
                      .+.++++.+.
T Consensus       165 ~~~~~kal~l  174 (723)
T 4gyw_A          165 DERMKKLVSI  174 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998875

>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=99.46  E-value=1.2e-11  Score=105.41  Aligned_cols=193  Identities=8%  Similarity=-0.031  Sum_probs=91.1

Q ss_pred             hhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHH
Q 048394          180 VAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASI  259 (485)
Q Consensus       180 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  259 (485)
                      ..+......+...|++++|+..|++..+....++...+..+..++...|++++|++.++...+  ..+.+...+..+..+
T Consensus         8 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~   85 (228)
T 4i17_A            8 NQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIK--KNYNLANAYIGKSAA   85 (228)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TTCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHH--hCcchHHHHHHHHHH
Confidence            344444444444444444444444444432213344444444455555555555555555544  333344445555555


Q ss_pred             HHhcccHHHHHHHHHHHHhcCCCCh-------HHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC--ChhhHHHHHHHHHh
Q 048394          260 YVKAELFEKAELALKKLEEMKPRDR-------KAYHFLISLYCNTSNLDAVNRVWGILKSTFPP--TNTSYLVLLQALAK  330 (485)
Q Consensus       260 ~~~~~~~~~A~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~  330 (485)
                      |...|++++|...+++..+..|.+.       ..|..+...+...|++++|...++++.+..+.  +...+..+..++..
T Consensus        86 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~  165 (228)
T 4i17_A           86 YRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVLFYN  165 (228)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHH
Confidence            5555555555555555555444444       33455555555555555555555555555544  44555555555443


Q ss_pred             cCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhc
Q 048394          331 LNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKR  382 (485)
Q Consensus       331 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  382 (485)
                      .|     ..+++.+...+.. +...|....  ....+.+++|...|++..+.
T Consensus       166 ~~-----~~~~~~a~~~~~~-~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l  209 (228)
T 4i17_A          166 NG-----ADVLRKATPLASS-NKEKYASEK--AKADAAFKKAVDYLGEAVTL  209 (228)
T ss_dssp             HH-----HHHHHHHGGGTTT-CHHHHHHHH--HHHHHHHHHHHHHHHHHHHH
T ss_pred             HH-----HHHHHHHHhcccC-CHHHHHHHH--HHHHHHHHHHHHHHHHHhhc
Confidence            32     2223333332211 222332222  12334566666666666655

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.44  E-value=1.9e-11  Score=106.64  Aligned_cols=214  Identities=11%  Similarity=0.022  Sum_probs=132.9

Q ss_pred             CCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCC---hHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC---Chhh
Q 048394          247 KCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRD---RKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP---TNTS  320 (485)
Q Consensus       247 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~  320 (485)
                      +.+...+..++..+.+.|++++|...|+++.+..|.+   ..++..+..+|...|++++|...|+++....|.   ...+
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            3445555556666666666666666666666655544   556666666666666666666666666665543   2344


Q ss_pred             HHHHHHHHHh--------cCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhH
Q 048394          321 YLVLLQALAK--------LNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKS  392 (485)
Q Consensus       321 ~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~  392 (485)
                      +..+..++..        .|++++|...|+++.+..+. +......+              ..+..+...-      ...
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~--------------~~~~~~~~~~------~~~  150 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPN-HELVDDAT--------------QKIRELRAKL------ARK  150 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTT-CTTHHHHH--------------HHHHHHHHHH------HHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcC-chhHHHHH--------------HHHHHHHHHH------HHH
Confidence            5555555555        56666666666666554332 11111111              1111111000      011


Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhc----------CChhhHHHHHHHHhhcCCCC
Q 048394          393 RESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEE----------KDVDGAEEFCKVLKSLNCLD  462 (485)
Q Consensus       393 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------~~~~~A~~~~~~~~~~~~~~  462 (485)
                      +..+...|.+.|++++|+..|+++++..+.  .......+..+..++...          |++++|...++++.+..|.+
T Consensus       151 ~~~la~~~~~~g~~~~A~~~~~~~l~~~p~--~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~  228 (261)
T 3qky_A          151 QYEAARLYERRELYEAAAVTYEAVFDAYPD--TPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDS  228 (261)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--STTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHCCC--CchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCC
Confidence            345677889999999999999999987410  111345677777788766          88999999999999999887


Q ss_pred             H---HHHHHHHHHHHHhCCCcchh
Q 048394          463 F---SAYSLLIKTYIAAGKLASDM  483 (485)
Q Consensus       463 ~---~~~~~l~~~~~~~g~~~~A~  483 (485)
                      +   .+...+..++.+.++++++.
T Consensus       229 ~~~~~a~~~l~~~~~~~~~~~~~~  252 (261)
T 3qky_A          229 PLLRTAEELYTRARQRLTELEGDA  252 (261)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHTCT
T ss_pred             hHHHHHHHHHHHHHHHHHHhhhhh
Confidence            4   56777788888877776654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.44  E-value=1e-11  Score=110.22  Aligned_cols=187  Identities=10%  Similarity=-0.004  Sum_probs=113.7

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC------ChhhHHHHHHHHHhc-CChhHHHHHHHHHHHccCCC-C----
Q 048394          285 KAYHFLISLYCNTSNLDAVNRVWGILKSTFPP------TNTSYLVLLQALAKL-NAIDILKQCFEEWESRCSSY-D----  352 (485)
Q Consensus       285 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~-~----  352 (485)
                      .+|+.+..+|...|++++|...+++.....+.      ...++..+...|... |++++|+..|++..+..... +    
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            34455555555555555555555544432211      134566677777775 88888888888776543211 1    


Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCch------hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCC
Q 048394          353 MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFF------KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWR  426 (485)
Q Consensus       353 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  426 (485)
                      ..++..+...+...|++++|...|++..+...  ....      ..|..+...+...|++++|...|++.+...+.....
T Consensus       158 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~--~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~  235 (292)
T 1qqe_A          158 NKCFIKCADLKALDGQYIEASDIYSKLIKSSM--GNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADS  235 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTS--SCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-------
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHh--cCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCc
Confidence            34677788888889999999999988887642  2211      145666777888899999999998887643111000


Q ss_pred             ccHHHHHHHHHHHh--hcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHH
Q 048394          427 PMQVTVDTFFRFFE--EEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTY  473 (485)
Q Consensus       427 ~~~~~~~~l~~~~~--~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  473 (485)
                      .....+..++.++.  ..+++++|...|+++.+.+|.....+..+-..+
T Consensus       236 ~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~~~~~~~~k~~~  284 (292)
T 1qqe_A          236 RESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKITILNKIKESI  284 (292)
T ss_dssp             --HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHHHHHHHHHHHHh
Confidence            11123444555554  456688888888777777666655555554444

>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=99.40  E-value=8e-12  Score=110.26  Aligned_cols=227  Identities=17%  Similarity=0.110  Sum_probs=132.6

Q ss_pred             HhCCCcccHHHHHHHHHHc-------CCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhc------cCCCCcHHHHHHH
Q 048394          190 LRLGQPEKVRPLVNQMKQR-------NISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNE------CEDKCRWTTYSNL  256 (485)
Q Consensus       190 ~~~g~~~~a~~~~~~~~~~-------~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~~l  256 (485)
                      ...|++++|+.+|++..+.       ..+....++..+...|...|++++|...++++.+.      ...+....++..+
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            3456666666666666542       11223455666677777777777777777776652      1123345566777


Q ss_pred             HHHHHhcccHHHHHHHHHHHHhc--------CCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhc--------CCCChhh
Q 048394          257 ASIYVKAELFEKAELALKKLEEM--------KPRDRKAYHFLISLYCNTSNLDAVNRVWGILKST--------FPPTNTS  320 (485)
Q Consensus       257 ~~~~~~~~~~~~A~~~~~~~~~~--------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~  320 (485)
                      ..+|...|++++|...++++...        .|....++..+...|...|++++|...++++...        .+....+
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            77777777777777777776663        2334566777777777777777777777776654        1114566


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcc-------CCCC-HHhHHHHHHHHHhcCc------HHHHHHHHHHHHhccccc
Q 048394          321 YLVLLQALAKLNAIDILKQCFEEWESRC-------SSYD-MRLADVIIRAYLQKDM------YEEAALIFNNAKKRANAS  386 (485)
Q Consensus       321 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~-~~~~~~l~~~~~~~~~------~~~A~~~~~~~~~~~~~~  386 (485)
                      +..+...+...|++++|.+.++++.+..       ..+. ...+..+...+...+.      +..+...++..... .  
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~--  248 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVD-S--  248 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCC-C--
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCC-C--
Confidence            7777777777888888887777766531       1111 2233333333332222      22222222222111 1  


Q ss_pred             CCchhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          387 ARFFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       387 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      .....++..+...|...|++++|..++++.++.
T Consensus       249 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          249 PTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            223456677778888888888888888887654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.37  E-value=3.9e-10  Score=97.96  Aligned_cols=190  Identities=12%  Similarity=0.032  Sum_probs=129.5

Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCC--CChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 048394          269 AELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFP--PTNTSYLVLLQALAKLNAIDILKQCFEEWES  346 (485)
Q Consensus       269 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  346 (485)
                      |...|++.....+++..++..+..++...|++++|++++.+....++  .+...+..++..+.+.|+.+.|.+.++.|.+
T Consensus        85 a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~  164 (310)
T 3mv2_B           85 NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN  164 (310)
T ss_dssp             CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            56666665554445566666777778888888888888887776665  3677777788888888888888888888876


Q ss_pred             ccCCC-----CHHhHHHHHHH--HHh--cCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHH
Q 048394          347 RCSSY-----DMRLADVIIRA--YLQ--KDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAAL  417 (485)
Q Consensus       347 ~~~~~-----~~~~~~~l~~~--~~~--~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  417 (485)
                      .  .|     +..+...|..+  ...  .+++.+|..+|+++.+.    .|+..+-..++.++.+.|++++|.+.++.+.
T Consensus       165 ~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~----~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          165 A--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT----FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             H--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT----SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             c--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh----CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5  33     23444445544  222  33888889999888765    5553333444557888999999999988776


Q ss_pred             HHhhhcC-----CCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHH
Q 048394          418 SEAKQFH-----WRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAY  466 (485)
Q Consensus       418 ~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  466 (485)
                      +.....+     .+.++.++..++......|+  +|.++++++.+..|.++.+.
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i~  290 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFIK  290 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHHH
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHHH
Confidence            5421000     03466677667666666676  78899999999888877653

>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=99.36  E-value=6.4e-12  Score=99.16  Aligned_cols=146  Identities=11%  Similarity=0.016  Sum_probs=120.4

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhc
Q 048394          324 LLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRS  403 (485)
Q Consensus       324 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  403 (485)
                      |...+...|++++|++.++......+. +...+..+...|.+.|++++|...|++.++.+   +-+..+|..+...|.+.
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~p~-~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~---p~~~~a~~~lg~~~~~~   78 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSPRQ-KSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ---ERDPKAHRFLGLLYELE   78 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSHHH-HHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHT
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHc
Confidence            344556678889999988887665433 45566678999999999999999999999875   45677889999999999


Q ss_pred             ccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHH-HHHHhhcCCCCHHHHHHHHHHHHHhCC
Q 048394          404 RQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEF-CKVLKSLNCLDFSAYSLLIKTYIAAGK  478 (485)
Q Consensus       404 g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~-~~~~~~~~~~~~~~~~~l~~~~~~~g~  478 (485)
                      |++++|+..|+++++.     .+-+...+..+...+.+.|++++|.+. ++++.+..|.++.+|......+...|+
T Consensus        79 ~~~~~A~~~~~~al~~-----~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           79 ENTDKAVECYRRSVEL-----NPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             TCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             CchHHHHHHHHHHHHh-----CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            9999999999999997     445678899999999999999876654 699999999999999999999988875

>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=99.36  E-value=1.4e-11  Score=122.61  Aligned_cols=173  Identities=13%  Similarity=-0.012  Sum_probs=89.0

Q ss_pred             HhcCChhhHHHHHHHhh--------hcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhc
Q 048394          295 CNTSNLDAVNRVWGILK--------STFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQK  366 (485)
Q Consensus       295 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  366 (485)
                      ...|++++|.+.+++..        +..+.+...+..+..++...|++++|.+.|+++.+..+. +...|..+..+|...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHHc
Confidence            44555555555555554        333334455555555555555555555555555554433 444555555555555


Q ss_pred             CcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChh
Q 048394          367 DMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVD  446 (485)
Q Consensus       367 ~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  446 (485)
                      |++++|...|++..+.+   +.+...|..+...|.+.|++++ +..|+++++.     .+.+...|..+..++.+.|+++
T Consensus       481 g~~~~A~~~~~~al~l~---P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~-----~P~~~~a~~~lg~~~~~~g~~~  551 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTF---PGELAPKLALAATAELAGNTDE-HKFYQTVWST-----NDGVISAAFGLARARSAEGDRV  551 (681)
T ss_dssp             TCHHHHHHHHHHHHHHS---TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCHH
T ss_pred             CCHHHHHHHHHHHHHhC---CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHh-----CCchHHHHHHHHHHHHHcCCHH
Confidence            55555555555555442   2233444455555555555555 5555555554     2233445555555555555555


Q ss_pred             hHHHHHHHHhhcCCCCHHHHHHHHHHHHHhC
Q 048394          447 GAEEFCKVLKSLNCLDFSAYSLLIKTYIAAG  477 (485)
Q Consensus       447 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  477 (485)
                      +|.+.|+++.+..|.+..+|..++.++...|
T Consensus       552 ~A~~~~~~al~l~P~~~~a~~~~~~~~~~~~  582 (681)
T 2pzi_A          552 GAVRTLDEVPPTSRHFTTARLTSAVTLLSGR  582 (681)
T ss_dssp             HHHHHHHTSCTTSTTHHHHHHHHHHHTC---
T ss_pred             HHHHHHHhhcccCcccHHHHHHHHHHHHccC
Confidence            5555555555555555555555555554433

>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=99.35  E-value=1.9e-11  Score=107.80  Aligned_cols=229  Identities=10%  Similarity=0.050  Sum_probs=162.3

Q ss_pred             HhcCCHhHHHHHHHHHHhc------cCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--------CCCChHHHHHH
Q 048394          225 SHLNDIDGVERVFYEMCNE------CEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEM--------KPRDRKAYHFL  290 (485)
Q Consensus       225 ~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--------~~~~~~~~~~l  290 (485)
                      ...|++++|+..+++..+.      ...+....++..+..+|...|++++|...++++...        .+....++..+
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            4567777777777766551      123446778889999999999999999999998873        23446788999


Q ss_pred             HHHHHhcCChhhHHHHHHHhhhcC-----C--C-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHc------cCCC-CHHh
Q 048394          291 ISLYCNTSNLDAVNRVWGILKSTF-----P--P-TNTSYLVLLQALAKLNAIDILKQCFEEWESR------CSSY-DMRL  355 (485)
Q Consensus       291 ~~~~~~~~~~~~a~~~~~~~~~~~-----~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~  355 (485)
                      ...|...|++++|...++++....     +  + ...++..+...+...|++++|...++++.+.      +..| ...+
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            999999999999999999887652     1  2 6778899999999999999999999998765      1122 3567


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhccc-----ccCC-chhHHHHHHHHHHhc------ccHHHHHHHHHHHHHHhhhc
Q 048394          356 ADVIIRAYLQKDMYEEAALIFNNAKKRAN-----ASAR-FFKSRESFMIYYLRS------RQLDLALNEMEAALSEAKQF  423 (485)
Q Consensus       356 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-----~~~p-~~~~~~~l~~~~~~~------g~~~~A~~~~~~~~~~~~~~  423 (485)
                      +..+...|...|++++|..+++++.+...     ...+ ....|..+...+...      ..+..+...++......   
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---  248 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDS---  248 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCC---
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCC---
Confidence            88899999999999999999999876410     0022 222333333333322      22344444444433222   


Q ss_pred             CCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhc
Q 048394          424 HWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSL  458 (485)
Q Consensus       424 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  458 (485)
                        +....++..+...+...|++++|..+++++.+.
T Consensus       249 --~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          249 --PTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             --HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             --HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence              034567888999999999999999999998875

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.34  E-value=1.6e-10  Score=100.77  Aligned_cols=189  Identities=12%  Similarity=0.065  Sum_probs=142.3

Q ss_pred             ccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCc---HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCC---ChH
Q 048394          212 LDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCR---WTTYSNLASIYVKAELFEKAELALKKLEEMKPR---DRK  285 (485)
Q Consensus       212 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~  285 (485)
                      .+...+..+...+.+.|++++|+..|+.+.+  ..+.+   ...+..++.+|.+.|++++|...|+++.+..|.   ...
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~--~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~   90 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFT--YGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQ   90 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGG--GCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHH--hCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHH
Confidence            3566677788889999999999999999998  34444   778888999999999999999999999996553   356


Q ss_pred             HHHHHHHHHHh--------cCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHH
Q 048394          286 AYHFLISLYCN--------TSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLAD  357 (485)
Q Consensus       286 ~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  357 (485)
                      ++..+..++..        .|++++|...|+++....|.+......+....              .+...    ....+.
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~--------------~~~~~----~~~~~~  152 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIR--------------ELRAK----LARKQY  152 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHH--------------HHHHH----HHHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHHH--------------HHHHH----HHHHHH
Confidence            78888889988        99999999999999998887554443322111              11110    111245


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhc----------ccHHHHHHHHHHHHHHh
Q 048394          358 VIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRS----------RQLDLALNEMEAALSEA  420 (485)
Q Consensus       358 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~  420 (485)
                      .+...|...|++++|...|+++++...........+..+..+|...          |++++|...|+++++..
T Consensus       153 ~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~  225 (261)
T 3qky_A          153 EAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF  225 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC
Confidence            5778889999999999999998876320011234566777777765          88999999999999874

>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=8.4e-11  Score=104.30  Aligned_cols=192  Identities=11%  Similarity=0.006  Sum_probs=92.2

Q ss_pred             HHhCCCcccHHHHHHHHHHc----CCCcc-HHHHHHHHHHHHhcCCHhHHHHHHHHHHhcc---CCCC-cHHHHHHHHHH
Q 048394          189 YLRLGQPEKVRPLVNQMKQR----NISLD-NLTYIVWMQSYSHLNDIDGVERVFYEMCNEC---EDKC-RWTTYSNLASI  259 (485)
Q Consensus       189 ~~~~g~~~~a~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~-~~~~~~~l~~~  259 (485)
                      |...|++++|...|++..+.    |-.++ ..+|+.+..+|...|++++|+..+++..+..   +... ...++..+..+
T Consensus        47 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~  126 (292)
T 1qqe_A           47 YRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEI  126 (292)
T ss_dssp             HHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            44445555555555444331    11111 2344555555555555555555555544311   0000 12345555666


Q ss_pred             HHhc-ccHHHHHHHHHHHHhcCCCC------hHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChh-------hHHHHH
Q 048394          260 YVKA-ELFEKAELALKKLEEMKPRD------RKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNT-------SYLVLL  325 (485)
Q Consensus       260 ~~~~-~~~~~A~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~l~  325 (485)
                      |... |++++|+..|++..+..|.+      ..++..+...+...|++++|...|++.....+.+..       .+..+.
T Consensus       127 ~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg  206 (292)
T 1qqe_A          127 LENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKG  206 (292)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHH
T ss_pred             HHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHH
Confidence            6664 66666666666655532211      234555666666666666666666666555444111       345555


Q ss_pred             HHHHhcCChhHHHHHHHHHHHccCCC-C---HHhHHHHHHHHH--hcCcHHHHHHHHHHHH
Q 048394          326 QALAKLNAIDILKQCFEEWESRCSSY-D---MRLADVIIRAYL--QKDMYEEAALIFNNAK  380 (485)
Q Consensus       326 ~~~~~~~~~~~a~~~~~~~~~~~~~~-~---~~~~~~l~~~~~--~~~~~~~A~~~~~~~~  380 (485)
                      .++...|++++|...|++..+..+.. +   ...+..++..+.  ..+++++|...|+++.
T Consensus       207 ~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          207 LCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             HHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence            55666666666666666554432110 0   112233344443  3345666666665543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.34  E-value=2.4e-09  Score=94.08  Aligned_cols=235  Identities=7%  Similarity=-0.038  Sum_probs=178.4

Q ss_pred             HhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcc--cHHHHHHHHHHHHhcCCCChHHHHHHHHHH----Hhc---CCh
Q 048394          230 IDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAE--LFEKAELALKKLEEMKPRDRKAYHFLISLY----CNT---SNL  300 (485)
Q Consensus       230 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~~~  300 (485)
                      .++|++.++.+..  -.|.+..+++.-..++...+  ++++++..++.+....|.+..+|+.-...+    ...   +++
T Consensus        49 s~~aL~~t~~~L~--~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~  126 (306)
T 3dra_A           49 SERALHITELGIN--ELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDP  126 (306)
T ss_dssp             SHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCT
T ss_pred             CHHHHHHHHHHHH--HCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCH
Confidence            3577888877777  56666777777777777777  888888888888888887888887666555    444   678


Q ss_pred             hhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChh--HHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCc------HHHH
Q 048394          301 DAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAID--ILKQCFEEWESRCSSYDMRLADVIIRAYLQKDM------YEEA  372 (485)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~A  372 (485)
                      ++++.+++.+.+..+.+..+|+.-...+.+.|.++  ++++.++.+.+..+. |...|+.-...+...++      ++++
T Consensus       127 ~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~eE  205 (306)
T 3dra_A          127 YREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDEE  205 (306)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHHH
Confidence            88888888888888888888887777777788877  888888888887766 77777776666666666      8889


Q ss_pred             HHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHH-HHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHH
Q 048394          373 ALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDL-ALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEF  451 (485)
Q Consensus       373 ~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  451 (485)
                      ++.+++++..+   +-|...|+.+...+.+.|+... +..+..++.+.+.  ..+.++..+..+...+.+.|+.++|.++
T Consensus       206 l~~~~~aI~~~---p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~--~~~~s~~al~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          206 LNYVKDKIVKC---PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEK--DQVTSSFALETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHC---SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGG--TEESCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhC---CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccC--CCCCCHHHHHHHHHHHHccCCHHHHHHH
Confidence            99999888875   5567778777777777776444 5556666655420  0245777888888999999999999999


Q ss_pred             HHHHhh-cCCCCHHHHHHHHHH
Q 048394          452 CKVLKS-LNCLDFSAYSLLIKT  472 (485)
Q Consensus       452 ~~~~~~-~~~~~~~~~~~l~~~  472 (485)
                      ++.+.+ .+|.....|...+..
T Consensus       281 ~~~l~~~~Dpir~~yW~~~~~~  302 (306)
T 3dra_A          281 YDLLKSKYNPIRSNFWDYQISK  302 (306)
T ss_dssp             HHHHHHTTCGGGHHHHHHHHHT
T ss_pred             HHHHHhccChHHHHHHHHHHhh
Confidence            999986 688888888766543

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.32  E-value=6.3e-10  Score=96.67  Aligned_cols=242  Identities=12%  Similarity=0.031  Sum_probs=150.7

Q ss_pred             CCcHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHh
Q 048394           57 GGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNG  136 (485)
Q Consensus        57 ~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  136 (485)
                      .|....++++..+...........-..+++...|++...         ..-.|....+..+... ...+    |...|++
T Consensus        26 ~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~-~~~~----a~~~l~~   91 (310)
T 3mv2_B           26 TGNFVQCLQEIEKFSKVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQF-LDTK----NIEELEN   91 (310)
T ss_dssp             TTCHHHHTHHHHTSSCCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHH-HTTT----CCHHHHH
T ss_pred             hhHHHHHHHHHHhcCccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHH-hccc----HHHHHHH
Confidence            455666666543322222223333345667777776632         1112332233333222 2222    6677776


Q ss_pred             hcc-cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCC-CCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCc--
Q 048394          137 LSE-YAKNRYTYGALLNCYCKELMTERALALFEKMDELKF-LGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISL--  212 (485)
Q Consensus       137 ~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p--  212 (485)
                      ... ..++..++..+..++...|++++|++++.+.+..+. .-+...+..++..+.+.|+.+.|.+.+++|.+.  .|  
T Consensus        92 l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~d~  169 (310)
T 3mv2_B           92 LLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--IEDT  169 (310)
T ss_dssp             TTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCHH
T ss_pred             HHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--Cccc
Confidence            665 345666666777888888888888888888766553 115566777778888888888888888888764  45  


Q ss_pred             ---cHHHHHHHHHH--HHhcC--CHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhc------
Q 048394          213 ---DNLTYIVWMQS--YSHLN--DIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEM------  279 (485)
Q Consensus       213 ---~~~~~~~l~~~--~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~------  279 (485)
                         +..+...++.+  ....|  ++.+|..+|+++.+   ..|++.+...+..++.+.|++++|...++.+.+.      
T Consensus       170 ~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~---~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~  246 (310)
T 3mv2_B          170 VSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQ---TFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQ  246 (310)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHT---TSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTT
T ss_pred             cccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHH---hCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccc
Confidence               34555556555  23334  78888888888766   3444333344555788888888888888876553      


Q ss_pred             ----CCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChh
Q 048394          280 ----KPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNT  319 (485)
Q Consensus       280 ----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  319 (485)
                          .|.++.+...+|......|+  +|.++++++.+..|.++.
T Consensus       247 k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~  288 (310)
T 3mv2_B          247 KENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAF  288 (310)
T ss_dssp             CHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHH
T ss_pred             cccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChH
Confidence                35677777666666666676  777888888877776543

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.32  E-value=9.7e-11  Score=98.14  Aligned_cols=33  Identities=12%  Similarity=0.041  Sum_probs=17.4

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCCChHHHH
Q 048394          256 LASIYVKAELFEKAELALKKLEEMKPRDRKAYH  288 (485)
Q Consensus       256 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  288 (485)
                      .+..+...|++++|...|+++....|.+...|.
T Consensus        10 ~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~   42 (208)
T 3urz_A           10 KVSAAIEAGQNGQAVSYFRQTIALNIDRTEMYY   42 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHH
Confidence            444455556666666666665555444444433

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.30  E-value=3.1e-09  Score=100.93  Aligned_cols=93  Identities=10%  Similarity=0.087  Sum_probs=63.8

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCC-HHHHHHHHHhhcc----cCCCHhHHHHHHH
Q 048394           78 MLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNG-IAAAEKYFNGLSE----YAKNRYTYGALLN  152 (485)
Q Consensus        78 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~a~~~~~~~~~----~~~~~~~~~~li~  152 (485)
                      .|...+..+-. |+++.+..+|++....  .|+...|...+....+.++ .+....+|+....    ...+...|...+.
T Consensus        17 vyer~l~~~P~-~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~   93 (493)
T 2uy1_A           17 IMEHARRLYMS-KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIE   93 (493)
T ss_dssp             HHHHHHHHHHT-TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCC-CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHH
Confidence            33334443332 8899999999988775  3788888888888777663 4556677777665    2346678887776


Q ss_pred             HHH----hcCcHHHHHHHHHHHHhC
Q 048394          153 CYC----KELMTERALALFEKMDEL  173 (485)
Q Consensus       153 ~~~----~~~~~~~A~~~~~~m~~~  173 (485)
                      .+.    ..++++.+..+|++.+..
T Consensus        94 f~~~~~~~~~~~~~vR~iy~rAL~~  118 (493)
T 2uy1_A           94 EEGKIEDEQTRIEKIRNGYMRALQT  118 (493)
T ss_dssp             HTSSCSSHHHHHHHHHHHHHHHHTS
T ss_pred             HHHhchhhhHHHHHHHHHHHHHHhC
Confidence            543    346788899999998873

>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=99.30  E-value=5.9e-11  Score=118.03  Aligned_cols=173  Identities=6%  Similarity=-0.103  Sum_probs=99.1

Q ss_pred             HhcccHHHHHHHHHHHH--------hcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcC
Q 048394          261 VKAELFEKAELALKKLE--------EMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLN  332 (485)
Q Consensus       261 ~~~~~~~~A~~~~~~~~--------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  332 (485)
                      ...|++++|++.++++.        +..|.+...+..+..++...|++++|...++++.+..+.+...+..+..++...|
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g  481 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLTG  481 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHT
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHcC
Confidence            45566666666666665        4445555666666666666666666666666666665556666666666666666


Q ss_pred             ChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHH
Q 048394          333 AIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNE  412 (485)
Q Consensus       333 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  412 (485)
                      ++++|.+.|++..+..+. +...+..+..+|.+.|++++ ...|++..+.+   +.+...|..+...+.+.|++++|+..
T Consensus       482 ~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~---P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          482 DYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTN---DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             CHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC---CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            666666666666655443 45555556666666666666 66666665553   23344555566666666666666666


Q ss_pred             HHHHHHHhhhcCCCccHHHHHHHHHHHhhcC
Q 048394          413 MEAALSEAKQFHWRPMQVTVDTFFRFFEEEK  443 (485)
Q Consensus       413 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  443 (485)
                      |+++.+..     +.+...+..+..++...+
T Consensus       557 ~~~al~l~-----P~~~~a~~~~~~~~~~~~  582 (681)
T 2pzi_A          557 LDEVPPTS-----RHFTTARLTSAVTLLSGR  582 (681)
T ss_dssp             HHTSCTTS-----TTHHHHHHHHHHHTC---
T ss_pred             HHhhcccC-----cccHHHHHHHHHHHHccC
Confidence            66665542     222444555555554433

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.29  E-value=2.1e-09  Score=94.49  Aligned_cols=212  Identities=11%  Similarity=-0.027  Sum_probs=181.2

Q ss_pred             ccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcC--ChhhHHHHHHHhhhcCCCChhhHHHHHHHH----Hhc---CCh
Q 048394          264 ELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTS--NLDAVNRVWGILKSTFPPTNTSYLVLLQAL----AKL---NAI  334 (485)
Q Consensus       264 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~~~  334 (485)
                      ...++|+..++.+....|.+..+|+.-..++...|  ++++++..++.+....|.+..+|+.-...+    ...   +++
T Consensus        47 e~s~~aL~~t~~~L~~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~  126 (306)
T 3dra_A           47 EYSERALHITELGINELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDP  126 (306)
T ss_dssp             CCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCT
T ss_pred             CCCHHHHHHHHHHHHHCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCH
Confidence            34578999999999999999999999999999999  999999999999999999888887666655    555   789


Q ss_pred             hHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHH--HHHHHHHHHHhcccccCCchhHHHHHHHHHHhccc------H
Q 048394          335 DILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYE--EAALIFNNAKKRANASARFFKSRESFMIYYLRSRQ------L  406 (485)
Q Consensus       335 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~------~  406 (485)
                      ++++++++.+.+..++ +..+|+.-.-++.+.|.++  +++..++++++.+   .-|...|+.-...+.+.|.      +
T Consensus       127 ~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d---~~N~sAW~~R~~ll~~l~~~~~~~~~  202 (306)
T 3dra_A          127 YREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD---LKNNSAWSHRFFLLFSKKHLATDNTI  202 (306)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHSSGGGCCHHHH
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHhccccchhhhH
Confidence            9999999999998777 8889988877888888888  9999999999886   4566778776666667676      9


Q ss_pred             HHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChh-hHHHHHHHHhhcC---CCCHHHHHHHHHHHHHhCCCcch
Q 048394          407 DLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVD-GAEEFCKVLKSLN---CLDFSAYSLLIKTYIAAGKLASD  482 (485)
Q Consensus       407 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~A~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A  482 (485)
                      +++++.+++++..     .+-|...|+.+...+.+.|+.. .+..+++++.+.+   +.++.++..++.+|.+.|+.++|
T Consensus       203 ~eEl~~~~~aI~~-----~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A  277 (306)
T 3dra_A          203 DEELNYVKDKIVK-----CPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNES  277 (306)
T ss_dssp             HHHHHHHHHHHHH-----CSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHh-----CCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHH
Confidence            9999999999998     5678889998888888888744 4667888887766   77999999999999999999998


Q ss_pred             hc
Q 048394          483 MR  484 (485)
Q Consensus       483 ~~  484 (485)
                      ++
T Consensus       278 ~~  279 (306)
T 3dra_A          278 RT  279 (306)
T ss_dssp             HH
T ss_pred             HH
Confidence            74

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.29  E-value=1.6e-10  Score=96.75  Aligned_cols=131  Identities=15%  Similarity=0.039  Sum_probs=88.7

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCC--
Q 048394          256 LASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNA--  333 (485)
Q Consensus       256 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--  333 (485)
                      +..+|.+.|++++|...|++..+..|.+...+..+..++...|++++|...|+++.+..|.+..++..+...+...|+  
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~  139 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTAEQE  139 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhHHH
Confidence            777788888888888888888887777888888888888888888888888888888777777777777777765543  


Q ss_pred             hhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhH
Q 048394          334 IDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKS  392 (485)
Q Consensus       334 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~  392 (485)
                      .+.+...+.....  +.|....+.....++...|++++|...|++.++.    .|+...
T Consensus       140 ~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l----~P~~~~  192 (208)
T 3urz_A          140 KKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR----FPSTEA  192 (208)
T ss_dssp             HHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT----SCCHHH
T ss_pred             HHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh----CCCHHH
Confidence            3334444444432  2222223333455556667778888888877765    565443

>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=4.3e-10  Score=86.62  Aligned_cols=131  Identities=16%  Similarity=0.077  Sum_probs=79.5

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHH
Q 048394          321 YLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYY  400 (485)
Q Consensus       321 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~  400 (485)
                      +..++..+...|++++|..+++++.+..+. +...+..+...+...|++++|..+++++...+   +.+...+..+...+
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD---PRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcCCc-chhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC---CCchHHHHHHHHHH
Confidence            445555566666666666666666554433 45555556666666666666666666666543   33344555566666


Q ss_pred             HhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCC
Q 048394          401 LRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNC  460 (485)
Q Consensus       401 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  460 (485)
                      ...|++++|..+++++...     .+.+...+..+...+...|++++|...++++.+..|
T Consensus        80 ~~~~~~~~A~~~~~~~~~~-----~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~  134 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALEL-----DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP  134 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHST
T ss_pred             HHhcCHHHHHHHHHHHHHh-----CCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCC
Confidence            6666666666666666665     333455666666666666666666666666666554

>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=99.27  E-value=4.9e-10  Score=86.31  Aligned_cols=124  Identities=19%  Similarity=0.179  Sum_probs=53.0

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChh
Q 048394          256 LASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAID  335 (485)
Q Consensus       256 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  335 (485)
                      ++..+...|++++|...++++.+..|.+...+..+...+...|++++|...++++....+.+...+..+...+...|+++
T Consensus         7 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   86 (136)
T 2fo7_A            7 LGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYD   86 (136)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHHHHcCcHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHhcCHH
Confidence            44444444444444444444444333344444444444444444444444444444433333333444444444444444


Q ss_pred             HHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHH
Q 048394          336 ILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAK  380 (485)
Q Consensus       336 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  380 (485)
                      +|.+.++.+.+..+. +...+..+...+...|++++|...++++.
T Consensus        87 ~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~  130 (136)
T 2fo7_A           87 EAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKAL  130 (136)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHccHHHHHHHHHHHH
Confidence            444444444333221 23333334444444444444444444443

>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=99.27  E-value=4.6e-11  Score=94.21  Aligned_cols=142  Identities=15%  Similarity=0.070  Sum_probs=82.1

Q ss_pred             HHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhh
Q 048394          223 SYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDA  302 (485)
Q Consensus       223 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  302 (485)
                      .+...|++++|+..++....  ..+.+...+..+..+|.+.|++++|...|+++.+..|.+..+|..+..+|...|++++
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~--~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTP--SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSC--SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcChHHHHHHHHHHhcc--cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCchHH
Confidence            34455566666666665554  2333334444566666666666666666666666666666666666666666666666


Q ss_pred             HHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHH-HHHHHHccCCCCHHhHHHHHHHHHhcC
Q 048394          303 VNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQC-FEEWESRCSSYDMRLADVIIRAYLQKD  367 (485)
Q Consensus       303 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~  367 (485)
                      |...|++..+..|.+..++..+...+.+.|+.++|.+. +++..+..+. ++.+|......+...|
T Consensus        84 A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~-~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           84 AVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPG-SPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhC
Confidence            66666666666666666666666666666666554443 3555555443 4555555444444444

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.23  E-value=5.1e-10  Score=98.85  Aligned_cols=157  Identities=6%  Similarity=-0.057  Sum_probs=85.6

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHH
Q 048394          317 TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESF  396 (485)
Q Consensus       317 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l  396 (485)
                      +...+..+...+...|++++|...|+++.+..+. +...+..+...+...|++++|...++++...    .|+.......
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~----~p~~~~~~~~  190 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXTIPLQ----DQDTRYQGLV  190 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG----GCSHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHhCchh----hcchHHHHHH
Confidence            4444455555555556666666666655555443 4455555556666666666666666555444    3332222111


Q ss_pred             -HHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCC--HHHHHHHHHHH
Q 048394          397 -MIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLD--FSAYSLLIKTY  473 (485)
Q Consensus       397 -~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~--~~~~~~l~~~~  473 (485)
                       ...+...++.++|+..+++.+..     .+.+...+..+...+...|++++|...++++++..|.+  ..++..++.+|
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~-----~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~  265 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAE-----NPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEIL  265 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHH
T ss_pred             HHHHHHhhcccCccHHHHHHHHhc-----CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHH
Confidence             11234455555566666666555     33445555556666666666666666666666665554  55666666666


Q ss_pred             HHhCCCcchh
Q 048394          474 IAAGKLASDM  483 (485)
Q Consensus       474 ~~~g~~~~A~  483 (485)
                      ...|+.++|+
T Consensus       266 ~~~g~~~~a~  275 (287)
T 3qou_A          266 AALGTGDALA  275 (287)
T ss_dssp             HHHCTTCHHH
T ss_pred             HHcCCCCcHH
Confidence            6666665554

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.22  E-value=2.1e-09  Score=91.16  Aligned_cols=189  Identities=12%  Similarity=0.039  Sum_probs=128.2

Q ss_pred             cHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCC---hHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChh---hHH
Q 048394          249 RWTTYSNLASIYVKAELFEKAELALKKLEEMKPRD---RKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNT---SYL  322 (485)
Q Consensus       249 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~  322 (485)
                      +...+..++..+.+.|++++|...|+++.+..|.+   ...+..+..+|.+.|++++|...|+++.+..|.+..   ++.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            34556667788889999999999999998865544   357888889999999999999999999888877433   455


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchh-HH--------
Q 048394          323 VLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFK-SR--------  393 (485)
Q Consensus       323 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~-~~--------  393 (485)
                      .+..++...+..     .+            ..|..+...+...|++++|...|+++++.    .|+.. .+        
T Consensus        83 ~~g~~~~~~~~~-----~~------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~----~P~~~~a~~a~~~l~~  141 (225)
T 2yhc_A           83 MRGLTNMALDDS-----AL------------QGFFGVDRSDRDPQQARAAFSDFSKLVRG----YPNSQYTTDATKRLVF  141 (225)
T ss_dssp             HHHHHHHHHHC-------------------------------CCHHHHHHHHHHHHHHTT----CTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHhhhhh-----hh------------hhhhccchhhcCcHHHHHHHHHHHHHHHH----CcCChhHHHHHHHHHH
Confidence            555555543210     00            01112223334455666666666666654    22221 11        


Q ss_pred             ---------HHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCcc---HHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCC
Q 048394          394 ---------ESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPM---QVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL  461 (485)
Q Consensus       394 ---------~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  461 (485)
                               ..+...|.+.|++++|+..|+++++..     +.+   ...+..+..++.+.|++++|.+.++.+....|.
T Consensus       142 ~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-----p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~  216 (225)
T 2yhc_A          142 LKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDY-----PDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSN  216 (225)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-----TTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHC-----cCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC
Confidence                     244566788999999999999999873     222   256788889999999999999999999888776


Q ss_pred             CH
Q 048394          462 DF  463 (485)
Q Consensus       462 ~~  463 (485)
                      +.
T Consensus       217 ~~  218 (225)
T 2yhc_A          217 TL  218 (225)
T ss_dssp             CC
T ss_pred             ch
Confidence            53

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.22  E-value=9.1e-10  Score=97.24  Aligned_cols=170  Identities=14%  Similarity=-0.013  Sum_probs=118.3

Q ss_pred             CCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHH
Q 048394          247 KCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQ  326 (485)
Q Consensus       247 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  326 (485)
                      +.+...+..+...+...|++++|...|+++....|.+...+..+...+...|++++|...++++....+...........
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~~  193 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQI  193 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHHH
Confidence            44555666677777777888888888888777777777778888888888888888888887776666543333333444


Q ss_pred             HHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccH
Q 048394          327 ALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQL  406 (485)
Q Consensus       327 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  406 (485)
                      .+...++.+.|.+.+++..+..+. +...+..+...+...|++++|...|.++.+.... ..+...+..+...|...|+.
T Consensus       194 ~l~~~~~~~~a~~~l~~al~~~P~-~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~-~~~~~a~~~l~~~~~~~g~~  271 (287)
T 3qou_A          194 ELLXQAADTPEIQQLQQQVAENPE-DAALATQLALQLHQVGRNEEALELLFGHLRXDLT-AADGQTRXTFQEILAALGTG  271 (287)
T ss_dssp             HHHHHHTSCHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-GGGGHHHHHHHHHHHHHCTT
T ss_pred             HHHhhcccCccHHHHHHHHhcCCc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccc-cccchHHHHHHHHHHHcCCC
Confidence            455667777777777777776554 6667777777777788888888888777776310 11245667777777777777


Q ss_pred             HHHHHHHHHHHH
Q 048394          407 DLALNEMEAALS  418 (485)
Q Consensus       407 ~~A~~~~~~~~~  418 (485)
                      ++|...|++.+.
T Consensus       272 ~~a~~~~r~al~  283 (287)
T 3qou_A          272 DALASXYRRQLY  283 (287)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHH
Confidence            777777776654

>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=99.21  E-value=3.7e-10  Score=110.33  Aligned_cols=154  Identities=14%  Similarity=0.029  Sum_probs=115.1

Q ss_pred             cccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHH
Q 048394          263 AELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFE  342 (485)
Q Consensus       263 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  342 (485)
                      .|++++|...++++.+..|.+...+..+...+...|++++|...+++..+..+.+...+..+..++...|++++|.+.++
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~   81 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLLQ   81 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            47888899999988888888888899999999999999999999999988888788888889999999999999999999


Q ss_pred             HHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhc---ccHHHHHHHHHHHHHH
Q 048394          343 EWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRS---RQLDLALNEMEAALSE  419 (485)
Q Consensus       343 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~  419 (485)
                      +..+..+. +...+..+..+|...|++++|...|++..+..   +.+...+..+...+...   |+.++|.+.+++.++.
T Consensus        82 ~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           82 QASDAAPE-HPGIALWLGHALEDAGQAEAAAAAYTRAHQLL---PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            88887654 67788888888999999999999999888774   34556777888888888   8999999999998887


Q ss_pred             h
Q 048394          420 A  420 (485)
Q Consensus       420 ~  420 (485)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            4

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.21  E-value=1.3e-07  Score=89.91  Aligned_cols=369  Identities=11%  Similarity=0.021  Sum_probs=203.6

Q ss_pred             CchhHHHHHHhhcCCCCcHHHHHHHHHHh-CCCCCHHHHHHHHHHHHHcCC-hHHHHHHHHHHHhC-CC-CCChhhHHHH
Q 048394           42 NEDKLYKRLSALGATGGSVTGALNAYIME-GKTVRKDMLEYCVRSLRKFGR-YRHALEVIEWMESR-KM-HFSYTDFAVY  117 (485)
Q Consensus        42 ~~~~l~~~l~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~~~l~~~~~~~~~-~~~A~~~~~~~~~~-~~-~~~~~~~~~l  117 (485)
                      ....+|.+....-+. +....+-..+.+. ...|+...+...+....+.+. .+....+|+..... |. ..+...|...
T Consensus        13 ~aR~vyer~l~~~P~-~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Y   91 (493)
T 2uy1_A           13 SPSAIMEHARRLYMS-KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEY   91 (493)
T ss_dssp             CHHHHHHHHHHHHHT-TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHCCC-CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHH
Confidence            445566666554431 3444444444332 234788888888877777663 35567788876553 42 2356677777


Q ss_pred             HHHHH----hhCCHHHHHHHHHhhcccCCC--HhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 048394          118 LDLTA----KTNGIAAAEKYFNGLSEYAKN--RYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLR  191 (485)
Q Consensus       118 ~~~~~----~~g~~~~a~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~  191 (485)
                      +..+.    ..|+++.+.++|++....++.  ...|...... .+......+.+++.+..                    
T Consensus        92 i~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~f-E~~~~~~~~~~~~~~~~--------------------  150 (493)
T 2uy1_A           92 IEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENF-ELELNKITGKKIVGDTL--------------------  150 (493)
T ss_dssp             HHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHH-HHHHCHHHHHHHHHHHH--------------------
T ss_pred             HHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHH-HHHhccccHHHHHHHHh--------------------
Confidence            76654    356788899999998873222  1223322221 11122222333222211                    


Q ss_pred             CCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcC-------CHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcc
Q 048394          192 LGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLN-------DIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAE  264 (485)
Q Consensus       192 ~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  264 (485)
                       +.+..|..+++.+...--..+...|...+..-...+       ..+.+..+|+++..  ..+.+...|...+..+.+.|
T Consensus       151 -~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~--~~p~~~~lW~~ya~~~~~~~  227 (493)
T 2uy1_A          151 -PIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILD--SFYYAEEVYFFYSEYLIGIG  227 (493)
T ss_dssp             -HHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHH--HTTTCHHHHHHHHHHHHHTT
T ss_pred             -HHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHH--cCCCCHHHHHHHHHHHHHcC
Confidence             112223333333222100012223433333322110       02345667777776  45566777777777777788


Q ss_pred             cHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcC-----------CC--ChhhHHHHHHHHHhc
Q 048394          265 LFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTF-----------PP--TNTSYLVLLQALAKL  331 (485)
Q Consensus       265 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----------~~--~~~~~~~l~~~~~~~  331 (485)
                      +.+.|..++++.... |.+...|...    ....+.++.   ++.+....           ..  ....|...+....+.
T Consensus       228 ~~~~ar~i~erAi~~-P~~~~l~~~y----~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~  299 (493)
T 2uy1_A          228 QKEKAKKVVERGIEM-SDGMFLSLYY----GLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKK  299 (493)
T ss_dssp             CHHHHHHHHHHHHHH-CCSSHHHHHH----HHHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhC-CCcHHHHHHH----HhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHc
Confidence            888888888888877 6554444322    221112221   22222110           11  235566677777777


Q ss_pred             CChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHh-cCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHH
Q 048394          332 NAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQ-KDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLAL  410 (485)
Q Consensus       332 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  410 (485)
                      ++.+.|..+|+.. +. ...+..+|...+..-.. .++.+.|..+|+...+..   .-+...+...++...+.|+.+.|.
T Consensus       300 ~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~---~~~~~~~~~yid~e~~~~~~~~aR  374 (493)
T 2uy1_A          300 RGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH---PDSTLLKEEFFLFLLRIGDEENAR  374 (493)
T ss_dssp             HCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            8888999999888 32 22344444432222222 236888999998887752   112334555666667788888888


Q ss_pred             HHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhh
Q 048394          411 NEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKS  457 (485)
Q Consensus       411 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  457 (485)
                      .+|+++.         .....|...+..-...|+.+.+.+++++..+
T Consensus       375 ~l~er~~---------k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          375 ALFKRLE---------KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHSC---------CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHH---------HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            8888861         3567788888777778888888888887764

>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=92.72  Aligned_cols=161  Identities=13%  Similarity=0.025  Sum_probs=97.9

Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHH-HHhcC
Q 048394          254 SNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQA-LAKLN  332 (485)
Q Consensus       254 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~  332 (485)
                      ..+...+...|++++|...|+++.+..|.+...+..+..++...|++++|...++++....+ +...+..+... +...+
T Consensus        10 ~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~   88 (176)
T 2r5s_A           10 LKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEYQ-DNSYKSLIAKLELHQQA   88 (176)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGC-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccC-ChHHHHHHHHHHHHhhc
Confidence            34556666677777777777776666666677777777777777777777777776665555 43332222111 11222


Q ss_pred             ChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCC-chhHHHHHHHHHHhcccHHHHHH
Q 048394          333 AIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASAR-FFKSRESFMIYYLRSRQLDLALN  411 (485)
Q Consensus       333 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~  411 (485)
                      ....|...+++..+..+. +...+..+...+...|++++|...|+++.+...  .+ +...+..+...+...|+.++|..
T Consensus        89 ~~~~a~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p--~~~~~~a~~~l~~~~~~~g~~~~A~~  165 (176)
T 2r5s_A           89 AESPELKRLEQELAANPD-NFELACELAVQYNQVGRDEEALELLWNILKVNL--GAQDGEVKKTFMDILSALGQGNAIAS  165 (176)
T ss_dssp             TSCHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT--TTTTTHHHHHHHHHHHHHCSSCHHHH
T ss_pred             ccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCc--ccChHHHHHHHHHHHHHhCCCCcHHH
Confidence            233456666666665444 566666677777777777777777777666532  21 23456666666777777777777


Q ss_pred             HHHHHHH
Q 048394          412 EMEAALS  418 (485)
Q Consensus       412 ~~~~~~~  418 (485)
                      .|++.+.
T Consensus       166 ~y~~al~  172 (176)
T 2r5s_A          166 KYRRQLY  172 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7766654

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.20  E-value=3.9e-09  Score=89.51  Aligned_cols=103  Identities=6%  Similarity=-0.026  Sum_probs=62.8

Q ss_pred             hcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHH
Q 048394          296 NTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALI  375 (485)
Q Consensus       296 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  375 (485)
                      ..|++++|...|+++.+..|.+...........          .+...+.        .....+...|.+.|++++|...
T Consensus       108 ~~~~~~~A~~~~~~~l~~~P~~~~a~~a~~~l~----------~~~~~~~--------~~~~~~a~~~~~~~~~~~A~~~  169 (225)
T 2yhc_A          108 DPQQARAAFSDFSKLVRGYPNSQYTTDATKRLV----------FLKDRLA--------KYEYSVAEYYTERGAWVAVVNR  169 (225)
T ss_dssp             CCHHHHHHHHHHHHHHTTCTTCTTHHHHHHHHH----------HHHHHHH--------HHHHHHHHHHHHHTCHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHCcCChhHHHHHHHHH----------HHHHHHH--------HHHHHHHHHHHHcCcHHHHHHH
Confidence            356777777777777777666444332221110          0000000        0112356667778888888888


Q ss_pred             HHHHHhcccccCCc----hhHHHHHHHHHHhcccHHHHHHHHHHHHHHh
Q 048394          376 FNNAKKRANASARF----FKSRESFMIYYLRSRQLDLALNEMEAALSEA  420 (485)
Q Consensus       376 ~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  420 (485)
                      |+++++.    .|+    ...+..+..+|.+.|++++|.+.++.+...+
T Consensus       170 ~~~~l~~----~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          170 VEGMLRD----YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHH----STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHH----CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence            8888776    333    2456777778888888888888888777764

>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=99.17  E-value=5e-10  Score=91.03  Aligned_cols=158  Identities=9%  Similarity=-0.038  Sum_probs=76.9

Q ss_pred             HHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHH-HHhcC
Q 048394          220 WMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISL-YCNTS  298 (485)
Q Consensus       220 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~  298 (485)
                      +...+...|++++|...|++..+  ..|.+...+..+..++...|++++|...++++....| ++..+..+... +...+
T Consensus        12 ~a~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~   88 (176)
T 2r5s_A           12 QVSELLQQGEHAQALNVIQTLSD--ELQSRGDVKLAKADCLLETKQFELAQELLATIPLEYQ-DNSYKSLIAKLELHQQA   88 (176)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSCH--HHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGC-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH--HCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccC-ChHHHHHHHHHHHHhhc
Confidence            33444455555555555555444  3334444455555555555555555555555444333 33322222111 11112


Q ss_pred             ChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCC-CHHhHHHHHHHHHhcCcHHHHHHHHH
Q 048394          299 NLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSY-DMRLADVIIRAYLQKDMYEEAALIFN  377 (485)
Q Consensus       299 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~  377 (485)
                      ....|...+++.....|.+...+..+..++...|++++|...|+++.+..+.+ +...+..+...+...|+.++|...|+
T Consensus        89 ~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~  168 (176)
T 2r5s_A           89 AESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYR  168 (176)
T ss_dssp             TSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHH
T ss_pred             ccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHH
Confidence            22334555555555555555555555555555555555555555555544332 23445555555555555555555555


Q ss_pred             HHH
Q 048394          378 NAK  380 (485)
Q Consensus       378 ~~~  380 (485)
                      +..
T Consensus       169 ~al  171 (176)
T 2r5s_A          169 RQL  171 (176)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=99.16  E-value=1.3e-09  Score=106.59  Aligned_cols=156  Identities=10%  Similarity=0.068  Sum_probs=102.1

Q ss_pred             CCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHH
Q 048394          192 LGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAEL  271 (485)
Q Consensus       192 ~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  271 (485)
                      .|++++|++.|++..+.. +.+...+..+...+...|++++|.+.+++..+  ..+.+...+..+..+|...|++++|..
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLA--LHPGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT--TSTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            366777777777776642 23456677777777777778888777777776  455567777777777777777777777


Q ss_pred             HHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhc---CChhHHHHHHHHHHHcc
Q 048394          272 ALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKL---NAIDILKQCFEEWESRC  348 (485)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~  348 (485)
                      .+++..+..|.+...+..+..+|...|++++|...+++..+..+.+...+..+...+...   |+.++|.+.+++..+.+
T Consensus        79 ~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           79 LLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            777777777777777777777777777777777777777777766777777777777777   77777777777777765


Q ss_pred             CC
Q 048394          349 SS  350 (485)
Q Consensus       349 ~~  350 (485)
                      +.
T Consensus       159 p~  160 (568)
T 2vsy_A          159 VG  160 (568)
T ss_dssp             CC
T ss_pred             Cc
Confidence            44

>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=99.15  E-value=2.3e-09  Score=95.74  Aligned_cols=208  Identities=10%  Similarity=-0.032  Sum_probs=93.6

Q ss_pred             hcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHH
Q 048394          226 HLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNR  305 (485)
Q Consensus       226 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  305 (485)
                      ..|++++|.+++++..+...  ...         +...++++.|...|.++              ...|...|++++|..
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~--~~~---------~~~~~~~~~A~~~~~~a--------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLK--TSF---------MKWKPDYDSAASEYAKA--------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHC--CCS---------SSCSCCHHHHHHHHHHH--------------HHHHHHTTCHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHcc--ccc---------cCCCCCHHHHHHHHHHH--------------HHHHHHcCCHHHHHH
Confidence            35778889999988776211  110         00023444444444332              233444455555555


Q ss_pred             HHHHhhhcCCC------ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCC---C--CHHhHHHHHHHHHhcCcHHHHHH
Q 048394          306 VWGILKSTFPP------TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSS---Y--DMRLADVIIRAYLQKDMYEEAAL  374 (485)
Q Consensus       306 ~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~--~~~~~~~l~~~~~~~~~~~~A~~  374 (485)
                      .+.+.......      ...+|..+...|...|++++|...|++..+....   +  ...++..+..+|.. |++++|..
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            54444332111      1234444555555555555555555544332110   0  12344445555555 55555555


Q ss_pred             HHHHHHhccccc-CC--chhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCcc-HHHHHHHHHHHhhcCChhhHHH
Q 048394          375 IFNNAKKRANAS-AR--FFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPM-QVTVDTFFRFFEEEKDVDGAEE  450 (485)
Q Consensus       375 ~~~~~~~~~~~~-~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~  450 (485)
                      .|++..+..... .+  ...++..+...|.+.|++++|+..|++.+......+..+. ...+..+..++...|++++|..
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            555554331100 00  0233444555555555555555555555544211111111 1133444444455555555555


Q ss_pred             HHHHHhhcCC
Q 048394          451 FCKVLKSLNC  460 (485)
Q Consensus       451 ~~~~~~~~~~  460 (485)
                      .|++.. ..|
T Consensus       217 ~~~~al-~~p  225 (307)
T 2ifu_A          217 CVRESY-SIP  225 (307)
T ss_dssp             HHHHHT-TST
T ss_pred             HHHHHh-CCC
Confidence            555555 444

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.15  E-value=2e-09  Score=81.82  Aligned_cols=113  Identities=11%  Similarity=-0.019  Sum_probs=99.2

Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHH
Q 048394          353 MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTV  432 (485)
Q Consensus       353 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  432 (485)
                      ...+......|.+.|++++|...|++.++.+   +.+...|..+..+|.+.|++++|+..+++.++.     .+.+...|
T Consensus        13 a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~-----~p~~~~a~   84 (126)
T 4gco_A           13 AQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD---PENAILYSNRAACLTKLMEFQRALDDCDTCIRL-----DSKFIKGY   84 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHh-----hhhhhHHH
Confidence            4566778888999999999999999998875   456778888999999999999999999999987     45667889


Q ss_pred             HHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHH
Q 048394          433 DTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTY  473 (485)
Q Consensus       433 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  473 (485)
                      ..+..++...|++++|.+.|+++++..|.+..++..|..++
T Consensus        85 ~~lg~~~~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~l  125 (126)
T 4gco_A           85 IRKAACLVAMREWSKAQRAYEDALQVDPSNEEAREGVRNCL  125 (126)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHC
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHhc
Confidence            99999999999999999999999999999999998887653

>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=99.12  E-value=2.4e-07  Score=81.89  Aligned_cols=198  Identities=9%  Similarity=-0.063  Sum_probs=132.8

Q ss_pred             HHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCC--hhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCC-hhHHHHHHH
Q 048394          266 FEKAELALKKLEEMKPRDRKAYHFLISLYCNTSN--LDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNA-IDILKQCFE  342 (485)
Q Consensus       266 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~  342 (485)
                      +++++.+++.+....|.+..+|+.-...+...++  +++++.+++++.+..+.+..+|+.-...+...|. .+++++.+.
T Consensus        90 l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~  169 (331)
T 3dss_A           90 VKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTD  169 (331)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHH
Confidence            4666666766666666677777666666666663  5677777777777766666666666666666666 467777777


Q ss_pred             HHHHccCCCCHHhHHHHHHHHHhc--------------CcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhc-----
Q 048394          343 EWESRCSSYDMRLADVIIRAYLQK--------------DMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRS-----  403 (485)
Q Consensus       343 ~~~~~~~~~~~~~~~~l~~~~~~~--------------~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-----  403 (485)
                      .+.+..+. |...|+.....+...              +.++++++.+.+.....   +-|...|+-+-..+.+.     
T Consensus       170 ~~I~~~p~-N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~---P~d~SaW~Y~r~ll~~~~~~~~  245 (331)
T 3dss_A          170 SLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD---PNDQSAWFYHRWLLGAGSGRCE  245 (331)
T ss_dssp             HHHHHCSC-CHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS---TTCHHHHHHHHHHHHSSSCGGG
T ss_pred             HHHHHCCC-CHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHhccCccc
Confidence            77766555 666665554444433              45778888888887764   44556665444444433     


Q ss_pred             ------ccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHH-----HHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHH
Q 048394          404 ------RQLDLALNEMEAALSEAKQFHWRPMQVTVDTFF-----RFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKT  472 (485)
Q Consensus       404 ------g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~-----~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  472 (485)
                            +.++++++.++++.+..      ||. .|+.+.     ......|..+++..++.++.+.+|....-|..+...
T Consensus       246 ~~~~~~~~l~~el~~~~elle~~------pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~~~~  318 (331)
T 3dss_A          246 LSVEKSTVLQSELESCKELQELE------PEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSK  318 (331)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHC------TTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHhhC------ccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHHHHH
Confidence                  56889999999999874      554 343222     222346778889999999999999988888887665


Q ss_pred             HH
Q 048394          473 YI  474 (485)
Q Consensus       473 ~~  474 (485)
                      +.
T Consensus       319 ~~  320 (331)
T 3dss_A          319 FL  320 (331)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>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=2.7e-09  Score=95.32  Aligned_cols=228  Identities=10%  Similarity=0.083  Sum_probs=158.9

Q ss_pred             hCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHh-cCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHH
Q 048394          191 RLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSH-LNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKA  269 (485)
Q Consensus       191 ~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  269 (485)
                      ..|++++|.+++++..+.. +..          +.. .++++.|...|..+                +..|...|++++|
T Consensus         3 ~~~~~~eA~~~~~~a~k~~-~~~----------~~~~~~~~~~A~~~~~~a----------------~~~~~~~g~~~~A   55 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYL-KTS----------FMKWKPDYDSAASEYAKA----------------AVAFKNAKQLEQA   55 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHH-CCC----------SSSCSCCHHHHHHHHHHH----------------HHHHHHTTCHHHH
T ss_pred             ccchHHHHHHHHHHHHHHc-ccc----------ccCCCCCHHHHHHHHHHH----------------HHHHHHcCCHHHH
Confidence            3577889999999887641 111          112 47788888887764                4467778999999


Q ss_pred             HHHHHHHHhcCC--C----ChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC------ChhhHHHHHHHHHhcCChhHH
Q 048394          270 ELALKKLEEMKP--R----DRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP------TNTSYLVLLQALAKLNAIDIL  337 (485)
Q Consensus       270 ~~~~~~~~~~~~--~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a  337 (485)
                      ...|.+.....+  .    -..+|+.+...|...|++++|...+++.......      ...++..+...|.. |++++|
T Consensus        56 ~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A  134 (307)
T 2ifu_A           56 KDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKA  134 (307)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHH
Confidence            988888777221  1    1457888888999999999999999887654221      24567788888888 999999


Q ss_pred             HHHHHHHHHccCCC-----CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhccccc--CCc-hhHHHHHHHHHHhcccHHHH
Q 048394          338 KQCFEEWESRCSSY-----DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANAS--ARF-FKSRESFMIYYLRSRQLDLA  409 (485)
Q Consensus       338 ~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~--~p~-~~~~~~l~~~~~~~g~~~~A  409 (485)
                      +..|++..+.....     ...+++.+...|...|++++|...|++..+.....  .+. ...+..+...+...|++++|
T Consensus       135 ~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A  214 (307)
T 2ifu_A          135 VHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAA  214 (307)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHH
Confidence            99999887643221     14678889999999999999999999988652100  111 12455666677788999999


Q ss_pred             HHHHHHHHHHhhhcCCCcc--HHHHHHHHHHHhhcCChhhHHH
Q 048394          410 LNEMEAALSEAKQFHWRPM--QVTVDTFFRFFEEEKDVDGAEE  450 (485)
Q Consensus       410 ~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~  450 (485)
                      ...|++.+ ..+.  +...  ......++.++ ..|+.+.+..
T Consensus       215 ~~~~~~al-~~p~--~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          215 QKCVRESY-SIPG--FSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHHHT-TSTT--STTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHHHh-CCCC--CCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            99999998 5421  2222  23445555555 5677766655

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=99.08  E-value=1.2e-07  Score=84.24  Aligned_cols=238  Identities=7%  Similarity=-0.019  Sum_probs=152.3

Q ss_pred             CHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcc-cHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhc-C-ChhhHHH
Q 048394          229 DIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAE-LFEKAELALKKLEEMKPRDRKAYHFLISLYCNT-S-NLDAVNR  305 (485)
Q Consensus       229 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~~~~a~~  305 (485)
                      ..++|+++++.+..  ..+.+..+++.-..++...| ++++++..++.+....|.+..+|+.-...+... + ++++++.
T Consensus        69 ~se~AL~lt~~~L~--~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~  146 (349)
T 3q7a_A           69 KSERALELTEIIVR--MNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIE  146 (349)
T ss_dssp             CSHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHH
T ss_pred             CCHHHHHHHHHHHH--hCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHH
Confidence            34566777777666  45556666666666666666 477777777777777777777777666666665 5 6677777


Q ss_pred             HHHHhhhcCCCChhhHHHHHHHHHhcCChh--------HHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCc-------HH
Q 048394          306 VWGILKSTFPPTNTSYLVLLQALAKLNAID--------ILKQCFEEWESRCSSYDMRLADVIIRAYLQKDM-------YE  370 (485)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-------~~  370 (485)
                      +++++.+..+.+..+|+.-...+.+.|.++        ++++.++++.+..+. |...|+.....+.+.++       ++
T Consensus       147 ~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~~~~~~~~  225 (349)
T 3q7a_A          147 YIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAETSSRSLQ  225 (349)
T ss_dssp             HHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCCCCHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccccchHHHH
Confidence            777777777666666666555555555555        777777777777665 67777766666666664       67


Q ss_pred             HHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccH--------------------HHHHHHHHHHHHHhh-hcCCCccH
Q 048394          371 EAALIFNNAKKRANASARFFKSRESFMIYYLRSRQL--------------------DLALNEMEAALSEAK-QFHWRPMQ  429 (485)
Q Consensus       371 ~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~--------------------~~A~~~~~~~~~~~~-~~~~~~~~  429 (485)
                      ++++.+++++...   +-|...|+-+-..+.+.|..                    ....++..++..... .....+++
T Consensus       226 eELe~~~~aI~~~---P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~  302 (349)
T 3q7a_A          226 DELIYILKSIHLI---PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVP  302 (349)
T ss_dssp             HHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCH
T ss_pred             HHHHHHHHHHHhC---CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcH
Confidence            7778887777764   44555665555545544432                    233333333332210 00124677


Q ss_pred             HHHHHHHHHHhhcCChhhHHHHHHHHh-hcCCCCHHHHHHHHHH
Q 048394          430 VTVDTFFRFFEEEKDVDGAEEFCKVLK-SLNCLDFSAYSLLIKT  472 (485)
Q Consensus       430 ~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~~~~~~~~~l~~~  472 (485)
                      ..+..++..|...|+.++|.++++.+. +.+|.....|...+..
T Consensus       303 ~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw~~~~~~  346 (349)
T 3q7a_A          303 LALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYWEFRRRE  346 (349)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHHHHHHHh
Confidence            888888899999999999999999987 5567777777666544

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.07  E-value=9e-09  Score=78.57  Aligned_cols=121  Identities=10%  Similarity=-0.063  Sum_probs=105.7

Q ss_pred             CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHH
Q 048394          352 DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVT  431 (485)
Q Consensus       352 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  431 (485)
                      +...+..+...+...|++++|...|++.....   +.+...+..+...+...|++++|...+++....     .+.+...
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-----~~~~~~~   82 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN---PANAVYFCNRAAAYSKLGNYAGAVQDCERAICI-----DPAYSKA   82 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC---CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhc-----CccCHHH
Confidence            45667778888999999999999999988764   446677888888999999999999999999987     4456788


Q ss_pred             HHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCc
Q 048394          432 VDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLA  480 (485)
Q Consensus       432 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  480 (485)
                      +..+...+...|++++|...++++.+..|.+...+..++.++.+.|+++
T Consensus        83 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~  131 (131)
T 2vyi_A           83 YGRMGLALSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREAP  131 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcCC
Confidence            8888999999999999999999999999999999999999999998864

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.07  E-value=8.9e-09  Score=77.84  Aligned_cols=117  Identities=16%  Similarity=0.062  Sum_probs=101.5

Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHH
Q 048394          353 MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTV  432 (485)
Q Consensus       353 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  432 (485)
                      ...+..+...+...|++++|..+++++.+..   +.+...+..+...+...|++++|..+++++...     .+.+..++
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-----~~~~~~~~   80 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD---PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL-----DPNNAEAW   80 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC---cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh-----CCccHHHH
Confidence            5677788888999999999999999988764   445677888888999999999999999999887     45567888


Q ss_pred             HHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhC
Q 048394          433 DTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAG  477 (485)
Q Consensus       433 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  477 (485)
                      ..+...+...|++++|...++++.+..|.++..+..++.++.+.|
T Consensus        81 ~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           81 YNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            889999999999999999999999999999999999998887765

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=99.04  E-value=3.8e-09  Score=92.90  Aligned_cols=195  Identities=8%  Similarity=-0.066  Sum_probs=119.6

Q ss_pred             cHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHH
Q 048394          249 RWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQAL  328 (485)
Q Consensus       249 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  328 (485)
                      +...+..++..+...|++++|...|+++....|.+...|..+..+|...|++++|...+++..+..+.+...+..+..++
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQ   82 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            45566667777778888888888888877777777778888888888888888888888888777777777777888888


Q ss_pred             HhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHH
Q 048394          329 AKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDL  408 (485)
Q Consensus       329 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  408 (485)
                      ...|++++|...|+...+..+. +...+...+....+   ..++... ........  .++......+ ..+ ..|+.++
T Consensus        83 ~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~~~---~~~~~~~-~~~~~~~~--~~~~~i~~~l-~~l-~~~~~~~  153 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAYSLAKE-QRLNFGDDIPSALR---IAKKKRW-NSIEERRI--HQESELHSYL-TRL-IAAERER  153 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHH-TTCCCCSHHHHHHH---HHHHHHH-HHHHHTCC--CCCCHHHHHH-HHH-HHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHH---HHHHHHH-HHHHHHHH--hhhHHHHHHH-HHH-HHHHHHH
Confidence            8888888888888877665332 11111111111111   1111111 11222222  3333333333 222 3688888


Q ss_pred             HHHHHHHHHHHhhhcCCCccHH-HHHHHHHHHhhc-CChhhHHHHHHHHhhc
Q 048394          409 ALNEMEAALSEAKQFHWRPMQV-TVDTFFRFFEEE-KDVDGAEEFCKVLKSL  458 (485)
Q Consensus       409 A~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~-~~~~~A~~~~~~~~~~  458 (485)
                      |++.+++..+..      |+.. ....+...+.+. +.+++|.++|.++.+.
T Consensus       154 A~~~~~~al~~~------p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          154 ELEECQRNHEGH------EDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHTTTSGGGTTT------SCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHhhhccc------cchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            888888777652      4433 333333334443 5677888888877653

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.03  E-value=8.4e-09  Score=79.08  Aligned_cols=119  Identities=17%  Similarity=0.054  Sum_probs=100.1

Q ss_pred             CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHH
Q 048394          352 DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVT  431 (485)
Q Consensus       352 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  431 (485)
                      +...+..+...+...|++++|...|++..+..   +.+...+..+...+...|++++|+..++++.+.     .+.+...
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~-----~~~~~~~   86 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRN---PKDAKLYSNRAACYTKLLEFQLALKDCEECIQL-----EPTFIKG   86 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC---TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHH-----CTTCHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC---CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHh-----CCCchHH
Confidence            46677778888888999999999999888764   345677788888888899999999999999887     4456778


Q ss_pred             HHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCC
Q 048394          432 VDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGK  478 (485)
Q Consensus       432 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  478 (485)
                      +..+..++...|++++|.+.++++.+..|.+...+..++.++.+.|+
T Consensus        87 ~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           87 YTRKAAALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            88888899999999999999999999988888999999999888764

>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=7.4e-08  Score=85.31  Aligned_cols=168  Identities=8%  Similarity=-0.002  Sum_probs=118.8

Q ss_pred             HHHHHHHhcCChhhHHHHHHHhhhcCCCChh------hHHHHHHHHHhcCChhHHHHHHHHHHHccCC-CC----HHhHH
Q 048394          289 FLISLYCNTSNLDAVNRVWGILKSTFPPTNT------SYLVLLQALAKLNAIDILKQCFEEWESRCSS-YD----MRLAD  357 (485)
Q Consensus       289 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~  357 (485)
                      ..+..+...|++++|..++++.....+.+..      .+..+...+...+++++|...++++.+.... ++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            3456677788888888888877765444221      2334666666777888888888888774322 22    33678


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHhc-----ccccCC-chhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCcc-HH
Q 048394          358 VIIRAYLQKDMYEEAALIFNNAKKR-----ANASAR-FFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPM-QV  430 (485)
Q Consensus       358 ~l~~~~~~~~~~~~A~~~~~~~~~~-----~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-~~  430 (485)
                      .+..+|...|++++|...|+++.+.     +.  .+ ...++..+...|.+.|++++|+..+++.++.....+..+. ..
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~--~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~  237 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDN--EEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQ  237 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCC--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccc--hhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHH
Confidence            8888899999999999999888742     11  12 2236778888899999999999999998876533322232 56


Q ss_pred             HHHHHHHHHhhcCC-hhhHHHHHHHHhhc
Q 048394          431 TVDTFFRFFEEEKD-VDGAEEFCKVLKSL  458 (485)
Q Consensus       431 ~~~~l~~~~~~~~~-~~~A~~~~~~~~~~  458 (485)
                      +|..+..++.+.|+ +++|.+.++++.+.
T Consensus       238 ~~~~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          238 LYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            78888888999994 59999999888764

>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=99.01  E-value=2.5e-08  Score=83.56  Aligned_cols=15  Identities=13%  Similarity=-0.079  Sum_probs=6.2

Q ss_pred             cHHHHHHHHHHHHhc
Q 048394          368 MYEEAALIFNNAKKR  382 (485)
Q Consensus       368 ~~~~A~~~~~~~~~~  382 (485)
                      ++++|...|++..+.
T Consensus       183 d~~~A~~~~~~A~~~  197 (212)
T 3rjv_A          183 NKQKALHWLNVSCLE  197 (212)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHc
Confidence            344444444444433

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=99.01  E-value=3.2e-09  Score=91.06  Aligned_cols=197  Identities=7%  Similarity=-0.160  Sum_probs=145.3

Q ss_pred             hcccHHHHHHHHHHHHhcCCCChHHHHHH-------HHHHHhcCChhhHHHHHHHhhhcCCC------C-----------
Q 048394          262 KAELFEKAELALKKLEEMKPRDRKAYHFL-------ISLYCNTSNLDAVNRVWGILKSTFPP------T-----------  317 (485)
Q Consensus       262 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~------~-----------  317 (485)
                      ..++...|.+.|.++....|.....|..+       ...+...++..++...+.......+.      +           
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~~~   97 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDITYP   97 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCEEE
T ss_pred             cCCCHHHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCcccccccc
Confidence            57888889999999888888888888887       56666666666666666665542221      1           


Q ss_pred             ----hhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCc----
Q 048394          318 ----NTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARF----  389 (485)
Q Consensus       318 ----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~----  389 (485)
                          ......+...+...|++++|.++|..+...++  +......+...+.+.+++++|+..|+....     .|+    
T Consensus        98 v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~p--~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~-----~~d~~~~  170 (282)
T 4f3v_A           98 VTSPLAITMGFAACEAAQGNYADAMEALEAAPVAGS--EHLVAWMKAVVYGAAERWTDVIDQVKSAGK-----WPDKFLA  170 (282)
T ss_dssp             CSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTGGG-----CSCHHHH
T ss_pred             cCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC--chHHHHHHHHHHHHcCCHHHHHHHHHHhhc-----cCCcccH
Confidence                12334567778889999999999988876543  322555566788899999999999974433     232    


Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCc--cHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHH
Q 048394          390 FKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRP--MQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYS  467 (485)
Q Consensus       390 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  467 (485)
                      ...+..+..++.+.|++++|+..|++.....    ..|  ..........++.+.|+.++|..+|+++....|. ..++.
T Consensus       171 ~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~----~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~  245 (282)
T 4f3v_A          171 GAAGVAHGVAAANLALFTEAERRLTEANDSP----AGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAA  245 (282)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTST----TTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHhcCC----CCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHH
Confidence            2356677888899999999999999987432    213  3456677778889999999999999999999888 77777


Q ss_pred             HHH
Q 048394          468 LLI  470 (485)
Q Consensus       468 ~l~  470 (485)
                      .|.
T Consensus       246 aL~  248 (282)
T 4f3v_A          246 ALK  248 (282)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            664

>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=99.01  E-value=4.7e-08  Score=81.89  Aligned_cols=127  Identities=15%  Similarity=0.080  Sum_probs=51.2

Q ss_pred             HhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCC----CcccHHHHHHHHHHcCCCccHHHHHH
Q 048394          144 RYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLG----QPEKVRPLVNQMKQRNISLDNLTYIV  219 (485)
Q Consensus       144 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g----~~~~a~~~~~~~~~~~~~p~~~~~~~  219 (485)
                      ...+..|...|...+++++|+..|++..+.|   +...+..+...|.. +    ++++|.+.|++..+.|   +...+..
T Consensus        18 ~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~   90 (212)
T 3rjv_A           18 RRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIV   90 (212)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHH
Confidence            3344444444444444444444444444432   23333334444333 3    4444444444444332   2233333


Q ss_pred             HHHHHHh----cCCHhHHHHHHHHHHhccCCC-CcHHHHHHHHHHHHh----cccHHHHHHHHHHHHh
Q 048394          220 WMQSYSH----LNDIDGVERVFYEMCNECEDK-CRWTTYSNLASIYVK----AELFEKAELALKKLEE  278 (485)
Q Consensus       220 l~~~~~~----~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~  278 (485)
                      +...|..    .+++++|+++|+...+ .+.. .....+..|..+|..    .+++++|...|++..+
T Consensus        91 Lg~~y~~g~g~~~d~~~A~~~~~~A~~-~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~  157 (212)
T 3rjv_A           91 LARVLVNRQAGATDVAHAITLLQDAAR-DSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSS  157 (212)
T ss_dssp             HHHHHTCGGGSSCCHHHHHHHHHHHTS-STTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCCccCHHHHHHHHHHHHH-cCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH
Confidence            3333333    3444444444444443 1110 013333444444444    3444444444444443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.00  E-value=1.1e-08  Score=77.71  Aligned_cols=96  Identities=9%  Similarity=0.021  Sum_probs=47.8

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhc
Q 048394          252 TYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKL  331 (485)
Q Consensus       252 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  331 (485)
                      .+...+..|.+.|++++|+..|++..+..|.+..+|..+..+|...|++++|+..+++..+..+.+...|..+..++...
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~   94 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLVAM   94 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC
Confidence            33444444555555555555555554444444555555555555555555555555555444444444444455555555


Q ss_pred             CChhHHHHHHHHHHHc
Q 048394          332 NAIDILKQCFEEWESR  347 (485)
Q Consensus       332 ~~~~~a~~~~~~~~~~  347 (485)
                      |++++|.+.|++..+.
T Consensus        95 ~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           95 REWSKAQRAYEDALQV  110 (126)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            5555555555544444

>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=98.98  E-value=1.5e-08  Score=81.17  Aligned_cols=132  Identities=11%  Similarity=-0.024  Sum_probs=97.5

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHH
Q 048394          318 NTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFM  397 (485)
Q Consensus       318 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~  397 (485)
                      ...+..+...+...|++++|...|+...+..+. +..++..+..++...|++++|...+++..+..   +.+...|..+.
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~~~~a   88 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD---KKYIKGYYRRA   88 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---cccHHHHHHHH
Confidence            455677777888888888888888888877554 67777778888888888888888888887764   34556777777


Q ss_pred             HHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHH--HHHHHhhcCChhhHHHHHHHHhhc
Q 048394          398 IYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDT--FFRFFEEEKDVDGAEEFCKVLKSL  458 (485)
Q Consensus       398 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~~~~~~A~~~~~~~~~~  458 (485)
                      ..+...|++++|...++++....     +.+...+..  ....+...|++++|...++...+.
T Consensus        89 ~~~~~~~~~~~A~~~~~~a~~~~-----p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  146 (166)
T 1a17_A           89 ASNMALGKFRAALRDYETVVKVK-----PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRSV  146 (166)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-----TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-----CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHHH
Confidence            88888888888888888888763     334444433  333466778888888888776553

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.97  E-value=1.8e-07  Score=82.75  Aligned_cols=173  Identities=8%  Similarity=-0.006  Sum_probs=124.1

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCCh------hhHHHHHHHHHhcCChhHHHHHHHHHHHccCC---CC--H
Q 048394          285 KAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTN------TSYLVLLQALAKLNAIDILKQCFEEWESRCSS---YD--M  353 (485)
Q Consensus       285 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~--~  353 (485)
                      ..+...+..+...|++++|...+.+..+..+...      ..+..+...+...|++++|...+++..+....   +.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            3445566677777788888777776666544311      22344556667788999999998888754221   11  4


Q ss_pred             HhHHHHHHHHHhcCcHHHHHHHHHHHHhc-ccccCCc-----hhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCc
Q 048394          354 RLADVIIRAYLQKDMYEEAALIFNNAKKR-ANASARF-----FKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRP  427 (485)
Q Consensus       354 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  427 (485)
                      .+++.+...|...|++++|...|++..+. ..  .|+     ..++..+...|...|++++|+..+++.++.....+...
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~--~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~  233 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEA--LHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMA  233 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--cCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHH
Confidence            57888999999999999999999988742 11  222     25778888899999999999999999987642221111


Q ss_pred             -cHHHHHHHHHHHhhcCChhhH-HHHHHHHhhcC
Q 048394          428 -MQVTVDTFFRFFEEEKDVDGA-EEFCKVLKSLN  459 (485)
Q Consensus       428 -~~~~~~~l~~~~~~~~~~~~A-~~~~~~~~~~~  459 (485)
                       -..+|..+..++.+.|++++| ...++++....
T Consensus       234 ~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~~  267 (293)
T 2qfc_A          234 LIGQLYYQRGECLRKLEYEEAEIEDAYKKASFFF  267 (293)
T ss_dssp             SHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHH
Confidence             266788888999999999999 78788877643

>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=4e-09  Score=82.71  Aligned_cols=105  Identities=11%  Similarity=-0.093  Sum_probs=65.8

Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHH
Q 048394          353 MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTV  432 (485)
Q Consensus       353 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  432 (485)
                      ...+..+...+...|++++|...|++....+   +.+...|..+..+|...|++++|+..|++++..     .+.+...+
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l-----~p~~~~~~   92 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLD---HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVM-----DIXEPRFP   92 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----STTCTHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcC---cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-----CCCCchHH
Confidence            4445556666666677777777776666553   334555666666666677777777777776665     33445566


Q ss_pred             HHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHH
Q 048394          433 DTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSA  465 (485)
Q Consensus       433 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  465 (485)
                      ..+..++...|++++|...|+++.+..|.++..
T Consensus        93 ~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~  125 (148)
T 2vgx_A           93 FHAAECLLQXGELAEAESGLFLAQELIANXPEF  125 (148)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHTTCGGG
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCcCCCcc
Confidence            666666667777777777777766666554433

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.97  E-value=1.8e-07  Score=82.79  Aligned_cols=164  Identities=9%  Similarity=-0.084  Sum_probs=87.1

Q ss_pred             HHHHHhcccHHHHHHHHHHHHhcCCCChH------HHHHHHHHHHhcCChhhHHHHHHHhhhcCCC--C----hhhHHHH
Q 048394          257 ASIYVKAELFEKAELALKKLEEMKPRDRK------AYHFLISLYCNTSNLDAVNRVWGILKSTFPP--T----NTSYLVL  324 (485)
Q Consensus       257 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~----~~~~~~l  324 (485)
                      +..+...|++++|...+++..+..+.++.      .+..+...+...|++++|...++++......  +    ..+++.+
T Consensus        82 i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~l  161 (293)
T 3u3w_A           82 VIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAI  161 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence            34444455555555555554442221111      1223444444555556666555555543222  1    1245566


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHc-----cCCC-CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccc--cCC-chhHHHH
Q 048394          325 LQALAKLNAIDILKQCFEEWESR-----CSSY-DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANA--SAR-FFKSRES  395 (485)
Q Consensus       325 ~~~~~~~~~~~~a~~~~~~~~~~-----~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~--~~p-~~~~~~~  395 (485)
                      ...|...|++++|...|+++.+.     +..+ ...++..+...|.+.|++++|...+++..+....  ..+ -...|..
T Consensus       162 g~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~  241 (293)
T 3u3w_A          162 ANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQ  241 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            66666666666666666665531     1111 1335666777777777777777777766543110  011 1456667


Q ss_pred             HHHHHHhcc-cHHHHHHHHHHHHHHh
Q 048394          396 FMIYYLRSR-QLDLALNEMEAALSEA  420 (485)
Q Consensus       396 l~~~~~~~g-~~~~A~~~~~~~~~~~  420 (485)
                      +...|.+.| ++++|.+.+++++...
T Consensus       242 lg~~~~~~g~~~~~A~~~~~~Al~i~  267 (293)
T 3u3w_A          242 RGECLRKLEYEEAEIEDAYKKASFFF  267 (293)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHHHH
Confidence            777777777 3577777777776653

>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=98.97  E-value=5e-07  Score=80.18  Aligned_cols=219  Identities=10%  Similarity=0.039  Sum_probs=105.3

Q ss_pred             CCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcC-cHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhC-C-CcccHHH
Q 048394          125 NGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKEL-MTERALALFEKMDELKFLGNTVAFNNLSTMYLRL-G-QPEKVRP  200 (485)
Q Consensus       125 g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~-~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~-g-~~~~a~~  200 (485)
                      +..++|+++++.+.. .+.+..+|+.--..+...| .+++++++++.+...+.+ +..+|+.-...+.+. + +++++++
T Consensus        68 e~se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~EL~  146 (349)
T 3q7a_A           68 EKSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSEIE  146 (349)
T ss_dssp             CCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHHHH
T ss_pred             CCCHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHHHH
Confidence            334455555555555 2233444555444444445 355555555555555443 444555544444443 3 4455555


Q ss_pred             HHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHH--------HHHHH
Q 048394          201 LVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFE--------KAELA  272 (485)
Q Consensus       201 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~A~~~  272 (485)
                      +++.+.+.                                     .+-+..+|+.-.-++.+.|.++        ++++.
T Consensus       147 ~~~k~L~~-------------------------------------dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~  189 (349)
T 3q7a_A          147 YIHGSLLP-------------------------------------DPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDW  189 (349)
T ss_dssp             HHHHHTSS-------------------------------------CTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHH
T ss_pred             HHHHHHHh-------------------------------------CCCCHHHHHHHHHHHHHhccccccchhhHHHHHHH
Confidence            55555443                                     3333333333333333333332        55555


Q ss_pred             HHHHHhcCCCChHHHHHHHHHHHhcCC-------hhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCCh-----------
Q 048394          273 LKKLEEMKPRDRKAYHFLISLYCNTSN-------LDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAI-----------  334 (485)
Q Consensus       273 ~~~~~~~~~~~~~~~~~l~~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----------  334 (485)
                      ++++.+..|.|..+|+.....+.+.+.       ++++++.+.++....|.+...|+.+-..+.+.|..           
T Consensus       190 ~~k~I~~dp~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~  269 (349)
T 3q7a_A          190 CNEMLRVDGRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAILPY  269 (349)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGG
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCccccccccccc
Confidence            555555555555555555555555443       34555555555555555555554444444443332           


Q ss_pred             ---------hHHHHHHHHHHHcc-----CCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHh
Q 048394          335 ---------DILKQCFEEWESRC-----SSYDMRLADVIIRAYLQKDMYEEAALIFNNAKK  381 (485)
Q Consensus       335 ---------~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  381 (485)
                               ....++..++....     ..++......++..|...|+.++|.++++.+.+
T Consensus       270 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          270 TASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             TC--------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence                     11111111111111     123556666677777777777777777777654

>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=98.96  E-value=6e-08  Score=81.32  Aligned_cols=131  Identities=15%  Similarity=0.104  Sum_probs=58.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhc
Q 048394          324 LLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRS  403 (485)
Q Consensus       324 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  403 (485)
                      +...+...|++++|.+.|++..    .|+...+..+...|...|++++|...|++..+..   +.+...|..+...|...
T Consensus        12 ~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~---~~~~~~~~~lg~~~~~~   84 (213)
T 1hh8_A           12 EGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD---KHLAVAYFQRGMLYYQT   84 (213)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---ccchHHHHHHHHHHHHc
Confidence            3344444444444444444331    2344444444444555555555555555444432   22333444444444555


Q ss_pred             ccHHHHHHHHHHHHHHhhhcC----------CCc-cHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCC
Q 048394          404 RQLDLALNEMEAALSEAKQFH----------WRP-MQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL  461 (485)
Q Consensus       404 g~~~~A~~~~~~~~~~~~~~~----------~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  461 (485)
                      |++++|+..|+++.+......          ..| ....+..+..++...|++++|...++++.+..|.
T Consensus        85 ~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~  153 (213)
T 1hh8_A           85 EKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  153 (213)
T ss_dssp             TCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             ccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcc
Confidence            555555555555444321000          001 1234444555555555555555555555555443

>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=98.96  E-value=4.8e-08  Score=78.10  Aligned_cols=92  Identities=15%  Similarity=-0.001  Sum_probs=40.6

Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCCh
Q 048394          255 NLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAI  334 (485)
Q Consensus       255 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  334 (485)
                      .++..+...|++++|...|++.....|.+..++..+..++...|++++|...+++.....+.+...+..+..++...|++
T Consensus        18 ~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~   97 (166)
T 1a17_A           18 TQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   97 (166)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhccH
Confidence            34444444444444444444444444444444444444444444444444444444444333333444444444444444


Q ss_pred             hHHHHHHHHHHH
Q 048394          335 DILKQCFEEWES  346 (485)
Q Consensus       335 ~~a~~~~~~~~~  346 (485)
                      ++|.+.++++.+
T Consensus        98 ~~A~~~~~~a~~  109 (166)
T 1a17_A           98 RAALRDYETVVK  109 (166)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            444444444433

>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=98.95  E-value=8.1e-08  Score=80.50  Aligned_cols=128  Identities=14%  Similarity=-0.006  Sum_probs=85.3

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHh
Q 048394          217 YIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCN  296 (485)
Q Consensus       217 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  296 (485)
                      +..+...+...|++++|...|++..     .++...+..++.+|...|++++|...+++.....|.+...+..+..++..
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~-----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~~   83 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQ   83 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHc-----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHH
Confidence            3445555666677777777666553     33566666677777777777777777777766666666777777777777


Q ss_pred             cCChhhHHHHHHHhhhcCCCCh----------------hhHHHHHHHHHhcCChhHHHHHHHHHHHccC
Q 048394          297 TSNLDAVNRVWGILKSTFPPTN----------------TSYLVLLQALAKLNAIDILKQCFEEWESRCS  349 (485)
Q Consensus       297 ~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  349 (485)
                      .|++++|...+++.....+.+.                ..+..+..++...|++++|.+.|+...+..+
T Consensus        84 ~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  152 (213)
T 1hh8_A           84 TEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  152 (213)
T ss_dssp             TTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             cccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCc
Confidence            7777777777777666554433                5666677777777777777777777766543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.95  E-value=3.2e-07  Score=81.16  Aligned_cols=169  Identities=8%  Similarity=-0.067  Sum_probs=117.6

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCh------HHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC------Chh
Q 048394          252 TYSNLASIYVKAELFEKAELALKKLEEMKPRDR------KAYHFLISLYCNTSNLDAVNRVWGILKSTFPP------TNT  319 (485)
Q Consensus       252 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------~~~  319 (485)
                      .+...+..+...|++++|.+.+....+..+...      ..+..+...+...|++++|...+++.......      ...
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            344456667777788888877777666443322      22344556667778888888888877654332      134


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHH---ccCC-C--CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccc--cCC-ch
Q 048394          320 SYLVLLQALAKLNAIDILKQCFEEWES---RCSS-Y--DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANA--SAR-FF  390 (485)
Q Consensus       320 ~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~-~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~--~~p-~~  390 (485)
                      +++.+...|...|++++|...+++..+   .... +  ...++..+...|...|++++|...+++..+....  ... -.
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            778888888899999999999988763   2111 1  1257788899999999999999999988754210  011 14


Q ss_pred             hHHHHHHHHHHhcccHHHH-HHHHHHHHHHh
Q 048394          391 KSRESFMIYYLRSRQLDLA-LNEMEAALSEA  420 (485)
Q Consensus       391 ~~~~~l~~~~~~~g~~~~A-~~~~~~~~~~~  420 (485)
                      .+|..+...|.+.|++++| ...+++.....
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~~  267 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASFFF  267 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHHHH
Confidence            5677888889999999999 77788877653

>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=4.8e-09  Score=92.20  Aligned_cols=180  Identities=9%  Similarity=-0.095  Sum_probs=132.6

Q ss_pred             CChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHH
Q 048394          282 RDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIR  361 (485)
Q Consensus       282 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  361 (485)
                      .+...+..+...+...|++++|...|++.....+.+...+..+..++.+.|++++|...+++..+..+. +...+..+..
T Consensus         2 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~   80 (281)
T 2c2l_A            2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLGQ   80 (281)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            456788899999999999999999999999998889999999999999999999999999999987655 6888889999


Q ss_pred             HHHhcCcHHHHHHHHHHHHhcccccCCch-hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHh
Q 048394          362 AYLQKDMYEEAALIFNNAKKRANASARFF-KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFE  440 (485)
Q Consensus       362 ~~~~~~~~~~A~~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  440 (485)
                      +|...|++++|...|++..+.+    |+. ..+...+....+.   .++..... .....    .+.+......+.. +.
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~----p~~~~~~~~~~~~~~~~---~~~~~~~~-~~~~~----~~~~~~i~~~l~~-l~  147 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLA----KEQRLNFGDDIPSALRI---AKKKRWNS-IEERR----IHQESELHSYLTR-LI  147 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH----HHTTCCCCSHHHHHHHH---HHHHHHHH-HHHTC----CCCCCHHHHHHHH-HH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC----ccchhhHHHHHHHHHHH---HHHHHHHH-HHHHH----HhhhHHHHHHHHH-HH
Confidence            9999999999999999988763    221 1111122222211   11112211 22221    4445555444433 32


Q ss_pred             hcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHh
Q 048394          441 EEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAA  476 (485)
Q Consensus       441 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  476 (485)
                       .|++++|.+.++++.+..|.+......+...+.+.
T Consensus       148 -~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  182 (281)
T 2c2l_A          148 -AAERERELEECQRNHEGHEDDGHIRAQQACIEAKH  182 (281)
T ss_dssp             -HHHHHHHHTTTSGGGTTTSCHHHHTHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHhhhccccchhhhhhHHHHHHHHH
Confidence             68999999999999999888777766666665554

>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=98.95  E-value=1e-09  Score=99.16  Aligned_cols=87  Identities=11%  Similarity=-0.038  Sum_probs=49.0

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHH
Q 048394          391 KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLI  470 (485)
Q Consensus       391 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  470 (485)
                      ..|..+..+|.+.|++++|+..++++++.     .+.+...+..+..++...|++++|...|+++++..|.+..++..++
T Consensus       197 ~~~~nla~~~~~~g~~~~A~~~~~~al~~-----~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~  271 (336)
T 1p5q_A          197 ASHLNLAMCHLKLQAFSAAIESCNKALEL-----DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLA  271 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHH
Confidence            44555555555555555555555555554     2334555555555555555555555555555555555555555555


Q ss_pred             HHHHHhCCCcch
Q 048394          471 KTYIAAGKLASD  482 (485)
Q Consensus       471 ~~~~~~g~~~~A  482 (485)
                      .++.+.|++++|
T Consensus       272 ~~~~~~~~~~~a  283 (336)
T 1p5q_A          272 VCQQRIRRQLAR  283 (336)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555555555544

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.94  E-value=3.5e-09  Score=82.92  Aligned_cols=93  Identities=16%  Similarity=0.071  Sum_probs=37.6

Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCC
Q 048394          254 SNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNA  333 (485)
Q Consensus       254 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  333 (485)
                      ..+...+.+.|++++|...|+++....|.+...|..+..+|...|++++|...|+++....|.+...+..+..+|...|+
T Consensus        40 ~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~~lg~  119 (151)
T 3gyz_A           40 YSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQLRLKA  119 (151)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCC
Confidence            33333344444444444444444443333444444444444444444444444444443333333333344444444444


Q ss_pred             hhHHHHHHHHHHH
Q 048394          334 IDILKQCFEEWES  346 (485)
Q Consensus       334 ~~~a~~~~~~~~~  346 (485)
                      +++|...|+...+
T Consensus       120 ~~eA~~~~~~al~  132 (151)
T 3gyz_A          120 PLKAKECFELVIQ  132 (151)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            4444444443333

>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=98.93  E-value=3.2e-09  Score=88.11  Aligned_cols=125  Identities=10%  Similarity=-0.077  Sum_probs=92.3

Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCC--------------chhHHHHHHHHHHhcccHHHHHHHHHHHHH
Q 048394          353 MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASAR--------------FFKSRESFMIYYLRSRQLDLALNEMEAALS  418 (485)
Q Consensus       353 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p--------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  418 (485)
                      ...+..+...+...|++++|...|++..+.... .|              ....|..+..+|...|++++|+..+++++.
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~  116 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIH-TEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLK  116 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTT-CTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhc-ccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            344555566666667777777777766654210 11              025677777888888999999999999888


Q ss_pred             HhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchh
Q 048394          419 EAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDM  483 (485)
Q Consensus       419 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  483 (485)
                      .     .+.+...+..+..++...|++++|...|+++.+..|.+..++..+..++...++.+++.
T Consensus       117 ~-----~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~  176 (198)
T 2fbn_A          117 I-----DKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNKLKEARKKD  176 (198)
T ss_dssp             H-----STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHC--
T ss_pred             h-----CcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHHHHHH
Confidence            7     44567788888888889999999999999999888888888888888888887776654

>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=98.91  E-value=2.3e-08  Score=81.18  Aligned_cols=118  Identities=9%  Similarity=0.058  Sum_probs=52.8

Q ss_pred             ccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHH-HHhcCCh--hHHHHH
Q 048394          264 ELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQA-LAKLNAI--DILKQC  340 (485)
Q Consensus       264 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--~~a~~~  340 (485)
                      |++++|...++......|.+...|..+...|...|++++|...++++....+.+...+..+..+ +...|++  ++|...
T Consensus        24 ~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~A~~~  103 (177)
T 2e2e_A           24 QNPEAQLQALQDKIRANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQTRAM  103 (177)
T ss_dssp             ---CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHHHHHH
Confidence            3444444444444444444444444444444444444444444444444444444444444444 3344444  444444


Q ss_pred             HHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhc
Q 048394          341 FEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKR  382 (485)
Q Consensus       341 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  382 (485)
                      ++.+.+..+. +...+..+...|...|++++|...|+++.+.
T Consensus       104 ~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          104 IDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            4444444322 3344444444455555555555555554443

>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=98.91  E-value=8.3e-08  Score=71.52  Aligned_cols=114  Identities=8%  Similarity=-0.124  Sum_probs=97.2

Q ss_pred             CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHH
Q 048394          352 DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVT  431 (485)
Q Consensus       352 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  431 (485)
                      ....+..+...+...|++++|...|++.....   +.+...+..+...+...|++++|...+++....     .+.+...
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-----~~~~~~~   74 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLD---PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDL-----KPDWGKG   74 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-----CTTCHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC---CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHh-----CcccHHH
Confidence            34567778888899999999999999988764   346677888888899999999999999999987     4456788


Q ss_pred             HHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHH
Q 048394          432 VDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTY  473 (485)
Q Consensus       432 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  473 (485)
                      +..+..++...|++++|.+.++++.+..|.++..+..+..+.
T Consensus        75 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  116 (118)
T 1elw_A           75 YSRKAAALEFLNRFEEAKRTYEEGLKHEANNPQLKEGLQNME  116 (118)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHhh
Confidence            888889999999999999999999999999998888887764

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.90  E-value=4.7e-09  Score=82.21  Aligned_cols=103  Identities=7%  Similarity=-0.112  Sum_probs=60.2

Q ss_pred             cCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHH
Q 048394          279 MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADV  358 (485)
Q Consensus       279 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  358 (485)
                      ..|.+...+..+...+.+.|++++|...|+++....|.+...|..+..++...|++++|...|++..+..+. ++..|..
T Consensus        31 l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~  109 (151)
T 3gyz_A           31 IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFH  109 (151)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHH
Confidence            444455555555556666666666666666666555555555666666666666666666666666555443 4455555


Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHhc
Q 048394          359 IIRAYLQKDMYEEAALIFNNAKKR  382 (485)
Q Consensus       359 l~~~~~~~~~~~~A~~~~~~~~~~  382 (485)
                      +..+|...|++++|...|++..+.
T Consensus       110 lg~~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          110 TGQCQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh
Confidence            566666666666666666665554

>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=98.90  E-value=6e-08  Score=73.59  Aligned_cols=115  Identities=12%  Similarity=-0.002  Sum_probs=89.9

Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHH
Q 048394          353 MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTV  432 (485)
Q Consensus       353 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  432 (485)
                      ...+..+...+.+.|++++|...|++..+..   +.+...|..+..+|.+.|++++|+..+++.++.     .+.+...|
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~---p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~-----~p~~~~~~   75 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA---PEDARGYSNRAAALAKLMSFPEAIADCNKAIEK-----DPNFVRAY   75 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC---CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHh-----CCCcHHHH
Confidence            3456667777888888888888888888764   445677778888888888888888888888887     34557778


Q ss_pred             HHHHHHHhhcCChhhHHHHHHHHhhcC------CCCHHHHHHHHHHHHH
Q 048394          433 DTFFRFFEEEKDVDGAEEFCKVLKSLN------CLDFSAYSLLIKTYIA  475 (485)
Q Consensus       433 ~~l~~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~l~~~~~~  475 (485)
                      ..+..++...|++++|...++++.+..      |.+..++..+..+..+
T Consensus        76 ~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~~~  124 (126)
T 3upv_A           76 IRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKASQQ  124 (126)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHHHh
Confidence            888888888888888888888888888      7777777777766543

>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=98.90  E-value=3e-08  Score=80.50  Aligned_cols=123  Identities=11%  Similarity=0.032  Sum_probs=57.2

Q ss_pred             cCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHH-HHhcccH--H
Q 048394          331 LNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIY-YLRSRQL--D  407 (485)
Q Consensus       331 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~g~~--~  407 (485)
                      .|++++|...++...+..+. +...+..+...|...|++++|...|++..+..   +.+...+..+... +...|++  +
T Consensus        23 ~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWQNDYSNSLLAYRQALQLR---GENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             ----CCCCHHHHHHHHHCCS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---CSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             ccCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC---CCCHHHHHHHHHHHHHhcCCcchH
Confidence            34444555555544444332 34444455555555555555555555554442   2233344444444 4445554  5


Q ss_pred             HHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCC
Q 048394          408 LALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLD  462 (485)
Q Consensus       408 ~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  462 (485)
                      +|...+++++..     .+.+...+..+...+...|++++|...++++.+..|.+
T Consensus        99 ~A~~~~~~al~~-----~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~  148 (177)
T 2e2e_A           99 QTRAMIDKALAL-----DSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPR  148 (177)
T ss_dssp             HHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTT
T ss_pred             HHHHHHHHHHHh-----CCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCC
Confidence            555555555554     22234444445555555555555555555555554443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.88  E-value=9.2e-08  Score=72.10  Aligned_cols=94  Identities=17%  Similarity=0.170  Sum_probs=37.3

Q ss_pred             HHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcC
Q 048394          219 VWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTS  298 (485)
Q Consensus       219 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  298 (485)
                      .+...+...|++++|.+.++++.+  ..+.+..++..++.++...|++++|...++++....|.+..++..+...+...|
T Consensus        14 ~~~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~   91 (125)
T 1na0_A           14 NLGNAYYKQGDYDEAIEYYQKALE--LDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQG   91 (125)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH--HCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhc
Confidence            333334444444444444444333  122233333334444444444444444444443333333334444444444444


Q ss_pred             ChhhHHHHHHHhhhcC
Q 048394          299 NLDAVNRVWGILKSTF  314 (485)
Q Consensus       299 ~~~~a~~~~~~~~~~~  314 (485)
                      ++++|...++++....
T Consensus        92 ~~~~A~~~~~~~~~~~  107 (125)
T 1na0_A           92 DYDEAIEYYQKALELD  107 (125)
T ss_dssp             CHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHhC
Confidence            4444444444433333

>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=98.88  E-value=2.3e-06  Score=75.63  Aligned_cols=200  Identities=11%  Similarity=-0.042  Sum_probs=154.9

Q ss_pred             hcccH-HHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCC----------hhhHHHHHHHhhhcCCCChhhHHHHHHHHHh
Q 048394          262 KAELF-EKAELALKKLEEMKPRDRKAYHFLISLYCNTSN----------LDAVNRVWGILKSTFPPTNTSYLVLLQALAK  330 (485)
Q Consensus       262 ~~~~~-~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  330 (485)
                      +.|.+ ++|+..++.+....|.+..+|+.--..+...+.          +++++.+++.+....|.+..+|+.-...+..
T Consensus        41 ~~~e~s~eaL~~t~~~L~~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~  120 (331)
T 3dss_A           41 QAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSR  120 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHhc
Confidence            34443 367777777777777777777665554444333          5789999999999999999999888888888


Q ss_pred             cCC--hhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCc-HHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhc----
Q 048394          331 LNA--IDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDM-YEEAALIFNNAKKRANASARFFKSRESFMIYYLRS----  403 (485)
Q Consensus       331 ~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~----  403 (485)
                      .++  +++++++++.+.+..+. |...|+.-.-++...|. +++++..++++++.+   +-|...|+.....+.+.    
T Consensus       121 l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~---p~N~SAW~~R~~ll~~l~~~~  196 (331)
T 3dss_A          121 LPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN---FSNYSSWHYRSCLLPQLHPQP  196 (331)
T ss_dssp             CSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC---SCCHHHHHHHHHHHHHHSCCC
T ss_pred             cCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHhhhcc
Confidence            884  89999999999998777 88888887777778888 699999999999886   45667777766655544    


Q ss_pred             ----------ccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhc-----------CChhhHHHHHHHHhhcCCCC
Q 048394          404 ----------RQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEE-----------KDVDGAEEFCKVLKSLNCLD  462 (485)
Q Consensus       404 ----------g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------~~~~~A~~~~~~~~~~~~~~  462 (485)
                                +.++++++++.+.+..     .+-|...|+.+-..+.+.           +.++++.+.++++.+..|.+
T Consensus       197 ~~~~~~~~~~~~~~eEle~~~~ai~~-----~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~pd~  271 (331)
T 3dss_A          197 DSGPQGRLPENVLLKELELVQNAFFT-----DPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEPEN  271 (331)
T ss_dssp             ------CCCHHHHHHHHHHHHHHHHH-----STTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             ccccccccchHHHHHHHHHHHHHHHh-----CCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCccc
Confidence                      5689999999999998     566788887666655555           45789999999999999988


Q ss_pred             HHHHHHHH
Q 048394          463 FSAYSLLI  470 (485)
Q Consensus       463 ~~~~~~l~  470 (485)
                      .-.+..++
T Consensus       272 ~w~l~~~~  279 (331)
T 3dss_A          272 KWCLLTII  279 (331)
T ss_dssp             HHHHHHHH
T ss_pred             chHHHHHH
Confidence            55544444

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.88  E-value=6e-08  Score=73.84  Aligned_cols=109  Identities=12%  Similarity=0.012  Sum_probs=44.1

Q ss_pred             HHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcC
Q 048394          219 VWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTS  298 (485)
Q Consensus       219 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  298 (485)
                      .+...+...|++++|...++....  ..+.+...+..++.++...|++++|...+++.....|.+...+..+...+...|
T Consensus        17 ~~~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (131)
T 2vyi_A           17 TEGNEQMKVENFEAAVHFYGKAIE--LNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLALSSLN   94 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHH--cCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHHHHhC
Confidence            333344444444444444444433  222233334444444444444444444444444433333444444444444444


Q ss_pred             ChhhHHHHHHHhhhcCCCChhhHHHHHHHHH
Q 048394          299 NLDAVNRVWGILKSTFPPTNTSYLVLLQALA  329 (485)
Q Consensus       299 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  329 (485)
                      ++++|...+++.....+.+...+..+..++.
T Consensus        95 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  125 (131)
T 2vyi_A           95 KHVEAVAYYKKALELDPDNETYKSNLKIAEL  125 (131)
T ss_dssp             CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcCccchHHHHHHHHHHH
Confidence            4444444444444333333333333333333

>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=98.87  E-value=3.3e-08  Score=77.42  Aligned_cols=100  Identities=9%  Similarity=-0.048  Sum_probs=60.6

Q ss_pred             CcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHH
Q 048394          248 CRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQA  327 (485)
Q Consensus       248 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  327 (485)
                      .+...+..+...+...|++++|...|+++....|.+...|..+..+|...|++++|...|+++....|.+...+..+..+
T Consensus        19 ~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~   98 (148)
T 2vgx_A           19 DTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAEC   98 (148)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHH
Confidence            34445555556666666666666666666665555666666666666666666666666666666555555556666666


Q ss_pred             HHhcCChhHHHHHHHHHHHc
Q 048394          328 LAKLNAIDILKQCFEEWESR  347 (485)
Q Consensus       328 ~~~~~~~~~a~~~~~~~~~~  347 (485)
                      +...|++++|.+.|+...+.
T Consensus        99 ~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           99 LLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            66666666666666655554

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.87  E-value=8e-08  Score=73.48  Aligned_cols=13  Identities=15%  Similarity=-0.051  Sum_probs=4.6

Q ss_pred             cccHHHHHHHHHH
Q 048394          263 AELFEKAELALKK  275 (485)
Q Consensus       263 ~~~~~~A~~~~~~  275 (485)
                      .|++++|...+++
T Consensus        63 ~~~~~~A~~~~~~   75 (133)
T 2lni_A           63 LLEFQLALKDCEE   75 (133)
T ss_dssp             TTCHHHHHHHHHH
T ss_pred             hccHHHHHHHHHH
Confidence            3333333333333

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.86  E-value=8.2e-08  Score=79.71  Aligned_cols=161  Identities=13%  Similarity=0.082  Sum_probs=83.2

Q ss_pred             cCChhhHHHHHHHhhhcCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHcc----C-CCCHHhHHHHHHHHHhcCcHH
Q 048394          297 TSNLDAVNRVWGILKSTFPP-TNTSYLVLLQALAKLNAIDILKQCFEEWESRC----S-SYDMRLADVIIRAYLQKDMYE  370 (485)
Q Consensus       297 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~-~~~~~~~~~l~~~~~~~~~~~  370 (485)
                      .|++++|.+.++.+.. .+. ...++..+...+...|++++|...+++..+..    . .....++..+...|...|+++
T Consensus         5 ~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   83 (203)
T 3gw4_A            5 AHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWD   83 (203)
T ss_dssp             --CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             cccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            4445555543332222 121 34445555555555555555555555544311    0 012345555666666777777


Q ss_pred             HHHHHHHHHHhcccccCC-----chhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCc-cHHHHHHHHHHHhhcCC
Q 048394          371 EAALIFNNAKKRANASAR-----FFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRP-MQVTVDTFFRFFEEEKD  444 (485)
Q Consensus       371 ~A~~~~~~~~~~~~~~~p-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~  444 (485)
                      +|...+++..+.... .+     ....+..+...+...|++++|...+++........+... ...++..+...+...|+
T Consensus        84 ~A~~~~~~al~~~~~-~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           84 AARRCFLEERELLAS-LPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHH-cCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            777776665543100 11     123355566666677777777777777665432211111 12234556666777777


Q ss_pred             hhhHHHHHHHHhhcC
Q 048394          445 VDGAEEFCKVLKSLN  459 (485)
Q Consensus       445 ~~~A~~~~~~~~~~~  459 (485)
                      +++|.+.++++.+..
T Consensus       163 ~~~A~~~~~~al~~~  177 (203)
T 3gw4_A          163 LLEAQQHWLRARDIF  177 (203)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            777777777766643

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.86  E-value=1.3e-08  Score=79.31  Aligned_cols=105  Identities=11%  Similarity=-0.116  Sum_probs=60.1

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHH
Q 048394          355 LADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDT  434 (485)
Q Consensus       355 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  434 (485)
                      .+..+...+.+.|++++|...|++....+   +.+...|..+...|...|++++|+..|++++..     .+.+...+..
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-----~p~~~~~~~~   91 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCMLD---HYDARYFLGLGACRQSLGLYEQALQSYSYGALM-----DINEPRFPFH   91 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCTHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHhC---CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-----CCCCcHHHHH
Confidence            33445555556666666666666665543   334445555555666666666666666666665     2334455555


Q ss_pred             HHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHH
Q 048394          435 FFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYS  467 (485)
Q Consensus       435 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  467 (485)
                      +..++...|++++|...|+++.+..|.++..+.
T Consensus        92 lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  124 (142)
T 2xcb_A           92 AAECHLQLGDLDGAESGFYSARALAAAQPAHEA  124 (142)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCcchHH
Confidence            666666666666666666666665555444433

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.85  E-value=7.5e-08  Score=79.93  Aligned_cols=157  Identities=13%  Similarity=-0.014  Sum_probs=90.3

Q ss_pred             cccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhc----CC-C-ChhhHHHHHHHHHhcCChhH
Q 048394          263 AELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKST----FP-P-TNTSYLVLLQALAKLNAIDI  336 (485)
Q Consensus       263 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~-~~~~~~~l~~~~~~~~~~~~  336 (485)
                      .|++++|.+.++.+...++....++..+...+...|++++|...+++....    +. + ...++..+...+...|++++
T Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~   84 (203)
T 3gw4_A            5 AHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDA   84 (203)
T ss_dssp             --CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             cccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHH
Confidence            455555555333332222233445555555555555555555555554431    11 1 34455666666777777777


Q ss_pred             HHHHHHHHHHc---cC-CC--CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCc----hhHHHHHHHHHHhcccH
Q 048394          337 LKQCFEEWESR---CS-SY--DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARF----FKSRESFMIYYLRSRQL  406 (485)
Q Consensus       337 a~~~~~~~~~~---~~-~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~  406 (485)
                      |.+.+++..+.   .. .+  ....+..+...+...|++++|...+++..+.... ..+    ..++..+...+...|++
T Consensus        85 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~~~la~~~~~~g~~  163 (203)
T 3gw4_A           85 ARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQ-ADDQVAIACAFRGLGDLAQQEKNL  163 (203)
T ss_dssp             HHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh-ccchHHHHHHHHHHHHHHHHCcCH
Confidence            77777665543   11 11  2345666777788888888888888877643110 111    22356677778888899


Q ss_pred             HHHHHHHHHHHHHh
Q 048394          407 DLALNEMEAALSEA  420 (485)
Q Consensus       407 ~~A~~~~~~~~~~~  420 (485)
                      ++|...+++..+..
T Consensus       164 ~~A~~~~~~al~~~  177 (203)
T 3gw4_A          164 LEAQQHWLRARDIF  177 (203)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99988888887754

>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=98.83  E-value=8.5e-08  Score=73.90  Aligned_cols=117  Identities=17%  Similarity=-0.034  Sum_probs=72.8

Q ss_pred             CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHH
Q 048394          352 DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVT  431 (485)
Q Consensus       352 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  431 (485)
                      +...+..+...+...|++++|...|++.....   +.+...|..+...+...|++++|+..+++.+..     .+.+...
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-----~p~~~~~   79 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN---PLVAVYYTNRALCYLKMQQPEQALADCRRALEL-----DGQSVKA   79 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC---cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh-----CchhHHH
Confidence            45556666666666667777776666666553   334455666666666677777777777766665     3334556


Q ss_pred             HHHHHHHHhhcCChhhHHHHHHHHhhcCCC-----CHHHHHHHHHHHHHh
Q 048394          432 VDTFFRFFEEEKDVDGAEEFCKVLKSLNCL-----DFSAYSLLIKTYIAA  476 (485)
Q Consensus       432 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~  476 (485)
                      +..+..++...|++++|...++++.+..|.     +..+...+..+..+.
T Consensus        80 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~l~~~~~~~  129 (137)
T 3q49_B           80 HFFLGQCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKKKR  129 (137)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHChhHHHHHHHHHHHHHHHHHHHH
Confidence            666666666677777777777766666554     555555555554443

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.82  E-value=4.3e-08  Score=84.05  Aligned_cols=198  Identities=7%  Similarity=-0.119  Sum_probs=142.9

Q ss_pred             hcCCHhHHHHHHHHHHhccCCCCcHHHHHHH-------HHHHHhcccHHHHHHHHHHHHhcCCCC---------------
Q 048394          226 HLNDIDGVERVFYEMCNECEDKCRWTTYSNL-------ASIYVKAELFEKAELALKKLEEMKPRD---------------  283 (485)
Q Consensus       226 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~A~~~~~~~~~~~~~~---------------  283 (485)
                      ..++...|.+.|.++..  -.|-....|..+       ...+...++..+++..+.......|..               
T Consensus        18 ~~~d~~~A~~~F~~a~~--~dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITN--YDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHH--hChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCcccccc
Confidence            57888889999988887  566667777666       456666666666666665555433211               


Q ss_pred             ------hHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCC--HHh
Q 048394          284 ------RKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYD--MRL  355 (485)
Q Consensus       284 ------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~  355 (485)
                            ...+..+...+...|++++|.++|..+...++.+. ....+...+.+.+++++|+..|+...+.. .|.  ...
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~p~~~-~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a  173 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAGSEHL-VAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAA  173 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTTCHHH-HHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCchH-HHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHH
Confidence                  23345577788899999999999999888776555 66777778899999999999998554321 111  235


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCc--hhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHH
Q 048394          356 ADVIIRAYLQKDMYEEAALIFNNAKKRANASARF--FKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVD  433 (485)
Q Consensus       356 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  433 (485)
                      +..+..++...|++++|+..|++......  .|.  .........++.+.|+.++|...|+++....      |+...+.
T Consensus       174 ~~~LG~al~~LG~~~eAl~~l~~a~~g~~--~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~------P~~~~~~  245 (282)
T 4f3v_A          174 GVAHGVAAANLALFTEAERRLTEANDSPA--GEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH------PEPKVAA  245 (282)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTSTT--TTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS------CCHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCC--CccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC------CcHHHHH
Confidence            66788999999999999999999885432  254  2345566677889999999999999999975      6644444


Q ss_pred             HH
Q 048394          434 TF  435 (485)
Q Consensus       434 ~l  435 (485)
                      .|
T Consensus       246 aL  247 (282)
T 4f3v_A          246 AL  247 (282)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.81  E-value=1.3e-07  Score=75.65  Aligned_cols=102  Identities=16%  Similarity=-0.068  Sum_probs=48.0

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHH
Q 048394          355 LADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDT  434 (485)
Q Consensus       355 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  434 (485)
                      .+..+...+...|++++|...|++.++..   +.+...|..+...|.+.|++++|+..+++.+..     .+.+...|..
T Consensus        13 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-----~p~~~~~~~~   84 (164)
T 3sz7_A           13 KLKSEGNAAMARKEYSKAIDLYTQALSIA---PANPIYLSNRAAAYSASGQHEKAAEDAELATVV-----DPKYSKAWSR   84 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh-----CCCCHHHHHH
Confidence            34444444445555555555555444432   223344444444445555555555555555444     2223444444


Q ss_pred             HHHHHhhcCChhhHHHHHHHHhhcCCCCHH
Q 048394          435 FFRFFEEEKDVDGAEEFCKVLKSLNCLDFS  464 (485)
Q Consensus       435 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  464 (485)
                      +..++...|++++|...|+++++..|.+..
T Consensus        85 lg~~~~~~g~~~~A~~~~~~al~~~p~~~~  114 (164)
T 3sz7_A           85 LGLARFDMADYKGAKEAYEKGIEAEGNGGS  114 (164)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHSSSCC
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHhCCCchH
Confidence            445555555555555555555554444433

>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=98.80  E-value=1.6e-07  Score=84.84  Aligned_cols=87  Identities=6%  Similarity=-0.110  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHH
Q 048394          285 KAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYL  364 (485)
Q Consensus       285 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  364 (485)
                      .+|..+..+|.+.|++++|...++++....+.+...+..+..++...|++++|...|+++.+..+. +...+..+..++.
T Consensus       197 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~  275 (336)
T 1p5q_A          197 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQ  275 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHH
Confidence            344444444444444444444444444444334444444444444444444444444444443322 3333444444444


Q ss_pred             hcCcHHHH
Q 048394          365 QKDMYEEA  372 (485)
Q Consensus       365 ~~~~~~~A  372 (485)
                      ..|+.++|
T Consensus       276 ~~~~~~~a  283 (336)
T 1p5q_A          276 RIRRQLAR  283 (336)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444444

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.80  E-value=6.9e-08  Score=75.05  Aligned_cols=99  Identities=9%  Similarity=-0.052  Sum_probs=59.4

Q ss_pred             cHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHH
Q 048394          249 RWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQAL  328 (485)
Q Consensus       249 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  328 (485)
                      +...+..+...+.+.|++++|...|+.+....|.+...|..+..++...|++++|...|++.....|.+...+..+..++
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Confidence            33444455555566666666666666666655556666666666666666666666666666665555555555666666


Q ss_pred             HhcCChhHHHHHHHHHHHc
Q 048394          329 AKLNAIDILKQCFEEWESR  347 (485)
Q Consensus       329 ~~~~~~~~a~~~~~~~~~~  347 (485)
                      ...|++++|.+.|+...+.
T Consensus        97 ~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            6666666666666655544

>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=1.8e-07  Score=70.87  Aligned_cols=96  Identities=9%  Similarity=0.041  Sum_probs=56.5

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhc
Q 048394          252 TYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKL  331 (485)
Q Consensus       252 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  331 (485)
                      .+..+...+.+.|++++|...|++..+..|.+...|..+..++...|++++|...+++.....+.+...+..+..++...
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~   85 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAV   85 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence            44445555556666666666666655555555566666666666666666666666665555555555555556666666


Q ss_pred             CChhHHHHHHHHHHHc
Q 048394          332 NAIDILKQCFEEWESR  347 (485)
Q Consensus       332 ~~~~~a~~~~~~~~~~  347 (485)
                      |++++|...|++..+.
T Consensus        86 ~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           86 KEYASALETLDAARTK  101 (126)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             hCHHHHHHHHHHHHHh
Confidence            6666666666555544

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.80  E-value=2.5e-07  Score=72.22  Aligned_cols=115  Identities=12%  Similarity=-0.097  Sum_probs=94.9

Q ss_pred             CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCc----hhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCc
Q 048394          352 DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARF----FKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRP  427 (485)
Q Consensus       352 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  427 (485)
                      +...+..+...+...|++++|...|++..+.    .|+    ...|..+...|...|++++|+..+++.+..     .+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~----~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-----~~~   97 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL----DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEK-----DGG   97 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS----CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----TSC
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH----cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhh-----Ccc
Confidence            5667777888888889999999999988876    444    567777888888999999999999998887     345


Q ss_pred             cHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHH
Q 048394          428 MQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIA  475 (485)
Q Consensus       428 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  475 (485)
                      +...+..+..++...|++++|...++++.+..|.+..++..+..+..+
T Consensus        98 ~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  145 (148)
T 2dba_A           98 DVKALYRRSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNISGP  145 (148)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHCS
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHhh
Confidence            677888888899999999999999999999999888888877776543

>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=98.78  E-value=1.7e-08  Score=83.66  Aligned_cols=62  Identities=10%  Similarity=-0.089  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048394          286 AYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESR  347 (485)
Q Consensus       286 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  347 (485)
                      .+..+..+|...|++++|...+++.....+.+...+..+..++...|++++|.+.|+...+.
T Consensus        90 ~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  151 (198)
T 2fbn_A           90 CNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL  151 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            33444444444444444444444444443334444444444444444444444444444433

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.76  E-value=1.7e-07  Score=74.67  Aligned_cols=123  Identities=14%  Similarity=0.000  Sum_probs=87.4

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHhc-------ccc--------cCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          355 LADVIIRAYLQKDMYEEAALIFNNAKKR-------ANA--------SARFFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       355 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~-------~~~--------~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      .+......+.+.|++++|...|.+.+..       +.+        .+.+...|..+..+|.+.|++++|+..+++++..
T Consensus        13 ~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~   92 (162)
T 3rkv_A           13 ALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKR   92 (162)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhc
Confidence            3444555556666666666666655543       000        0223356777888888999999999999999887


Q ss_pred             hhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCH-HHHHHHHHHHHHhCCCcch
Q 048394          420 AKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDF-SAYSLLIKTYIAAGKLASD  482 (485)
Q Consensus       420 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A  482 (485)
                           .+.+...|..+..++...|++++|...|+++++..|.++ .+...+..+..+.++.++.
T Consensus        93 -----~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~~~~~~~~~~~  151 (162)
T 3rkv_A           93 -----EETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIVTERRAEKKAD  151 (162)
T ss_dssp             -----STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHTTS
T ss_pred             -----CCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence                 455677888888999999999999999999999999888 6666666666655544443

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.75  E-value=2.4e-07  Score=70.41  Aligned_cols=120  Identities=9%  Similarity=-0.005  Sum_probs=88.4

Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCcc----
Q 048394          353 MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPM----  428 (485)
Q Consensus       353 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~----  428 (485)
                      ...+..+...+...|++++|...|++..+..   +.+...+..+...+...|++++|...++++......  ..++    
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~   78 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD---PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRE--NREDYRQI   78 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH--STTCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC---CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccc--cchhHHHH
Confidence            3456667777888888888888888887764   345566777777888888888888888888876521  1122    


Q ss_pred             HHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCC
Q 048394          429 QVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGK  478 (485)
Q Consensus       429 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  478 (485)
                      ..++..+..++...|++++|.+.++++.+..| ++..+..+..+....++
T Consensus        79 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~  127 (131)
T 1elr_A           79 AKAYARIGNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQAEKILKE  127 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHHH
Confidence            66777778888888888888888888888776 67777777776665543

>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=98.75  E-value=5.7e-07  Score=66.86  Aligned_cols=98  Identities=17%  Similarity=0.098  Sum_probs=43.4

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHh
Q 048394          217 YIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCN  296 (485)
Q Consensus       217 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  296 (485)
                      +..+...+...|++++|...++....  ..+.+...+..++.++...|++++|...+++..+..|.+...+..+..++..
T Consensus         7 ~~~~~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~   84 (118)
T 1elw_A            7 LKEKGNKALSVGNIDDALQCYSEAIK--LDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEF   84 (118)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHH--HCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            33344444444444444444444443  2233344444444444444444444444444444444444444444444444


Q ss_pred             cCChhhHHHHHHHhhhcCCC
Q 048394          297 TSNLDAVNRVWGILKSTFPP  316 (485)
Q Consensus       297 ~~~~~~a~~~~~~~~~~~~~  316 (485)
                      .|++++|...+++.....+.
T Consensus        85 ~~~~~~A~~~~~~~~~~~~~  104 (118)
T 1elw_A           85 LNRFEEAKRTYEEGLKHEAN  104 (118)
T ss_dssp             TTCHHHHHHHHHHHHTTCTT
T ss_pred             HhhHHHHHHHHHHHHHcCCC
Confidence            44444444444444444333

>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=98.71  E-value=1.2e-08  Score=96.46  Aligned_cols=88  Identities=11%  Similarity=-0.048  Sum_probs=58.0

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHH
Q 048394          391 KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLI  470 (485)
Q Consensus       391 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  470 (485)
                      ..|..+..+|.+.|++++|+..+++++..     .+.+...|..+..+|...|++++|...|+++++..|.+..++..++
T Consensus       318 ~~~~nla~~~~~~g~~~~A~~~~~~al~~-----~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~  392 (457)
T 1kt0_A          318 AAFLNLAMCYLKLREYTKAVECCDKALGL-----DSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIS  392 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhc-----CCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            45666666677777777777777777766     3445666666777777777777777777777777777777777777


Q ss_pred             HHHHHhCCCcchh
Q 048394          471 KTYIAAGKLASDM  483 (485)
Q Consensus       471 ~~~~~~g~~~~A~  483 (485)
                      .++.+.|++++|.
T Consensus       393 ~~~~~~~~~~~a~  405 (457)
T 1kt0_A          393 MCQKKAKEHNERD  405 (457)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            7777766666554

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.69  E-value=7.9e-07  Score=67.50  Aligned_cols=109  Identities=11%  Similarity=-0.066  Sum_probs=81.2

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHhcccccCCch----hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCcc---HH
Q 048394          358 VIIRAYLQKDMYEEAALIFNNAKKRANASARFF----KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPM---QV  430 (485)
Q Consensus       358 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~---~~  430 (485)
                      .+...+...|++++|...|+++.+..    |+.    ..+..+...+.+.|++++|...++++.+..     +.+   ..
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~----p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-----p~~~~~~~   77 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELY----PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-----PTHDKAAG   77 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC----SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----TTSTTHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHC----CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-----CCCcccHH
Confidence            35666778888888888888887763    332    366677778888888888888888888863     223   56


Q ss_pred             HHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHH
Q 048394          431 TVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIA  475 (485)
Q Consensus       431 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  475 (485)
                      .+..+..++...|++++|...++++.+..|.++.+.......-.-
T Consensus        78 ~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~l~~l  122 (129)
T 2xev_A           78 GLLKLGLSQYGEGKNTEAQQTLQQVATQYPGSDAARVAQERLQSI  122 (129)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHH
Confidence            677777888888888888888888888888877766655544433

>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=98.69  E-value=7.7e-07  Score=67.42  Aligned_cols=107  Identities=12%  Similarity=0.073  Sum_probs=62.1

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCcc----HH
Q 048394          355 LADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPM----QV  430 (485)
Q Consensus       355 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~----~~  430 (485)
                      .+..+...+.+.|++++|+..|++.++..   +.+...|..+..+|.+.|++++|+..+++.++..+.  ..++    ..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~---p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~--~~~~~~~~a~   84 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELD---PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRE--TRADYKLIAK   84 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH--TTCCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcc--cchhhHHHHH
Confidence            44456666666666666666666666553   334455666666666666666666666666655421  1111    23


Q ss_pred             HHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHH
Q 048394          431 TVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYS  467 (485)
Q Consensus       431 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  467 (485)
                      +|..+..++...|++++|.+.|++.++..| ++....
T Consensus        85 ~~~~lg~~~~~~~~~~~A~~~~~kal~~~~-~~~~~~  120 (127)
T 4gcn_A           85 AMSRAGNAFQKQNDLSLAVQWFHRSLSEFR-DPELVK  120 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSC-CHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-CHHHHH
Confidence            455556666666777777777776666543 444333

>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=98.68  E-value=1.5e-06  Score=83.85  Aligned_cols=172  Identities=8%  Similarity=-0.101  Sum_probs=122.7

Q ss_pred             hhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCC----------hhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcC--c
Q 048394          301 DAVNRVWGILKSTFPPTNTSYLVLLQALAKLNA----------IDILKQCFEEWESRCSSYDMRLADVIIRAYLQKD--M  368 (485)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~  368 (485)
                      ++|++.++++....|.+..+|+.-..++...|+          ++++++.++.+.+..++ +..+|+.-.-++.+.+  +
T Consensus        46 eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~~~  124 (567)
T 1dce_A           46 ESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPN  124 (567)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCC
T ss_pred             HHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHccccc
Confidence            455666666666666666666555555555555          67777777777776665 6667766666666667  6


Q ss_pred             HHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcc-cHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhc-----
Q 048394          369 YEEAALIFNNAKKRANASARFFKSRESFMIYYLRSR-QLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEE-----  442 (485)
Q Consensus       369 ~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----  442 (485)
                      +++++..++++.+.+   +-+...|+.-...+.+.| .++++++.++++++.     .+-+...|+.....+.+.     
T Consensus       125 ~~~el~~~~k~l~~d---~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~-----~p~n~saW~~r~~ll~~l~~~~~  196 (567)
T 1dce_A          125 WARELELCARFLEAD---ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR-----NFSNYSSWHYRSCLLPQLHPQPD  196 (567)
T ss_dssp             HHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTT-----TCCCHHHHHHHHHHHHHHSCCCC
T ss_pred             HHHHHHHHHHHHhhc---cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHH-----CCCCccHHHHHHHHHHhhccccc
Confidence            677778887777765   445666766666666667 777788888777776     445666776666555442     


Q ss_pred             ---------CChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcc
Q 048394          443 ---------KDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLAS  481 (485)
Q Consensus       443 ---------~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  481 (485)
                               +.++++.+.+++++...|.+..+|..+...+.+.+++++
T Consensus       197 ~~~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          197 SGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                     557899999999999999999999999999999888655

>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=98.67  E-value=7.4e-07  Score=67.51  Aligned_cols=109  Identities=14%  Similarity=0.076  Sum_probs=72.5

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCc----hhHHH
Q 048394          319 TSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARF----FKSRE  394 (485)
Q Consensus       319 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~----~~~~~  394 (485)
                      .++..+...+.+.|++++|++.|++..+..+. +...|..+..+|...|++++|+..+++.++.+....++    ..+|.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            34556677777777777777777777776554 56677777777777778888877777776642100111    12455


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHH
Q 048394          395 SFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDT  434 (485)
Q Consensus       395 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  434 (485)
                      .+...+...|++++|++.|++.+...      |++.+...
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~~~------~~~~~~~~  121 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLSEF------RDPELVKK  121 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS------CCHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC------cCHHHHHH
Confidence            66667777888888888888877653      66555443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.67  E-value=4.1e-07  Score=66.94  Aligned_cols=103  Identities=9%  Similarity=-0.169  Sum_probs=80.7

Q ss_pred             CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCc--cH
Q 048394          352 DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRP--MQ  429 (485)
Q Consensus       352 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~--~~  429 (485)
                      +...+..+...+...|++++|...|++..+..   +.+...+..+...+...|++++|...+++..+.     .+.  +.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~-----~~~~~~~   76 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD---PEESKYWLMKGKALYNLERYEEAVDCYNYVINV-----IEDEYNK   76 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-----SCCTTCH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC---cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh-----CcccchH
Confidence            34566667778888888888888888887764   345567777888888888888888888888876     333  57


Q ss_pred             HHHHHHHHHHhhc-CChhhHHHHHHHHhhcCCCC
Q 048394          430 VTVDTFFRFFEEE-KDVDGAEEFCKVLKSLNCLD  462 (485)
Q Consensus       430 ~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~~  462 (485)
                      ..+..+..++... |++++|.+.++++.+..|.+
T Consensus        77 ~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~p~~  110 (112)
T 2kck_A           77 DVWAAKADALRYIEGKEVEAEIAEARAKLEHHHH  110 (112)
T ss_dssp             HHHHHHHHHHTTCSSCSHHHHHHHHHHGGGCCCC
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHhhcccCC
Confidence            7888888888888 88888988888888877764

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.66  E-value=5.8e-07  Score=71.70  Aligned_cols=100  Identities=11%  Similarity=-0.021  Sum_probs=52.5

Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHH
Q 048394          215 LTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLY  294 (485)
Q Consensus       215 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  294 (485)
                      ..+..+...+...|++++|+..|++..+  ..+.+...+..+..+|...|++++|+..|++..+..|.+...|..+..+|
T Consensus        12 ~~~~~~g~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   89 (164)
T 3sz7_A           12 DKLKSEGNAAMARKEYSKAIDLYTQALS--IAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLAR   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3444444555555555555555555554  23334455555555555555555555555555555555555555555555


Q ss_pred             HhcCChhhHHHHHHHhhhcCCC
Q 048394          295 CNTSNLDAVNRVWGILKSTFPP  316 (485)
Q Consensus       295 ~~~~~~~~a~~~~~~~~~~~~~  316 (485)
                      ...|++++|...|++.....+.
T Consensus        90 ~~~g~~~~A~~~~~~al~~~p~  111 (164)
T 3sz7_A           90 FDMADYKGAKEAYEKGIEAEGN  111 (164)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHSS
T ss_pred             HHccCHHHHHHHHHHHHHhCCC
Confidence            5555555555555555544444

>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=98.66  E-value=7.3e-07  Score=68.54  Aligned_cols=100  Identities=8%  Similarity=-0.081  Sum_probs=57.0

Q ss_pred             CcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHH
Q 048394          248 CRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQA  327 (485)
Q Consensus       248 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  327 (485)
                      .+...+..+...+...|++++|...|+......|.+...|..+..++...|++++|...+++.....+.+...+..+..+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   86 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   86 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHH
Confidence            34455555555555556666666666555555555555555555555556666666655555555555555555555555


Q ss_pred             HHhcCChhHHHHHHHHHHHc
Q 048394          328 LAKLNAIDILKQCFEEWESR  347 (485)
Q Consensus       328 ~~~~~~~~~a~~~~~~~~~~  347 (485)
                      +...|++++|...|+...+.
T Consensus        87 ~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHH
Confidence            55555555555555555443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.63  E-value=3.1e-07  Score=67.61  Aligned_cols=89  Identities=7%  Similarity=-0.088  Sum_probs=33.8

Q ss_pred             HHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCC--ChHHHHHHHHHHHhc-
Q 048394          221 MQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPR--DRKAYHFLISLYCNT-  297 (485)
Q Consensus       221 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~l~~~~~~~-  297 (485)
                      ...+...|++++|...++...+  ..+.+...+..+..++...|++++|...+++..+..|.  +...+..+..++... 
T Consensus        13 ~~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~~~~~~   90 (112)
T 2kck_A           13 GVLQYDAGNYTESIDLFEKAIQ--LDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADALRYIE   90 (112)
T ss_dssp             HHHHHSSCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHHHTTCS
T ss_pred             HHHHHHhhhHHHHHHHHHHHHH--hCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHHHHHHh
Confidence            3333333444444444443333  12223333333333333334444444444333333333  333333333333333 


Q ss_pred             CChhhHHHHHHHhh
Q 048394          298 SNLDAVNRVWGILK  311 (485)
Q Consensus       298 ~~~~~a~~~~~~~~  311 (485)
                      |++++|.+.++...
T Consensus        91 ~~~~~A~~~~~~~~  104 (112)
T 2kck_A           91 GKEVEAEIAEARAK  104 (112)
T ss_dssp             SCSHHHHHHHHHHG
T ss_pred             CCHHHHHHHHHHHh
Confidence            33333333333333

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.62  E-value=5.3e-07  Score=67.67  Aligned_cols=99  Identities=12%  Similarity=-0.057  Sum_probs=62.9

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHH
Q 048394          356 ADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTF  435 (485)
Q Consensus       356 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l  435 (485)
                      +..+...+.+.|++++|...|++..+..   +.+...|..+...+...|++++|+..|++.++.     .+.+...+..+
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~---P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l-----~P~~~~~~~~l   91 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKE---PEREEAWRSLGLTQAENEKDGLAIIALNHARML-----DPKDIAVHAAL   91 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCCHHHHHHH
Confidence            3345556667777777777777776653   335556666666677777777777777777766     33355666666


Q ss_pred             HHHHhhcCChhhHHHHHHHHhhcCCCC
Q 048394          436 FRFFEEEKDVDGAEEFCKVLKSLNCLD  462 (485)
Q Consensus       436 ~~~~~~~~~~~~A~~~~~~~~~~~~~~  462 (485)
                      ..++...|++++|...++++++..|.+
T Consensus        92 a~~~~~~g~~~~A~~~~~~al~~~P~~  118 (121)
T 1hxi_A           92 AVSHTNEHNANAALASLRAWLLSQPQY  118 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHC-----
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCcCC
Confidence            677777777777777777777766643

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.62  E-value=2.5e-06  Score=80.07  Aligned_cols=171  Identities=12%  Similarity=-0.005  Sum_probs=102.2

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHhhhcCCC--Ch----hhHHHHHHHHHhcCChhHHHHHHHHHHHc----cCCC-CHHh
Q 048394          287 YHFLISLYCNTSNLDAVNRVWGILKSTFPP--TN----TSYLVLLQALAKLNAIDILKQCFEEWESR----CSSY-DMRL  355 (485)
Q Consensus       287 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~  355 (485)
                      +..++..|...|++++|.+.+..+......  +.    .+.+.+...+...|+.+.|.+++......    +..+ -..+
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  137 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSL  137 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHH
Confidence            556666677777777777666665543222  11    12222333334456777777777765432    1121 2456


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhcccc--cC-CchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCcc--HH
Q 048394          356 ADVIIRAYLQKDMYEEAALIFNNAKKRANA--SA-RFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPM--QV  430 (485)
Q Consensus       356 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~--~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~--~~  430 (485)
                      +..+...|...|++++|..+++++...-..  .. .....+..++..|...|++++|..++++..........++.  ..
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  217 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAE  217 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHH
Confidence            667778888888888888888776543110  01 12345667777788888888888888887765432212221  23


Q ss_pred             HHHHHHHHHhhcCChhhHHHHHHHHhh
Q 048394          431 TVDTFFRFFEEEKDVDGAEEFCKVLKS  457 (485)
Q Consensus       431 ~~~~l~~~~~~~~~~~~A~~~~~~~~~  457 (485)
                      .+..+...+...|++++|...+..+.+
T Consensus       218 ~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          218 LDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            455556677778888888877777665

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.62  E-value=1.8e-07  Score=69.86  Aligned_cols=111  Identities=9%  Similarity=-0.028  Sum_probs=65.7

Q ss_pred             cCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCCh
Q 048394          366 KDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDV  445 (485)
Q Consensus       366 ~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  445 (485)
                      .|++++|...|++.++.+...+.+...+..+...|...|++++|+..++++++.     .+.+...+..+..++...|++
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~-----~p~~~~~~~~l~~~~~~~g~~   77 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQ-----FPNHQALRVFYAMVLYNLGRY   77 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHHTCH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCchHHHHHHHHHHHHcCCH
Confidence            456666777777766653100223455666666677777777777777777766     334566666667777777777


Q ss_pred             hhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcc
Q 048394          446 DGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLAS  481 (485)
Q Consensus       446 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  481 (485)
                      ++|...++++.+..|.++...........-.+.+++
T Consensus        78 ~~A~~~~~~al~~~p~~~~~~~~~~ai~~~~~~l~~  113 (117)
T 3k9i_A           78 EQGVELLLKIIAETSDDETIQSYKQAILFYADKLDE  113 (117)
T ss_dssp             HHHHHHHHHHHHHHCCCHHHHHTHHHHHHHTTCTTC
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHH
Confidence            777777777777766666554444444434444443

>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=98.62  E-value=3.4e-07  Score=83.55  Aligned_cols=121  Identities=12%  Similarity=-0.014  Sum_probs=94.9

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHh----------------cccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          356 ADVIIRAYLQKDMYEEAALIFNNAKK----------------RANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       356 ~~~l~~~~~~~~~~~~A~~~~~~~~~----------------~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      +..+...+.+.|++++|...|++.++                ..   ..+...|..+..+|.+.|++++|+..++++++.
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~---~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  302 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQ---PVALSCVLNIGACKLKMSDWQGAVDSCLEALEI  302 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGH---HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHH---HHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh
Confidence            34445555556666666666655554                11   234467788888899999999999999999986


Q ss_pred             hhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          420 AKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       420 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                           .+.+...+..+..++...|++++|...++++.+..|.+..++..+..++...++.+++.+
T Consensus       303 -----~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          303 -----DPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             -----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -----CchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence                 345678888889999999999999999999999999999999999999999888877754

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.60  E-value=1.9e-05  Score=73.99  Aligned_cols=56  Identities=13%  Similarity=0.233  Sum_probs=32.1

Q ss_pred             HHHHHhcCcHHHHHHHHHHHHhCCCCCCh----------------hhHHHHHHHHHhCCCcccHHHHHHHHH
Q 048394          151 LNCYCKELMTERALALFEKMDELKFLGNT----------------VAFNNLSTMYLRLGQPEKVRPLVNQMK  206 (485)
Q Consensus       151 i~~~~~~~~~~~A~~~~~~m~~~~~~p~~----------------~~~~~l~~~~~~~g~~~~a~~~~~~~~  206 (485)
                      ...+.+.|++++|++.|.++.+.......                .++..+...|...|++++|.+.+..+.
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~   82 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHST   82 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            34566778888888888888775432111                113445555555555555555555443

>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=98.59  E-value=2.5e-07  Score=87.64  Aligned_cols=116  Identities=12%  Similarity=0.016  Sum_probs=72.5

Q ss_pred             HHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHh
Q 048394          361 RAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFE  440 (485)
Q Consensus       361 ~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  440 (485)
                      ..+.+.|++++|...|++..+..   +.+...|..+..+|.+.|++++|+..++++++.     .+.+...+..+..++.
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~~---p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l-----~p~~~~~~~~lg~~~~   85 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIELN---PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL-----DKKYIKGYYRRAASNM   85 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS-----CTTCHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhC---CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh-----CCCCHHHHHHHHHHHH
Confidence            34455666666666666666653   334555666666666667777777777666665     2334556666666666


Q ss_pred             hcCChhhHHHHHHHHhhcCCCCHHHHHHHHHH--HHHhCCCcchhc
Q 048394          441 EEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKT--YIAAGKLASDMR  484 (485)
Q Consensus       441 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~  484 (485)
                      ..|++++|.+.++++.+..|.+..++..++.+  +.+.|++++|++
T Consensus        86 ~~g~~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~  131 (477)
T 1wao_1           86 ALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIA  131 (477)
T ss_dssp             HHTCHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC--
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            67777777777777766666666666666666  666666666653

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.58  E-value=2.2e-06  Score=66.68  Aligned_cols=97  Identities=19%  Similarity=-0.017  Sum_probs=40.7

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCc---HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHH
Q 048394          216 TYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCR---WTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLIS  292 (485)
Q Consensus       216 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  292 (485)
                      .+..+...+...|++++|.+.|+...+  ..+.+   ...+..+..+|...|++++|...+++..+..|.+...+..+..
T Consensus        30 ~~~~~a~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~  107 (148)
T 2dba_A           30 QLRKEGNELFKCGDYGGALAAYTQALG--LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRSQ  107 (148)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHT--SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH--HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHHH
Confidence            334444444444444444444444443  11111   3334444444444444444444444444433334444444444


Q ss_pred             HHHhcCChhhHHHHHHHhhhcC
Q 048394          293 LYCNTSNLDAVNRVWGILKSTF  314 (485)
Q Consensus       293 ~~~~~~~~~~a~~~~~~~~~~~  314 (485)
                      ++...|++++|...|++.....
T Consensus       108 ~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          108 ALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHcCCHHHHHHHHHHHHHcC
Confidence            4444444444444444444333

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.57  E-value=8.4e-07  Score=65.24  Aligned_cols=91  Identities=9%  Similarity=-0.045  Sum_probs=81.5

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCC------
Q 048394          389 FFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLD------  462 (485)
Q Consensus       389 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~------  462 (485)
                      +...+..+...+...|++++|+..|++.++.     .+.+...+..+..++...|++++|...++++++..|.+      
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~-----~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~   77 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITA-----QPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIR   77 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHH
Confidence            4466778888899999999999999999987     45578889999999999999999999999999999988      


Q ss_pred             HHHHHHHHHHHHHhCCCcchhc
Q 048394          463 FSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       463 ~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      ..++..++.++...|++++|+.
T Consensus        78 ~~~~~~~~~~~~~~~~~~~a~~   99 (111)
T 2l6j_A           78 SKLQYRLELAQGAVGSVQIPVV   99 (111)
T ss_dssp             HHHHHHHHHHHHHHHCCCCCSS
T ss_pred             HHHHHHHHHHHHHHHhHhhhHh
Confidence            8899999999999999998875

>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=6.9e-07  Score=67.02  Aligned_cols=91  Identities=11%  Similarity=0.045  Sum_probs=45.8

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChh
Q 048394          256 LASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAID  335 (485)
Q Consensus       256 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  335 (485)
                      +...+.+.|++++|...|+++.+..|.+...|..+..++...|++++|...+++..+..|.+...+..+..++...|+++
T Consensus        23 ~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~g~~~  102 (121)
T 1hxi_A           23 EGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNAN  102 (121)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence            34444455555555555555555444455555555555555555555555555555544444444444555555555555


Q ss_pred             HHHHHHHHHHH
Q 048394          336 ILKQCFEEWES  346 (485)
Q Consensus       336 ~a~~~~~~~~~  346 (485)
                      +|...+++..+
T Consensus       103 ~A~~~~~~al~  113 (121)
T 1hxi_A          103 AALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHHH
Confidence            55555544443

>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=98.55  E-value=8.1e-07  Score=67.43  Aligned_cols=22  Identities=23%  Similarity=0.543  Sum_probs=8.8

Q ss_pred             HHHHHHhcCcHHHHHHHHHHHH
Q 048394          359 IIRAYLQKDMYEEAALIFNNAK  380 (485)
Q Consensus       359 l~~~~~~~~~~~~A~~~~~~~~  380 (485)
                      +..++...|++++|...|++..
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~  106 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSL  106 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHH
Confidence            3333334444444444443333

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.50  E-value=6.3e-06  Score=62.38  Aligned_cols=92  Identities=17%  Similarity=0.153  Sum_probs=44.0

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCCCh---HHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCC---hhhHHHHHHHHH
Q 048394          256 LASIYVKAELFEKAELALKKLEEMKPRDR---KAYHFLISLYCNTSNLDAVNRVWGILKSTFPPT---NTSYLVLLQALA  329 (485)
Q Consensus       256 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~l~~~~~  329 (485)
                      +...+...|++++|...|+.+.+..|.+.   ..+..+..++...|++++|...++++....+.+   ...+..+..++.
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~   87 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQY   87 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHH
Confidence            33444445555555555555444333333   344444445555555555555555544444443   333444444455


Q ss_pred             hcCChhHHHHHHHHHHHc
Q 048394          330 KLNAIDILKQCFEEWESR  347 (485)
Q Consensus       330 ~~~~~~~a~~~~~~~~~~  347 (485)
                      ..|++++|...|+.+.+.
T Consensus        88 ~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           88 GEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            555555555555544443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.48  E-value=1.6e-06  Score=68.64  Aligned_cols=141  Identities=13%  Similarity=-0.006  Sum_probs=89.1

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHHccCC-CC----HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCc---
Q 048394          318 NTSYLVLLQALAKLNAIDILKQCFEEWESRCSS-YD----MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARF---  389 (485)
Q Consensus       318 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~---  389 (485)
                      ..++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++..+.... .++   
T Consensus         9 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~   87 (164)
T 3ro3_A            9 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQ-LKDRAV   87 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH-TTCHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH-hCCcHH
Confidence            345667777777778888888887777654322 11    135666777777777888888777777654210 111   


Q ss_pred             -hhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCcc-HHHHHHHHHHHhhcCChhhHHHHHHHHhhcC
Q 048394          390 -FKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPM-QVTVDTFFRFFEEEKDVDGAEEFCKVLKSLN  459 (485)
Q Consensus       390 -~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  459 (485)
                       ...+..+...+...|++++|...+++.++.....+..+. ...+..+...+...|++++|.+.+++..+..
T Consensus        88 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  159 (164)
T 3ro3_A           88 EAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  159 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence             234556666677777777777777777776533222111 3345566677777777777777777776643

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.48  E-value=2.9e-06  Score=67.07  Aligned_cols=134  Identities=14%  Similarity=-0.016  Sum_probs=73.7

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC------ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCC-C----H
Q 048394          285 KAYHFLISLYCNTSNLDAVNRVWGILKSTFPP------TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSY-D----M  353 (485)
Q Consensus       285 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~----~  353 (485)
                      .++..+...+...|++++|...+++.....+.      ...++..+...+...|++++|.+.+++..+..... +    .
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            34555666666666666666666655543222      11345556666666666666666666666543321 1    3


Q ss_pred             HhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCc----hhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          354 RLADVIIRAYLQKDMYEEAALIFNNAKKRANASARF----FKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       354 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      ..+..+...+...|++++|...+++..+.... ..+    ...+..+...+...|++++|.+.+++..+.
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQE-LKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH-ccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            34555556666666666666666665543210 111    123445555566666666666666666554

>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=98.47  E-value=1.1e-06  Score=83.31  Aligned_cols=122  Identities=13%  Similarity=0.024  Sum_probs=73.8

Q ss_pred             HHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhc
Q 048394          184 NLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKA  263 (485)
Q Consensus       184 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  263 (485)
                      .+...+.+.|++++|++.|++..+.. +.+...+..+..+|.+.|++++|++.+++..+  ..+.+...+..+..+|...
T Consensus        11 ~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--l~p~~~~~~~~lg~~~~~~   87 (477)
T 1wao_1           11 TQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIE--LDKKYIKGYYRRAASNMAL   87 (477)
T ss_dssp             SSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHc
Confidence            33444556667777777776666642 22455666666666667777777777766666  4455566666666666667


Q ss_pred             ccHHHHHHHHHHHHhcCCCChHHHHHHHHH--HHhcCChhhHHHHHH
Q 048394          264 ELFEKAELALKKLEEMKPRDRKAYHFLISL--YCNTSNLDAVNRVWG  308 (485)
Q Consensus       264 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~  308 (485)
                      |++++|...++++.+..|.+...+..+..+  +.+.|++++|.+.++
T Consensus        88 g~~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           88 GKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            777777777766666555555555555555  566666666666666

>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=98.45  E-value=1.9e-05  Score=76.21  Aligned_cols=173  Identities=9%  Similarity=-0.094  Sum_probs=132.9

Q ss_pred             HHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCC----------hhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcC--C
Q 048394          266 FEKAELALKKLEEMKPRDRKAYHFLISLYCNTSN----------LDAVNRVWGILKSTFPPTNTSYLVLLQALAKLN--A  333 (485)
Q Consensus       266 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~  333 (485)
                      .++|++.++.+....|.+..+|+.-..++...|+          +++++..++.+....+.+..+|..-...+.+.+  +
T Consensus        45 ~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~~~~  124 (567)
T 1dce_A           45 DESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPN  124 (567)
T ss_dssp             SHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCC
T ss_pred             CHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHccccc
Confidence            4567778888877777777788777777766666          788888888888888888888887777777778  5


Q ss_pred             hhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcC-cHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhc---------
Q 048394          334 IDILKQCFEEWESRCSSYDMRLADVIIRAYLQKD-MYEEAALIFNNAKKRANASARFFKSRESFMIYYLRS---------  403 (485)
Q Consensus       334 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---------  403 (485)
                      ++++.+.++++.+..+. +...|+.-..++.+.| .++++.+.++++++.+   .-|...|+.....+.+.         
T Consensus       125 ~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~---p~n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          125 WARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN---FSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT---CCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             HHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC---CCCccHHHHHHHHHHhhccccccccc
Confidence            68888888888887766 7777877777777777 7888888888888765   44566676666555542         


Q ss_pred             -----ccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhh
Q 048394          404 -----RQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDG  447 (485)
Q Consensus       404 -----g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  447 (485)
                           +.++++++++++++..     .+-+...|..+...+.+.+..++
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~-----~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFT-----DPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHH-----CSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccHHHHHHHHHHHHHHHhh-----CCCCccHHHHHHHHHhcCCCccc
Confidence                 6789999999999987     55678889888888888777554

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.41  E-value=1.7e-06  Score=64.41  Aligned_cols=90  Identities=13%  Similarity=0.060  Sum_probs=48.1

Q ss_pred             CCCcccHHHHHHHHHHcC--CCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHH
Q 048394          192 LGQPEKVRPLVNQMKQRN--ISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKA  269 (485)
Q Consensus       192 ~g~~~~a~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  269 (485)
                      .|++++|+..|++..+.+  -+.+...+..+..+|...|++++|+..|++..+  ..+.+..++..+..++...|++++|
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVK--QFPNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCchHHHHHHHHHHHHcCCHHHH
Confidence            455666666666665542  122334455555566666666666666666655  3444455555566666666666666


Q ss_pred             HHHHHHHHhcCCCC
Q 048394          270 ELALKKLEEMKPRD  283 (485)
Q Consensus       270 ~~~~~~~~~~~~~~  283 (485)
                      ...+++.....|.+
T Consensus        81 ~~~~~~al~~~p~~   94 (117)
T 3k9i_A           81 VELLLKIIAETSDD   94 (117)
T ss_dssp             HHHHHHHHHHHCCC
T ss_pred             HHHHHHHHHhCCCc
Confidence            66666655544433

>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=98.41  E-value=3.8e-06  Score=79.22  Aligned_cols=145  Identities=11%  Similarity=-0.008  Sum_probs=88.2

Q ss_pred             CCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCc-------------HHHHHHHHHH
Q 048394          193 GQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCR-------------WTTYSNLASI  259 (485)
Q Consensus       193 g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------------~~~~~~l~~~  259 (485)
                      +++++|.+.|+...+.. +-....+..+...+.+.|++++|...|++..+.....+.             ...|..+..+
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            34455555444333211 113445666677777788888888888777761111111             4566667777


Q ss_pred             HHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHH
Q 048394          260 YVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILK  338 (485)
Q Consensus       260 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  338 (485)
                      |.+.|++++|+..++++.+..|.+..+|..+..+|...|++++|...|+++.+..+.+...+..+..++.+.++.+++.
T Consensus       327 ~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          327 YLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777777777777777666667777777777777777777777777776666666666666666666666665554

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.38  E-value=5.8e-06  Score=65.65  Aligned_cols=102  Identities=13%  Similarity=0.093  Sum_probs=61.8

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHhcc----------------CCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC
Q 048394          217 YIVWMQSYSHLNDIDGVERVFYEMCNEC----------------EDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMK  280 (485)
Q Consensus       217 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~----------------~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  280 (485)
                      +......+.+.|++++|+..|.......                ..+.+...|..+..+|.+.|++++|+..++.+....
T Consensus        14 ~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~   93 (162)
T 3rkv_A           14 LRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKRE   93 (162)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC
Confidence            3444445555555555555555544410                022334556666667777777777777777776666


Q ss_pred             CCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCCh
Q 048394          281 PRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTN  318 (485)
Q Consensus       281 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  318 (485)
                      |.+...|..+..+|...|++++|...|++.....|.+.
T Consensus        94 p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~  131 (162)
T 3rkv_A           94 ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAA  131 (162)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGH
T ss_pred             CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCH
Confidence            66667777777777777777777777776666655544

>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=98.38  E-value=4.5e-06  Score=76.13  Aligned_cols=117  Identities=10%  Similarity=0.059  Sum_probs=53.9

Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHh----------------cCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCC
Q 048394          254 SNLASIYVKAELFEKAELALKKLEE----------------MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPT  317 (485)
Q Consensus       254 ~~l~~~~~~~~~~~~A~~~~~~~~~----------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  317 (485)
                      ..+...+.+.|++++|...|+++.+                ..+.+..+|..+..+|.+.|++++|...++++.+..+.+
T Consensus       227 ~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~  306 (370)
T 1ihg_A          227 KNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSN  306 (370)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTC
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchh
Confidence            3344455555555555555555443                222233444444455555555555555555554444444


Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHH
Q 048394          318 NTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEE  371 (485)
Q Consensus       318 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  371 (485)
                      ...+..+..+|...|++++|.+.|++..+..+. +...+..+..++...++.++
T Consensus       307 ~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~-~~~~~~~l~~~~~~~~~~~~  359 (370)
T 1ihg_A          307 TKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLKVKQKIKAQKD  359 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHH
Confidence            444444444455555555555555544444322 33333334444443333333

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.37  E-value=6.1e-06  Score=57.92  Aligned_cols=84  Identities=15%  Similarity=0.019  Sum_probs=74.2

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHH
Q 048394          389 FFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSL  468 (485)
Q Consensus       389 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  468 (485)
                      +...+..+...+...|++++|+..+++.++.     .+.+...+..+..++...|++++|...++++.+..|.++.++..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~-----~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~   82 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALEL-----DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQN   82 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            3456777888899999999999999999987     44567888899999999999999999999999999999999999


Q ss_pred             HHHHHHHhC
Q 048394          469 LIKTYIAAG  477 (485)
Q Consensus       469 l~~~~~~~g  477 (485)
                      ++.++.+.|
T Consensus        83 l~~~~~~~g   91 (91)
T 1na3_A           83 LGNAKQKQG   91 (91)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHhcC
Confidence            999988765

>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=98.35  E-value=3.9e-06  Score=64.90  Aligned_cols=93  Identities=12%  Similarity=-0.081  Sum_probs=76.0

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcC------C-CccHHHHHHHHHHHhhcCChhhHHHHHHHHhhc------
Q 048394          392 SRESFMIYYLRSRQLDLALNEMEAALSEAKQFH------W-RPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSL------  458 (485)
Q Consensus       392 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~------~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~------  458 (485)
                      .+......+.+.|++++|+..|++.+...+..+      . +.+...|..+..++.+.|++++|...++++++.      
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e   92 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE   92 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcccc
Confidence            345556677889999999999999998762100      0 001338899999999999999999999999999      


Q ss_pred             -CCCCHHHH----HHHHHHHHHhCCCcchhc
Q 048394          459 -NCLDFSAY----SLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       459 -~~~~~~~~----~~l~~~~~~~g~~~~A~~  484 (485)
                       .|.+..+|    ...+.++...|++++|+.
T Consensus        93 ~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~  123 (159)
T 2hr2_A           93 LNQDEGKLWISAVYSRALALDGLGRGAEAMP  123 (159)
T ss_dssp             TTSTHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CCCchHHHHHHHHHhHHHHHHHCCCHHHHHH
Confidence             99999999    999999999999999974

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.30  E-value=2.7e-06  Score=76.77  Aligned_cols=131  Identities=13%  Similarity=-0.009  Sum_probs=68.1

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHH
Q 048394          318 NTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFM  397 (485)
Q Consensus       318 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~  397 (485)
                      ...+..+...+.+.|++++|...|++..+..  |+...       +...++.+++...+.            ...|..+.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l~------------~~~~~nla  237 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAVK------------NPCHLNIA  237 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHHH------------THHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHHH------------HHHHHHHH
Confidence            4455666666677777777777777776653  22221       112222222221110            02555666


Q ss_pred             HHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHH
Q 048394          398 IYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYI  474 (485)
Q Consensus       398 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  474 (485)
                      .+|.+.|++++|+..+++.+..     .+.+...|..+..+|...|++++|...|+++++..|.+..++..+..+..
T Consensus       238 ~~~~~~g~~~~A~~~~~~al~~-----~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~  309 (338)
T 2if4_A          238 ACLIKLKRYDEAIGHCNIVLTE-----EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAE  309 (338)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh-----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            6677777777777777777765     33456667777777777777777777777777777777766666666533

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.28  E-value=3.2e-06  Score=76.23  Aligned_cols=94  Identities=11%  Similarity=0.017  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHH-Hh
Q 048394          252 TYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQAL-AK  330 (485)
Q Consensus       252 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~-~~  330 (485)
                      .|..+..+|.+.|++++|+..+++..+..|.+..+|..+..+|...|++++|...|+++....+.+...+..+.... ..
T Consensus       232 ~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~  311 (338)
T 2if4_A          232 CHLNIAACLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQE  311 (338)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
Confidence            34445555555555555555555555555545555555555555555555555555555444444333333333331 12


Q ss_pred             cCChhHHHHHHHHHH
Q 048394          331 LNAIDILKQCFEEWE  345 (485)
Q Consensus       331 ~~~~~~a~~~~~~~~  345 (485)
                      .+..+.+.+.|..+.
T Consensus       312 ~~~~~~a~~~~~~~l  326 (338)
T 2if4_A          312 KALYQKQKEMYKGIF  326 (338)
T ss_dssp             ---------------
T ss_pred             HHHHHHHHHHHHHhh
Confidence            233334444444443

>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=98.21  E-value=2.4e-05  Score=60.51  Aligned_cols=60  Identities=12%  Similarity=0.001  Sum_probs=30.1

Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcCCC-------ChH-----HHHHHHHHHHhcCChhhHHHHHHHhhhc
Q 048394          254 SNLASIYVKAELFEKAELALKKLEEMKPR-------DRK-----AYHFLISLYCNTSNLDAVNRVWGILKST  313 (485)
Q Consensus       254 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-------~~~-----~~~~l~~~~~~~~~~~~a~~~~~~~~~~  313 (485)
                      ......+.+.|++++|+..|++..+..|.       +..     .|..+..++.+.|++++|+..+++..+.
T Consensus        15 ~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l   86 (159)
T 2hr2_A           15 LSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHY   86 (159)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            34555555666666666666666664443       111     4444444444444444444444444433

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.13  E-value=1.4e-05  Score=59.13  Aligned_cols=78  Identities=14%  Similarity=0.174  Sum_probs=44.4

Q ss_pred             HHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhh
Q 048394          233 VERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKS  312 (485)
Q Consensus       233 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  312 (485)
                      |+..|+...+  ..+.+...+..+..+|...|++++|...|++.....|.+...|..+..++...|++++|...|++...
T Consensus         4 a~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLA--QGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHT--TTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH--hCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4445555544  34445555555556666666666666666665555555555566666666666666666666555544

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.12  E-value=1.8e-05  Score=61.07  Aligned_cols=98  Identities=14%  Similarity=-0.031  Sum_probs=70.5

Q ss_pred             HhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhccc----------HHHHHHHHHHHHHHhhhcCCCccHHHHH
Q 048394          364 LQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQ----------LDLALNEMEAALSEAKQFHWRPMQVTVD  433 (485)
Q Consensus       364 ~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~~~~~~~~~~~~~~~~~~  433 (485)
                      .+.+.+++|...+++..+.+   +.+...|..+..++...++          +++|+..|++.++.     .+.+...|.
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~---P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~l-----dP~~~~A~~   84 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN---PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI-----DPKKDEAVW   84 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH-----CTTCHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHh-----CcCcHHHHH
Confidence            34456777777777777764   4456666666666666655          45888888888887     344667888


Q ss_pred             HHHHHHhhcC-----------ChhhHHHHHHHHhhcCCCCHHHHHHH
Q 048394          434 TFFRFFEEEK-----------DVDGAEEFCKVLKSLNCLDFSAYSLL  469 (485)
Q Consensus       434 ~l~~~~~~~~-----------~~~~A~~~~~~~~~~~~~~~~~~~~l  469 (485)
                      .+..+|...|           ++++|.+.|+++++.+|.+...+..+
T Consensus        85 ~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~y~~al  131 (158)
T 1zu2_A           85 CIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSL  131 (158)
T ss_dssp             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            8888887764           78899999999998888876555544

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.11  E-value=5.5e-06  Score=60.73  Aligned_cols=90  Identities=10%  Similarity=-0.105  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCC------hHHH
Q 048394          214 NLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRD------RKAY  287 (485)
Q Consensus       214 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~------~~~~  287 (485)
                      ...+..+...+...|++++|.+.|++..+  ..+.+...+..+..++...|++++|...+++.....|.+      ...+
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~   81 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLIT--AQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQ   81 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHH
Confidence            34444455555555555555555555555  334445555555555555566666665555555544444      4444


Q ss_pred             HHHHHHHHhcCChhhHHH
Q 048394          288 HFLISLYCNTSNLDAVNR  305 (485)
Q Consensus       288 ~~l~~~~~~~~~~~~a~~  305 (485)
                      ..+..++...|+.+.|..
T Consensus        82 ~~~~~~~~~~~~~~~a~~   99 (111)
T 2l6j_A           82 YRLELAQGAVGSVQIPVV   99 (111)
T ss_dssp             HHHHHHHHHHHCCCCCSS
T ss_pred             HHHHHHHHHHHhHhhhHh
Confidence            444444444444444433

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.10  E-value=4.4e-05  Score=56.35  Aligned_cols=80  Identities=11%  Similarity=0.080  Sum_probs=45.6

Q ss_pred             HHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHH
Q 048394          336 ILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEA  415 (485)
Q Consensus       336 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  415 (485)
                      .|.+.|++..+..+. +...+..+...|...|++++|...|++..+.+   +.+...|..+...|...|++++|...|++
T Consensus         3 ~a~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~la~~~~~~g~~~~A~~~~~~   78 (115)
T 2kat_A            3 AITERLEAMLAQGTD-NMLLRFTLGKTYAEHEQFDAALPHLRAALDFD---PTYSVAWKWLGKTLQGQGDRAGARQAWES   78 (115)
T ss_dssp             CHHHHHHHHHTTTCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC---CCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            355555555554433 45555556666666666666666666665543   23344555555566666666666666666


Q ss_pred             HHHH
Q 048394          416 ALSE  419 (485)
Q Consensus       416 ~~~~  419 (485)
                      .+..
T Consensus        79 al~~   82 (115)
T 2kat_A           79 GLAA   82 (115)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            6554

>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=5.7e-05  Score=52.77  Aligned_cols=75  Identities=19%  Similarity=0.197  Sum_probs=30.7

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHH
Q 048394          217 YIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISL  293 (485)
Q Consensus       217 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  293 (485)
                      +..+...+...|++++|...+++..+  ..+.+...+..+..++...|++++|...+++..+..|.+...+..+..+
T Consensus        12 ~~~la~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~   86 (91)
T 1na3_A           12 WYNLGNAYYKQGDYDEAIEYYQKALE--LDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNA   86 (91)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            33333444444444444444444443  2223333344444444444444444444444444333333344333333

>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=9.3e-05  Score=52.97  Aligned_cols=86  Identities=15%  Similarity=-0.032  Sum_probs=59.5

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCC--CCHHHH
Q 048394          389 FFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNC--LDFSAY  466 (485)
Q Consensus       389 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~  466 (485)
                      +...+..+...|...|++++|+..|+++++.     .+.+...|..+..++...|++++|.+.++++++..|  .+....
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-----~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~   80 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVET-----DPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGTQKDL   80 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhcCCchhHH
Confidence            4455666777777777788888777777776     334566777777777777888888777777777654  356666


Q ss_pred             HHHHHHHHHhCCC
Q 048394          467 SLLIKTYIAAGKL  479 (485)
Q Consensus       467 ~~l~~~~~~~g~~  479 (485)
                      ..+...+...+..
T Consensus        81 ~~l~~~l~~~~~~   93 (100)
T 3ma5_A           81 SELQDAKLKAEGL   93 (100)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcccc
Confidence            6666666665544

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.92  E-value=0.00012  Score=68.93  Aligned_cols=64  Identities=6%  Similarity=-0.191  Sum_probs=29.9

Q ss_pred             HhHHHHHHHHHhcCcHHHHHHHHHHHHhc-----ccccCCch-hHHHHHHHHHHhcccHHHHHHHHHHHHH
Q 048394          354 RLADVIIRAYLQKDMYEEAALIFNNAKKR-----ANASARFF-KSRESFMIYYLRSRQLDLALNEMEAALS  418 (485)
Q Consensus       354 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~  418 (485)
                      .+++.|...|...|++++|+.++++..+.     |.. .|+. .+.+.+..++...+.+++|..+|.++.+
T Consensus       394 ~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~-Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          394 MAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPS-HPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTT-SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555555555544321     210 2222 2233444445555555555555555554

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.91  E-value=8e-05  Score=70.13  Aligned_cols=97  Identities=4%  Similarity=-0.002  Sum_probs=50.7

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHhhhc-----CCC---ChhhHHHHHHHHHhcCChhHHHHHHHHHHH-----ccCC-C
Q 048394          286 AYHFLISLYCNTSNLDAVNRVWGILKST-----FPP---TNTSYLVLLQALAKLNAIDILKQCFEEWES-----RCSS-Y  351 (485)
Q Consensus       286 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~-~  351 (485)
                      +++.|..+|...|++++|..++++....     |+.   ...+++.|...|...|++++|+.++++..+     .|.. |
T Consensus       353 ~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp  432 (490)
T 3n71_A          353 LLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHP  432 (490)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCCh
Confidence            4455555555555555555555443321     222   334455556666666666666665555432     1221 1


Q ss_pred             C-HHhHHHHHHHHHhcCcHHHHHHHHHHHHhc
Q 048394          352 D-MRLADVIIRAYLQKDMYEEAALIFNNAKKR  382 (485)
Q Consensus       352 ~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  382 (485)
                      + ..+.+.+..++...+.+++|+.+|.++++.
T Consensus       433 ~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          433 ITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            1 233445556666667777777777777654

>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=97.91  E-value=8e-05  Score=57.43  Aligned_cols=86  Identities=13%  Similarity=0.115  Sum_probs=50.3

Q ss_pred             hcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChh----------hHHHHHHHhhhcCCCChhhHHHHHHHHHhc
Q 048394          262 KAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLD----------AVNRVWGILKSTFPPTNTSYLVLLQALAKL  331 (485)
Q Consensus       262 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~----------~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  331 (485)
                      +.+.+++|...++...+..|.+...|..+..++...++++          +|+..|++..+..|....+|..+..+|...
T Consensus        14 r~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~l   93 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSF   93 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh
Confidence            3455666666666666666666666666666666655543          555555555555555555555555555544


Q ss_pred             C-----------ChhHHHHHHHHHHHc
Q 048394          332 N-----------AIDILKQCFEEWESR  347 (485)
Q Consensus       332 ~-----------~~~~a~~~~~~~~~~  347 (485)
                      |           ++++|.+.|++..+.
T Consensus        94 g~l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           94 AFLTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccCcchhhhhccHHHHHHHHHHHHHh
Confidence            3           455555555555544

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.90  E-value=5.9e-05  Score=54.01  Aligned_cols=66  Identities=20%  Similarity=0.068  Sum_probs=43.7

Q ss_pred             CCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhh
Q 048394          247 KCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKS  312 (485)
Q Consensus       247 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  312 (485)
                      +.+...+..+..+|...|++++|...|+++.+..|.+..+|..+..+|...|++++|...+++..+
T Consensus         4 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            4 PEDPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             -CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            345556666666777777777777777776666666666677777777777777777766666543

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.83  E-value=0.00051  Score=52.48  Aligned_cols=112  Identities=9%  Similarity=-0.152  Sum_probs=75.8

Q ss_pred             CChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHh----cccHH
Q 048394          332 NAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLR----SRQLD  407 (485)
Q Consensus       332 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~  407 (485)
                      ++.++|.+.|++..+.|. |+..    |...|...+.+++|...|++..+.|.     ...+..|...|..    .++++
T Consensus         9 ~d~~~A~~~~~~aa~~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g~-----~~a~~~Lg~~y~~G~g~~~d~~   78 (138)
T 1klx_A            9 KDLKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKACELNS-----GNGCRFLGDFYENGKYVKKDLR   78 (138)
T ss_dssp             HHHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHTTC-----HHHHHHHHHHHHHCSSSCCCHH
T ss_pred             cCHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcCCC-----HHHHHHHHHHHHcCCCCCccHH
Confidence            456777777777777652 2332    66666666777778888877776542     3455566666666    67788


Q ss_pred             HHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhh----cCChhhHHHHHHHHhhcCC
Q 048394          408 LALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEE----EKDVDGAEEFCKVLKSLNC  460 (485)
Q Consensus       408 ~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~  460 (485)
                      +|+.+|++..+.+       +...+..|...|..    .+|+++|.++|++..+.+.
T Consensus        79 ~A~~~~~~Aa~~g-------~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           79 KAAQYYSKACGLN-------DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHHTT-------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHcCC-------CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            8888888877663       45556666666766    6788888888888777643

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.77  E-value=0.00094  Score=50.97  Aligned_cols=111  Identities=11%  Similarity=-0.072  Sum_probs=60.7

Q ss_pred             ccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHh----cCChhHHHH
Q 048394          264 ELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAK----LNAIDILKQ  339 (485)
Q Consensus       264 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~  339 (485)
                      +++++|...|++..+...+...    +...|...+.+++|...|++..+.+  +...+..+...|..    .++.++|.+
T Consensus         9 ~d~~~A~~~~~~aa~~g~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g--~~~a~~~Lg~~y~~G~g~~~d~~~A~~   82 (138)
T 1klx_A            9 KDLKKAIQYYVKACELNEMFGC----LSLVSNSQINKQKLFQYLSKACELN--SGNGCRFLGDFYENGKYVKKDLRKAAQ   82 (138)
T ss_dssp             HHHHHHHHHHHHHHHTTCTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHCSSSCCCHHHHHH
T ss_pred             cCHHHHHHHHHHHHcCCCHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC--CHHHHHHHHHHHHcCCCCCccHHHHHH
Confidence            3555666666655553332222    4455555555555666666555432  34455555555555    556666666


Q ss_pred             HHHHHHHccCCCCHHhHHHHHHHHHh----cCcHHHHHHHHHHHHhcc
Q 048394          340 CFEEWESRCSSYDMRLADVIIRAYLQ----KDMYEEAALIFNNAKKRA  383 (485)
Q Consensus       340 ~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~  383 (485)
                      .|++..+.|   ++..+..|...|..    .+++++|...|++..+.|
T Consensus        83 ~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           83 YYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            666665543   44455555555655    566666666666666554

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.70  E-value=0.00048  Score=48.90  Aligned_cols=73  Identities=11%  Similarity=-0.018  Sum_probs=46.8

Q ss_pred             HHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHH-HHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHH--HHHHHHH
Q 048394          397 MIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQV-TVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAY--SLLIKTY  473 (485)
Q Consensus       397 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~--~~l~~~~  473 (485)
                      ...+.+.|++++|+..++++++.     .+.+.. .+..+..++...|++++|...|+++.+..|.+..++  ..+..++
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~-----~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~a~   81 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQT-----EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQARKMVMDIL   81 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH-----CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH-----CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHH
Confidence            34556677777777777777765     333455 666666677777777777777777777777666655  4444443


Q ss_pred             H
Q 048394          474 I  474 (485)
Q Consensus       474 ~  474 (485)
                      .
T Consensus        82 ~   82 (99)
T 2kc7_A           82 N   82 (99)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=97.66  E-value=0.0023  Score=56.87  Aligned_cols=64  Identities=11%  Similarity=-0.079  Sum_probs=34.1

Q ss_pred             CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          352 DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       352 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      ++.+|..+...+...|++++|...++++...    .|+...|..+...+.-.|++++|.+.|+++...
T Consensus       276 ~a~~~~alal~~l~~gd~d~A~~~l~rAl~L----n~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL  339 (372)
T 3ly7_A          276 LSIIYQIKAVSALVKGKTDESYQAINTGIDL----EMSWLNYVLLGKVYEMKGMNREAADAYLTAFNL  339 (372)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH----CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc----CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            4455555544444455555555555555554    344444444445555555555555555555554

>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=97.63  E-value=0.0032  Score=55.93  Aligned_cols=150  Identities=8%  Similarity=-0.055  Sum_probs=96.1

Q ss_pred             cCCCChHHHHHHHHHHHh--cC---ChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCH
Q 048394          279 MKPRDRKAYHFLISLYCN--TS---NLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDM  353 (485)
Q Consensus       279 ~~~~~~~~~~~l~~~~~~--~~---~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  353 (485)
                      ..|.+..+|...+++...  .+   ...+|..+|++..+..|.....+..+..++.-             ....+.. +.
T Consensus       189 ~~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~~a~A~A~la~a~~~-------------~~~~~~~-~~  254 (372)
T 3ly7_A          189 ILPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPEFTYARAEKALVDIV-------------RHSQHPL-DE  254 (372)
T ss_dssp             HSCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH-------------HHHHSCC-CH
T ss_pred             cCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH-------------HhccCCC-ch
Confidence            455667777766655432  22   23567777777777776666666555554430             0011100 11


Q ss_pred             HhHHHHHHHHHhcCcHHHHHHHHHHHHhc-ccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHH
Q 048394          354 RLADVIIRAYLQKDMYEEAALIFNNAKKR-ANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTV  432 (485)
Q Consensus       354 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  432 (485)
                      .             .......-++..... ..  ..+..+|..+...+...|++++|...+++++..+      |+...|
T Consensus       255 ~-------------~~~~l~~a~~a~~a~~~~--~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln------~s~~a~  313 (372)
T 3ly7_A          255 K-------------QLAALNTEIDNIVTLPEL--NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE------MSWLNY  313 (372)
T ss_dssp             H-------------HHHHHHHHHHHHHTCGGG--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC------CCHHHH
T ss_pred             h-------------hHHHHHHHHHHHHhcccC--CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC------CCHHHH
Confidence            0             011111112222211 22  5566778777777777899999999999999974      788888


Q ss_pred             HHHHHHHhhcCChhhHHHHHHHHhhcCCCCH
Q 048394          433 DTFFRFFEEEKDVDGAEEFCKVLKSLNCLDF  463 (485)
Q Consensus       433 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~  463 (485)
                      ..+...+.-.|++++|.+.++++..+.|..+
T Consensus       314 ~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~  344 (372)
T 3ly7_A          314 VLLGKVYEMKGMNREAADAYLTAFNLRPGAN  344 (372)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSCSHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhcCCCcC
Confidence            8888899999999999999999999988654

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.51  E-value=0.00024  Score=50.48  Aligned_cols=59  Identities=15%  Similarity=0.173  Sum_probs=27.9

Q ss_pred             HHHHhcccHHHHHHHHHHHHhcCCCChH-HHHHHHHHHHhcCChhhHHHHHHHhhhcCCC
Q 048394          258 SIYVKAELFEKAELALKKLEEMKPRDRK-AYHFLISLYCNTSNLDAVNRVWGILKSTFPP  316 (485)
Q Consensus       258 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  316 (485)
                      ..+...|++++|...++++.+..|.+.. .+..+..++...|++++|...|++.....+.
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~   67 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPD   67 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence            3344444445555444444444444444 4444444444444444444444444444444

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.37  E-value=0.0033  Score=45.04  Aligned_cols=81  Identities=16%  Similarity=-0.065  Sum_probs=63.1

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcC--CCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHH
Q 048394          390 FKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFH--WRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYS  467 (485)
Q Consensus       390 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  467 (485)
                      ..-+..+...+.+.|++..|..+|+.+++......  -.+...++..+..++.+.|+++.|...++++.+..|.+..+..
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~   84 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANG   84 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHh
Confidence            34455777888899999999999999887642211  2345678888889999999999999999999999998888766


Q ss_pred             HHH
Q 048394          468 LLI  470 (485)
Q Consensus       468 ~l~  470 (485)
                      .+.
T Consensus        85 n~~   87 (104)
T 2v5f_A           85 NLK   87 (104)
T ss_dssp             HHH
T ss_pred             hHH
Confidence            654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.34  E-value=0.0033  Score=43.87  Aligned_cols=70  Identities=13%  Similarity=0.159  Sum_probs=40.5

Q ss_pred             CCcHHHHHHHHHHHHhccc---HHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC
Q 048394          247 KCRWTTYSNLASIYVKAEL---FEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP  316 (485)
Q Consensus       247 ~~~~~~~~~l~~~~~~~~~---~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  316 (485)
                      +.+...+..+..++...++   .++|..++++..+..|.++.+...+...+...|++++|...|+++.+..+.
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            3444555555555543333   456666666666666666666666666666666666666666666655554

>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=97.33  E-value=0.0017  Score=60.07  Aligned_cols=103  Identities=10%  Similarity=-0.069  Sum_probs=71.0

Q ss_pred             hcCcHHHHHHHHHHHHhcc---c-ccCCc-hhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhc--CCCcc-HHHHHHHH
Q 048394          365 QKDMYEEAALIFNNAKKRA---N-ASARF-FKSRESFMIYYLRSRQLDLALNEMEAALSEAKQF--HWRPM-QVTVDTFF  436 (485)
Q Consensus       365 ~~~~~~~A~~~~~~~~~~~---~-~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~-~~~~~~l~  436 (485)
                      ..|++++|..++++.++..   . +..|+ ..+++.|...|...|++++|+.++++++......  +..|+ ..+++.|.
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            4578888888888776531   1 00122 3557888888888999999999988887653221  12233 45678888


Q ss_pred             HHHhhcCChhhHHHHHHHHhh-----cCCCCHHHHH
Q 048394          437 RFFEEEKDVDGAEEFCKVLKS-----LNCLDFSAYS  467 (485)
Q Consensus       437 ~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~~~  467 (485)
                      ..|..+|++++|+.+++++++     .||..+.+-.
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~  425 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAIMEVAHGKDHPYISE  425 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHHHHHHcCCCChHHHH
Confidence            899999999999999888877     3566665543

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.32  E-value=0.005  Score=46.89  Aligned_cols=93  Identities=13%  Similarity=0.007  Sum_probs=63.2

Q ss_pred             cHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcc---cHHHHHHHHHHHHHHhhhcCCCc--cHHHHHHHHHHHhhc
Q 048394          368 MYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSR---QLDLALNEMEAALSEAKQFHWRP--MQVTVDTFFRFFEEE  442 (485)
Q Consensus       368 ~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~  442 (485)
                      ....+.+-|.+....+   .++..+...+..++++.+   +.++++.++++..+.     ..|  ....+..+.-++.+.
T Consensus        13 ~l~~~~~~y~~e~~~~---~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~-----~~p~~~rd~lY~LAv~~~kl   84 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAG---SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPK-----GSKEEQRDYVFYLAVGNYRL   84 (152)
T ss_dssp             HHHHHHHHHHHHHHTT---CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHH-----SCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHccC---CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-----CCccchHHHHHHHHHHHHHc
Confidence            3455566666655555   456666666667777766   666888888888776     223  345555566677888


Q ss_pred             CChhhHHHHHHHHhhcCCCCHHHHHH
Q 048394          443 KDVDGAEEFCKVLKSLNCLDFSAYSL  468 (485)
Q Consensus       443 ~~~~~A~~~~~~~~~~~~~~~~~~~~  468 (485)
                      |++++|.+.++.+++..|.+..+...
T Consensus        85 ~~Y~~A~~y~~~lL~ieP~n~QA~~L  110 (152)
T 1pc2_A           85 KEYEKALKYVRGLLQTEPQNNQAKEL  110 (152)
T ss_dssp             SCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            88888888888888888877666554

>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=97.31  E-value=0.0036  Score=57.99  Aligned_cols=114  Identities=12%  Similarity=-0.022  Sum_probs=80.5

Q ss_pred             HHHHHhcCcHHHHHHHHHHHHhccc-ccCCc----hhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhc--CCCcc-HHH
Q 048394          360 IRAYLQKDMYEEAALIFNNAKKRAN-ASARF----FKSRESFMIYYLRSRQLDLALNEMEAALSEAKQF--HWRPM-QVT  431 (485)
Q Consensus       360 ~~~~~~~~~~~~A~~~~~~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~-~~~  431 (485)
                      +..+.+.|++++|+.++++..+... ...|+    ..+++.+...|...|++++|+.++++++......  +..|+ ..+
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            4445677899999999998876411 00222    3467888889999999999999999888653221  22333 456


Q ss_pred             HHHHHHHHhhcCChhhHHHHHHHHhh-----cCCCCHHHH---HHHHHHH
Q 048394          432 VDTFFRFFEEEKDVDGAEEFCKVLKS-----LNCLDFSAY---SLLIKTY  473 (485)
Q Consensus       432 ~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~~---~~l~~~~  473 (485)
                      ++.|...|..+|++++|+.+++++.+     .||..+.+-   ..|..+.
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~  423 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIEDLILLLEECD  423 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHH
Confidence            78888999999999999999998877     366665553   4454444

>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=97.08  E-value=0.019  Score=43.12  Aligned_cols=105  Identities=12%  Similarity=0.177  Sum_probs=70.1

Q ss_pred             cCCCChHHHHHHHHHHHhcCCh------hhHHHHHHHhhhcCCCC-h---hhHHHHHHH---HHhcCChhHHHHHHHHHH
Q 048394          279 MKPRDRKAYHFLISLYCNTSNL------DAVNRVWGILKSTFPPT-N---TSYLVLLQA---LAKLNAIDILKQCFEEWE  345 (485)
Q Consensus       279 ~~~~~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~-~---~~~~~l~~~---~~~~~~~~~a~~~~~~~~  345 (485)
                      +.|.|..+|-..+...-+.|++      +...++|++....-|++ .   ..|.-+.--   +...++.++|.++|+.+.
T Consensus         8 ~~p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~   87 (161)
T 4h7y_A            8 MMANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMAR   87 (161)
T ss_dssp             --CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHHSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHH
T ss_pred             eCCCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHcCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            4456677777777777767777      67777777777666652 1   111111111   123478899999999887


Q ss_pred             HccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhccc
Q 048394          346 SRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRAN  384 (485)
Q Consensus       346 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  384 (485)
                      +.+-.- ...|....+.-.++|++.+|.+++.+.+..+.
T Consensus        88 ~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~  125 (161)
T 4h7y_A           88 ANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGA  125 (161)
T ss_dssp             HHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCC
Confidence            764443 77777777777888999999999998888764

>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=97.02  E-value=0.0084  Score=55.42  Aligned_cols=89  Identities=9%  Similarity=-0.040  Sum_probs=65.0

Q ss_pred             hcCChhHHHHHHHHHHHc---cCCCC----HHhHHHHHHHHHhcCcHHHHHHHHHHHHhc-----ccccCCc-hhHHHHH
Q 048394          330 KLNAIDILKQCFEEWESR---CSSYD----MRLADVIIRAYLQKDMYEEAALIFNNAKKR-----ANASARF-FKSRESF  396 (485)
Q Consensus       330 ~~~~~~~a~~~~~~~~~~---~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~~~~p~-~~~~~~l  396 (485)
                      ..|++++|+.++++..+.   -..|+    ..+++.|..+|...|++++|+.++++.++.     |.. .|+ ..+++.|
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~-Hp~~a~~l~nL  388 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVY-SLNVASMWLKL  388 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSS-CHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCC-ChHHHHHHHHH
Confidence            346788888888876552   12222    467888889999999999999998887642     211 233 3457888


Q ss_pred             HHHHHhcccHHHHHHHHHHHHHH
Q 048394          397 MIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       397 ~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      ...|...|++++|..+++++++.
T Consensus       389 a~~~~~qg~~~eA~~~~~~Al~i  411 (433)
T 3qww_A          389 GRLYMGLENKAAGEKALKKAIAI  411 (433)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhccCHHHHHHHHHHHHHH
Confidence            88899999999999999988765

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=97.01  E-value=0.062  Score=53.96  Aligned_cols=158  Identities=11%  Similarity=0.018  Sum_probs=75.0

Q ss_pred             HHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC--ChhhHHHHHHHHHhcCChh
Q 048394          258 SIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP--TNTSYLVLLQALAKLNAID  335 (485)
Q Consensus       258 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~  335 (485)
                      ..++-.|+.+....++..+.+....+..-...+.-++...|+.+.+..+.+.+.....+  .......+.-+|+..|+..
T Consensus       498 li~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~~dp~vRygaa~alglAyaGTGn~~  577 (963)
T 4ady_A          498 LCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQELADDLITKMLASDESLLRYGGAFTIALAYAGTGNNS  577 (963)
T ss_dssp             HHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHCSCHHHHHHHHHHHHHHTTTSCCHH
T ss_pred             hhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcCCCCHH
Confidence            33444556655555555554422212222222333334566767666666666553322  1122234445556666766


Q ss_pred             HHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccH-HHHHHHHH
Q 048394          336 ILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQL-DLALNEME  414 (485)
Q Consensus       336 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~-~~A~~~~~  414 (485)
                      ...+++..+.+.. ..++.....+.-++...|+.+.+.++++.+.+.+   .|....-..+.-+....|.. .++++.+.
T Consensus       578 aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~~---d~~VR~gAalALGli~aGn~~~~aid~L~  653 (963)
T 4ady_A          578 AVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSH---NAHVRCGTAFALGIACAGKGLQSAIDVLD  653 (963)
T ss_dssp             HHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGCS---CHHHHHHHHHHHHHHTSSSCCHHHHHHHH
T ss_pred             HHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHhccCCCcHHHHHHHH
Confidence            6666666665431 1123322333334444555555555555444332   33333333333344444443 56777777


Q ss_pred             HHHHH
Q 048394          415 AALSE  419 (485)
Q Consensus       415 ~~~~~  419 (485)
                      .+...
T Consensus       654 ~L~~D  658 (963)
T 4ady_A          654 PLTKD  658 (963)
T ss_dssp             HHHTC
T ss_pred             HHccC
Confidence            77543

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.99  E-value=0.0084  Score=55.51  Aligned_cols=25  Identities=8%  Similarity=-0.008  Sum_probs=12.1

Q ss_pred             HHHHHHHHHhCCCcccHHHHHHHHH
Q 048394          182 FNNLSTMYLRLGQPEKVRPLVNQMK  206 (485)
Q Consensus       182 ~~~l~~~~~~~g~~~~a~~~~~~~~  206 (485)
                      ++.|...|...|++++|+.++++..
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            4444444555555555554444443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.97  E-value=0.072  Score=41.68  Aligned_cols=104  Identities=19%  Similarity=0.225  Sum_probs=67.7

Q ss_pred             HHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCccc
Q 048394          118 LDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEK  197 (485)
Q Consensus       118 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~  197 (485)
                      .....+.|+++.|.++.+.+.    +...|..|.....+.|+++-|.+.|.+...         +..+.-.|.-.|+.++
T Consensus        12 F~LAL~lg~l~~A~e~a~~l~----~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~   78 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKLN----DSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNK   78 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHC----CHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHhC----CHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHH
Confidence            444556777777777776652    567778888777778888888777776543         4455555666677666


Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHH
Q 048394          198 VRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEM  240 (485)
Q Consensus       198 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  240 (485)
                      ..++-+.....|      -++.....+...|+++++.++|.+.
T Consensus        79 L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           79 LSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC
Confidence            665555555443      2344455566677777777777554

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.97  E-value=0.0065  Score=42.33  Aligned_cols=67  Identities=4%  Similarity=-0.126  Sum_probs=33.8

Q ss_pred             CCChHHHHHHHHHHHhcCC---hhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048394          281 PRDRKAYHFLISLYCNTSN---LDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESR  347 (485)
Q Consensus       281 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  347 (485)
                      |.++..+..+..++...++   .++|..++++.....|.+..+...+...+.+.|++++|...|+.+.+.
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            3344455555555443332   355555555555555555555555555555555555555555555444

>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=96.91  E-value=0.011  Score=50.29  Aligned_cols=92  Identities=11%  Similarity=0.152  Sum_probs=60.0

Q ss_pred             HHHHHHHHHHHHhcCCC--ChHHHHHHHHHHHhc-----CChhhHHHHHHHhhhcCCC-ChhhHHHHHHHHHhc-CChhH
Q 048394          266 FEKAELALKKLEEMKPR--DRKAYHFLISLYCNT-----SNLDAVNRVWGILKSTFPP-TNTSYLVLLQALAKL-NAIDI  336 (485)
Q Consensus       266 ~~~A~~~~~~~~~~~~~--~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~-~~~~~  336 (485)
                      ...|...+++..+.+|.  +...|..+...|.+.     |+.++|.+.|++..+.++. +..++......++.. |+.+.
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            45566666666666664  455677777777663     7777777777777777765 466666677776663 77777


Q ss_pred             HHHHHHHHHHccCC--CCHHhHH
Q 048394          337 LKQCFEEWESRCSS--YDMRLAD  357 (485)
Q Consensus       337 a~~~~~~~~~~~~~--~~~~~~~  357 (485)
                      +.+.+++.....+.  |+....+
T Consensus       259 a~~~L~kAL~a~p~~~P~~~lan  281 (301)
T 3u64_A          259 FDEALDRALAIDPESVPHNKLLV  281 (301)
T ss_dssp             HHHHHHHHHHCCGGGCSSCHHHH
T ss_pred             HHHHHHHHHcCCCCCCCChhHHH
Confidence            77777777766555  5543333

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.87  E-value=0.014  Score=41.67  Aligned_cols=76  Identities=16%  Similarity=0.045  Sum_probs=46.5

Q ss_pred             cHHHHHHHHHHHHhcCCHhHHHHHHHHHHhcc-----CCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHH
Q 048394          213 DNLTYIVWMQSYSHLNDIDGVERVFYEMCNEC-----EDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAY  287 (485)
Q Consensus       213 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  287 (485)
                      +...+..+...+.+.|++..|...|+...+..     ...+...++..+..+|.+.|+++.|...++++.+..|.+..+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~   83 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRAN   83 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHH
Confidence            34445556666667777777777776655421     1234455666677777777777777777777766666555443


Q ss_pred             H
Q 048394          288 H  288 (485)
Q Consensus       288 ~  288 (485)
                      +
T Consensus        84 ~   84 (104)
T 2v5f_A           84 G   84 (104)
T ss_dssp             H
T ss_pred             h
Confidence            3

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.78  E-value=0.17  Score=51.38  Aligned_cols=75  Identities=7%  Similarity=-0.096  Sum_probs=41.7

Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhc
Q 048394          218 IVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNT  297 (485)
Q Consensus       218 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  297 (485)
                      ..++..+.+.|..+.|.++.+....             -.......|+++.|.++.+.+     .+...|..+.+.+.+.
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~~~~-------------~f~~~l~~~~~~~A~~~~~~~-----~~~~~W~~la~~al~~  694 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPDQDQ-------------KFELALKVGQLTLARDLLTDE-----SAEMKWRALGDASLQR  694 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCCHHH-------------HHHHHHHHTCHHHHHHHHTTC-----CCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCChHHheecCCCcch-------------heehhhhcCCHHHHHHHHHhh-----CcHhHHHHHHHHHHHc
Confidence            4455555566666666544421111             123344566666666665432     3456667777777777


Q ss_pred             CChhhHHHHHHHh
Q 048394          298 SNLDAVNRVWGIL  310 (485)
Q Consensus       298 ~~~~~a~~~~~~~  310 (485)
                      ++++.|.+.|.++
T Consensus       695 ~~~~~A~~~y~~~  707 (814)
T 3mkq_A          695 FNFKLAIEAFTNA  707 (814)
T ss_dssp             TCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHc
Confidence            7777666666654

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.72  E-value=4.2e-05  Score=69.24  Aligned_cols=245  Identities=14%  Similarity=0.143  Sum_probs=157.0

Q ss_pred             CchhHHHHHHhhcCCCCcHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 048394           42 NEDKLYKRLSALGATGGSVTGALNAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLT  121 (485)
Q Consensus        42 ~~~~l~~~l~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  121 (485)
                      ..+.++.++.+...+.+.+.++++.+++.   .|+..|..++....+.|.+++-+..+.-.++..-.|  ..=+.|+-+|
T Consensus        52 n~p~VWs~LgkAqL~~~~v~eAIdsyIkA---~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~--~IDteLi~ay  126 (624)
T 3lvg_A           52 NEPAVWSQLAKAQLQKGMVKEAIDSYIKA---DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARES--YVETELIFAL  126 (624)
T ss_dssp             CCCCCSSSHHHHTTTSSSCTTTTTSSCCC---SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCST--TTTHHHHHHH
T ss_pred             CCccHHHHHHHHHHccCchHHHHHHHHhC---CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccc--ccHHHHHHHH
Confidence            34456777777777788888888888776   455668889999999999999998887766654333  3345788899


Q ss_pred             HhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCC--------------------CCCChhh
Q 048394          122 AKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELK--------------------FLGNTVA  181 (485)
Q Consensus       122 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~--------------------~~p~~~~  181 (485)
                      ++.+++.+-++++.     .||..-...+..-|...|.++.|.-+|..+....                    -.-++.|
T Consensus       127 Ak~~rL~elEefl~-----~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~kt  201 (624)
T 3lvg_A          127 AKTNRLAELEEFIN-----GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRT  201 (624)
T ss_dssp             HTSCSSSTTTSTTS-----CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCS
T ss_pred             HhhCcHHHHHHHHc-----CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhH
Confidence            99888765443332     3455555566666666676666666665443210                    1125668


Q ss_pred             HHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHH
Q 048394          182 FNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYV  261 (485)
Q Consensus       182 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  261 (485)
                      |-.+-.+|...+.+.-|.-.--.+.-.   ||  ....++..|-..|.+++-+.+++.-..  ........|+.|.-.|+
T Consensus       202 WKeV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~G~f~ELIsLlEaglg--lErAHmGmFTELaILYs  274 (624)
T 3lvg_A          202 WKEVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDRGYFEELITMLEAALG--LERAHMGMFTELAILYS  274 (624)
T ss_dssp             HHHHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTTCCCTTSTTTHHHHTT--STTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhCCCHHHHHHHHHHHhC--CCchhHHHHHHHHHHHH
Confidence            888888888888877766554444322   11  122356667778888888888877764  45567777777777776


Q ss_pred             hcccHHHHHHHHHHHHh-cCC-------CChHHHHHHHHHHHhcCChhhHH
Q 048394          262 KAELFEKAELALKKLEE-MKP-------RDRKAYHFLISLYCNTSNLDAVN  304 (485)
Q Consensus       262 ~~~~~~~A~~~~~~~~~-~~~-------~~~~~~~~l~~~~~~~~~~~~a~  304 (485)
                      +- ++++..+.++..-. +.-       .....|..++-.|.+-.++|.|.
T Consensus       275 KY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          275 KF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             SS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             hc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            65 34444444333222 111       23455667777777766666554

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.72  E-value=0.026  Score=57.37  Aligned_cols=45  Identities=16%  Similarity=0.171  Sum_probs=24.4

Q ss_pred             HhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHH
Q 048394          122 AKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKM  170 (485)
Q Consensus       122 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m  170 (485)
                      ...|+++.|.++.+.+.    +...|..+...+.+.++++.|.+.|.++
T Consensus       663 l~~~~~~~A~~~~~~~~----~~~~W~~la~~al~~~~~~~A~~~y~~~  707 (814)
T 3mkq_A          663 LKVGQLTLARDLLTDES----AEMKWRALGDASLQRFNFKLAIEAFTNA  707 (814)
T ss_dssp             HHHTCHHHHHHHHTTCC----CHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhcCCHHHHHHHHHhhC----cHhHHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            34555555555544442    4455555555555555555555555554

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.62  E-value=0.081  Score=41.38  Aligned_cols=131  Identities=7%  Similarity=0.002  Sum_probs=96.4

Q ss_pred             HHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHH
Q 048394           83 VRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTER  162 (485)
Q Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  162 (485)
                      +....+.|+++.|.++.+.+      .+...|..+.....+.|+++-|++.|.....       +..+.-.|.-.|+.+.
T Consensus        12 F~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D-------~~~L~~Ly~~tg~~e~   78 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS-------FDKLSFLYLVTGDVNK   78 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC-------HHHHHHHHHHHTCHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC-------HHHHHHHHHHhCCHHH
Confidence            44567889999999998876      3678899999999999999999999999976       4555566677888887


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048394          163 ALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMC  241 (485)
Q Consensus       163 A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  241 (485)
                      -.++-+.....|      -++.....+.-.|+++++.++|.+.   |..|....      .....|..+.|.++.+++.
T Consensus        79 L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~---~r~~eA~~------~A~t~g~~~~a~~~~~~~~  142 (177)
T 3mkq_B           79 LSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG---GSLPLAYA------VAKANGDEAAASAFLEQAE  142 (177)
T ss_dssp             HHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT---TCHHHHHH------HHHHTTCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC---CChHHHHH------HHHHcCcHHHHHHHHHHhC
Confidence            776666655554      4577777788899999999988554   32222221      1223566777888877664

>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=96.52  E-value=0.047  Score=46.51  Aligned_cols=107  Identities=13%  Similarity=0.012  Sum_probs=83.4

Q ss_pred             hhhHHHHHHHhhhcCCC--ChhhHHHHHHHHHhc-----CChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhc-CcHHH
Q 048394          300 LDAVNRVWGILKSTFPP--TNTSYLVLLQALAKL-----NAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQK-DMYEE  371 (485)
Q Consensus       300 ~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~  371 (485)
                      ...|...+++..+..+.  +...|..+...|.+.     |+.++|.+.|++..+.++.-+..++....+.++.. |+.++
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            35788888999998888  788999999999985     99999999999999987653577777788888884 99999


Q ss_pred             HHHHHHHHHhcccccC--CchhHHHHHHHHHHhcccHHHHHHHHHHH
Q 048394          372 AALIFNNAKKRANASA--RFFKSRESFMIYYLRSRQLDLALNEMEAA  416 (485)
Q Consensus       372 A~~~~~~~~~~~~~~~--p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  416 (485)
                      +.+.+++.+....  .  |+....+.+        .-.+|..++.++
T Consensus       259 a~~~L~kAL~a~p--~~~P~~~lan~~--------~q~eA~~LL~~~  295 (301)
T 3u64_A          259 FDEALDRALAIDP--ESVPHNKLLVIL--------SQKRARWLKAHV  295 (301)
T ss_dssp             HHHHHHHHHHCCG--GGCSSCHHHHHH--------HHHHHHHHHHTH
T ss_pred             HHHHHHHHHcCCC--CCCCChhHHHHH--------HHHHHHHHHHHh
Confidence            9999999998865  4  665444333        335555555544

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.43  E-value=0.17  Score=37.19  Aligned_cols=58  Identities=17%  Similarity=0.077  Sum_probs=25.5

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcc
Q 048394          325 LQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRA  383 (485)
Q Consensus       325 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  383 (485)
                      ++.+...|+-|+-.+++..+.. +..|++...-.+..+|.+.|+..+|.+++.++-+.|
T Consensus        98 Ld~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG  155 (172)
T 1wy6_A           98 LDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKG  155 (172)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhh
Confidence            3344444444444444444322 123344444444444445555555555544444444

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.40  E-value=0.036  Score=42.19  Aligned_cols=21  Identities=19%  Similarity=0.194  Sum_probs=8.7

Q ss_pred             HHHhcccHHHHHHHHHHHHHH
Q 048394          399 YYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       399 ~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      +|.+.|++++|.++++.+++.
T Consensus        80 ~~~kl~~Y~~A~~y~~~lL~i  100 (152)
T 1pc2_A           80 GNYRLKEYEKALKYVRGLLQT  100 (152)
T ss_dssp             HHHHTSCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHhc
Confidence            334444444444444444443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.40  E-value=0.06  Score=39.36  Aligned_cols=94  Identities=14%  Similarity=0.018  Sum_probs=59.7

Q ss_pred             CcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHH---HHHHHHHHHHHhhhcCCCc--cHHHHHHHHHHHhh
Q 048394          367 DMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDL---ALNEMEAALSEAKQFHWRP--MQVTVDTFFRFFEE  441 (485)
Q Consensus       367 ~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~  441 (485)
                      .....+.+-|.+....|   .|+..+--.+..++++..+...   ++.+++.....+     .|  .....-.+.-++.+
T Consensus        15 ~~l~~~~~~y~~e~~~~---~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-----~p~~~Rd~lY~LAvg~yk   86 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAG---SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-----SKEEQRDYVFYLAVGNYR   86 (126)
T ss_dssp             HHHHHHHHHHHHHHHHS---CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-----CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccC---CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-----CcchHHHHHHHHHHHHHH
Confidence            34455555665555544   4555555556666766665444   777777776652     23  23344445567888


Q ss_pred             cCChhhHHHHHHHHhhcCCCCHHHHHH
Q 048394          442 EKDVDGAEEFCKVLKSLNCLDFSAYSL  468 (485)
Q Consensus       442 ~~~~~~A~~~~~~~~~~~~~~~~~~~~  468 (485)
                      .|+++.|.+.++.+++..|.|..+...
T Consensus        87 lg~Y~~A~~~~~~lL~~eP~n~QA~~L  113 (126)
T 1nzn_A           87 LKEYEKALKYVRGLLQTEPQNNQAKEL  113 (126)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            888888888888888888877665543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=96.26  E-value=0.045  Score=53.90  Aligned_cols=48  Identities=15%  Similarity=0.141  Sum_probs=38.4

Q ss_pred             HHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchh
Q 048394          436 FRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDM  483 (485)
Q Consensus       436 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  483 (485)
                      ..-|...|+++-|.++.+++....|.+-.+|..|+.+|...|+|+.|+
T Consensus       344 a~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~AL  391 (754)
T 4gns_B          344 TNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKAL  391 (754)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHH
Confidence            345667788888888888888888888888888888888888888875

>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=96.26  E-value=0.095  Score=39.37  Aligned_cols=115  Identities=10%  Similarity=0.035  Sum_probs=77.8

Q ss_pred             CHHhHHHHHHHHHhcCcH------HHHHHHHHHHHhcccccCCch-hHHHHHHH------HHHhcccHHHHHHHHHHHHH
Q 048394          352 DMRLADVIIRAYLQKDMY------EEAALIFNNAKKRANASARFF-KSRESFMI------YYLRSRQLDLALNEMEAALS  418 (485)
Q Consensus       352 ~~~~~~~l~~~~~~~~~~------~~A~~~~~~~~~~~~~~~p~~-~~~~~l~~------~~~~~g~~~~A~~~~~~~~~  418 (485)
                      |..+|-..+....+.|+.      ++.+++|++.... +  +|+. ..|...+.      .+...++.++|.++|+.+++
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~--Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~   88 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-L--PPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARA   88 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-S--CGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-C--CccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            455555555555555555      6666777766654 2  3332 11211111      12345899999999999988


Q ss_pred             HhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHH
Q 048394          419 EAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYI  474 (485)
Q Consensus       419 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  474 (485)
                      ..+.  +   ..+|.....--.++|+...|.+++.+.+.++|.+.......+.-+.
T Consensus        89 ~hKk--F---AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~le~a~~nl~  139 (161)
T 4h7y_A           89 NCKK--F---AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEMLEIALRNLN  139 (161)
T ss_dssp             HCTT--B---HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHHHHHHHHHH
T ss_pred             HhHH--H---HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHHHHHHHhhh
Confidence            6321  3   7888888888899999999999999999999988887777665543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.74  E-value=0.11  Score=51.18  Aligned_cols=125  Identities=6%  Similarity=-0.016  Sum_probs=80.6

Q ss_pred             HHHHHHhCCC-cccHHHHHHHHHHcCCCccHHHH--HHHHHHHHhcC-CHhHHHHHHHHHHhc-----cCCCC-c-----
Q 048394          185 LSTMYLRLGQ-PEKVRPLVNQMKQRNISLDNLTY--IVWMQSYSHLN-DIDGVERVFYEMCNE-----CEDKC-R-----  249 (485)
Q Consensus       185 l~~~~~~~g~-~~~a~~~~~~~~~~~~~p~~~~~--~~l~~~~~~~~-~~~~a~~~~~~~~~~-----~~~~~-~-----  249 (485)
                      ++..+...++ .+.|..+|+++....  |...++  ..++....+.+ +--+|.+++.+..+.     ...++ +     
T Consensus       254 Ll~~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~  331 (754)
T 4gns_B          254 LKSFIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSAR  331 (754)
T ss_dssp             HHHHHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHH
T ss_pred             HHHHHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccccc
Confidence            4444444555 477899999988763  433332  22333333332 222345555444320     01111 1     


Q ss_pred             -----HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhh
Q 048394          250 -----WTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILK  311 (485)
Q Consensus       250 -----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  311 (485)
                           ......-+..+...|+++.|+.+.++.....|.+-.+|..|..+|...|+++.|+-.++.+.
T Consensus       332 ~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          332 LMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                 12334445667778999999999999999888899999999999999999999999888773

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.52  E-value=1.5  Score=40.58  Aligned_cols=247  Identities=9%  Similarity=0.075  Sum_probs=138.9

Q ss_pred             cCCHhHHHHHHHHHHhc----cCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHH----hcC
Q 048394          227 LNDIDGVERVFYEMCNE----CEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYC----NTS  298 (485)
Q Consensus       227 ~~~~~~a~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~  298 (485)
                      .|+++.|++.+-.+.+.    ....-.......++..|...++++...+.+..+.+...........+++.+.    ...
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~  108 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSK  108 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCC
Confidence            37788888877666642    2344456777788889999999998888777666533333344444444333    233


Q ss_pred             Chhh--HHHHHHHhhhc--CCCCh-----hhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCC-----HHhHHHHHHHHH
Q 048394          299 NLDA--VNRVWGILKST--FPPTN-----TSYLVLLQALAKLNAIDILKQCFEEWESRCSSYD-----MRLADVIIRAYL  364 (485)
Q Consensus       299 ~~~~--a~~~~~~~~~~--~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~  364 (485)
                      ..+.  -..+.+.....  +..-.     .....|...+...|++.+|.+++..+...-...+     ...+...++.|.
T Consensus       109 ~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l  188 (445)
T 4b4t_P          109 SLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSI  188 (445)
T ss_dssp             TTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence            3222  11222211111  11111     1234577778888899999888888754322222     345666777888


Q ss_pred             hcCcHHHHHHHHHHHHhcccccCCch----hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHH----HHH
Q 048394          365 QKDMYEEAALIFNNAKKRANASARFF----KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVD----TFF  436 (485)
Q Consensus       365 ~~~~~~~A~~~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~----~l~  436 (485)
                      ..+++..|..++.++...-....++.    ..+...+..+...+++.+|...|.++.....   ...|...+.    .++
T Consensus       189 ~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~---~~~d~~~~~~~L~~~v  265 (445)
T 4b4t_P          189 LKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDA---IKSDEAKWKPVLSHIV  265 (445)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHH---HHSCHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhccc---ccCCHHHHHHHHHHHH
Confidence            88888888888888754311102222    2345556667778888888888888877631   112222222    222


Q ss_pred             HHHhhcCChhhHHHHHHHHhhcCCC-CHHHHHHHHHHHHHh
Q 048394          437 RFFEEEKDVDGAEEFCKVLKSLNCL-DFSAYSLLIKTYIAA  476 (485)
Q Consensus       437 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~  476 (485)
                      .+..-.+....-..+.......... +...+..+..+|...
T Consensus       266 ~~~iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L~k~f~~~  306 (445)
T 4b4t_P          266 YFLVLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKLFTTN  306 (445)
T ss_dssp             HHHHHSSCSSTTHHHHHSHHHHSSCHHHHHHHHHHHHHHHC
T ss_pred             HHHHhCCCCchHHHHHHHHhhcccccccHHHHHHHHHHHhc
Confidence            3333333334444444433332222 345677777777653

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.31  E-value=0.32  Score=35.51  Aligned_cols=84  Identities=10%  Similarity=-0.088  Sum_probs=44.5

Q ss_pred             ccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhh---HHHHHHHhhhcCCC--ChhhHHHHHHHHHhcCChhHHH
Q 048394          264 ELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDA---VNRVWGILKSTFPP--TNTSYLVLLQALAKLNAIDILK  338 (485)
Q Consensus       264 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~  338 (485)
                      .....+.+.+......++++..+-..+..++.++.+...   ++.+++.+...+.+  .....-.+.-++.+.|+++.|.
T Consensus        15 ~~l~~~~~~y~~e~~~~~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~   94 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKAL   94 (126)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHH
Confidence            334444444444444344555666666666666555544   55566655554422  3333444555566666666666


Q ss_pred             HHHHHHHHc
Q 048394          339 QCFEEWESR  347 (485)
Q Consensus       339 ~~~~~~~~~  347 (485)
                      +.++.+.+.
T Consensus        95 ~~~~~lL~~  103 (126)
T 1nzn_A           95 KYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            666666554

>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=94.98  E-value=2  Score=38.80  Aligned_cols=166  Identities=9%  Similarity=0.027  Sum_probs=91.7

Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcH---HHHHHHHHHHHhc-ccHHHHHHHHHHHHhcCCCChHHH---
Q 048394          215 LTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRW---TTYSNLASIYVKA-ELFEKAELALKKLEEMKPRDRKAY---  287 (485)
Q Consensus       215 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~---  287 (485)
                      .....|...|.+.|+.++..+++.....--...+-.   .....+++.+... +..+.-.++.....+....+..+|   
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~   99 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQ   99 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455667888888888888888888776522222222   2334555655543 333444444444443111122233   


Q ss_pred             ---HHHHHHHHhcCChhhHHHHHHHhhhcCCC------ChhhHHHHHHHHHhcCChhHHHHHHHHHHHc--cCCCCHHhH
Q 048394          288 ---HFLISLYCNTSNLDAVNRVWGILKSTFPP------TNTSYLVLLQALAKLNAIDILKQCFEEWESR--CSSYDMRLA  356 (485)
Q Consensus       288 ---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~  356 (485)
                         ..++..|...|++.+|..++..+.+.-..      -...+..-+..|...+++..+...+......  .+.+++.+-
T Consensus       100 ~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~  179 (394)
T 3txn_A          100 SLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQ  179 (394)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHH
Confidence               15677777777777777777766654322      2234455566666777777777777766432  222333333


Q ss_pred             HHH----HHHHH-hcCcHHHHHHHHHHHH
Q 048394          357 DVI----IRAYL-QKDMYEEAALIFNNAK  380 (485)
Q Consensus       357 ~~l----~~~~~-~~~~~~~A~~~~~~~~  380 (485)
                      ..+    ...+. ..+++..|...|-+..
T Consensus       180 a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf  208 (394)
T 3txn_A          180 GALDLQSGILHAADERDFKTAFSYFYEAF  208 (394)
T ss_dssp             HHHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHhccCHHHHHHHHHHHH
Confidence            221    11234 5677777777766554

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=94.84  E-value=3.1  Score=40.28  Aligned_cols=115  Identities=10%  Similarity=-0.050  Sum_probs=63.1

Q ss_pred             ChhhHHHHHHHhhhcCCCChhhHH----HHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHH
Q 048394          299 NLDAVNRVWGILKSTFPPTNTSYL----VLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAAL  374 (485)
Q Consensus       299 ~~~~a~~~~~~~~~~~~~~~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  374 (485)
                      +.+.|...+.........+.....    .++..+...+...++...+.......  .+.....-.+..-.+.|+++.|..
T Consensus       229 d~~~A~~~~~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~~~r~Alr~~d~~~a~~  306 (618)
T 1qsa_A          229 DAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGLNT  306 (618)
T ss_dssp             CHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CHHHHHHHHHhhhhccCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccccC--CChHHHHHHHHHHHHCCCHHHHHH
Confidence            677888888777654333222222    22222333442445555555544332  233333334444456688888888


Q ss_pred             HHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHH
Q 048394          375 IFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALS  418 (485)
Q Consensus       375 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  418 (485)
                      .|..|.....  . ...-.--+..++...|+.++|..+|+.+..
T Consensus       307 ~~~~l~~~~~--~-~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          307 WLARLPMEAK--E-KDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHSCTTGG--G-SHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHcccccc--c-cHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            8877765321  1 122223455667778888888888888753

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=94.74  E-value=9.1e-05  Score=67.13  Aligned_cols=201  Identities=13%  Similarity=0.181  Sum_probs=115.5

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcC
Q 048394          253 YSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLN  332 (485)
Q Consensus       253 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  332 (485)
                      |..|..++...+.+.+|++.|     +...|+..|..++.+..+.|.+++-...+...++. ..++..=+.|+-+|++.+
T Consensus        57 Ws~LgkAqL~~~~v~eAIdsy-----IkA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~-~ke~~IDteLi~ayAk~~  130 (624)
T 3lvg_A           57 WSQLAKAQLQKGMVKEAIDSY-----IKADDPSSYMEVVQAANTSGNWEELVKYLQMARKK-ARESYVETELIFALAKTN  130 (624)
T ss_dssp             SSSHHHHTTTSSSCTTTTTSS-----CCCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT-CCSTTTTHHHHHHHHTSC
T ss_pred             HHHHHHHHHccCchHHHHHHH-----HhCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-hcccccHHHHHHHHHhhC
Confidence            334555555555555554443     33345555666666666666666665555544433 224444455666666666


Q ss_pred             ChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhccc------------------ccCCchhHHH
Q 048394          333 AIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRAN------------------ASARFFKSRE  394 (485)
Q Consensus       333 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~------------------~~~p~~~~~~  394 (485)
                      +..+.++++.       .||..-...+.+-|...|.++.|.-+|..+....-                  ....+..||.
T Consensus       131 rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWK  203 (624)
T 3lvg_A          131 RLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWK  203 (624)
T ss_dssp             SSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHH
T ss_pred             cHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHH
Confidence            6554333322       23444444455555555555555554443311000                  0034557788


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHH
Q 048394          395 SFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYI  474 (485)
Q Consensus       395 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  474 (485)
                      .+-.+|...+.+.-|.-+--.++-         ..+....++..|...|-+++-+.+++....+.......|+.|+-.|.
T Consensus       204 eV~~ACvd~~EfrLAqicGLniIv---------hadeL~elv~~YE~~G~f~ELIsLlEaglglErAHmGmFTELaILYs  274 (624)
T 3lvg_A          204 EVCFACVDGKEFRLAQMCGLHIVV---------HADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYS  274 (624)
T ss_dssp             HHTHHHHHSCTTTTTTHHHHHHHC---------CSSCCSGGGSSSSTTCCCTTSTTTHHHHTTSTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHhCchHHHHHHHhcchhcc---------cHHHHHHHHHHHHhCCCHHHHHHHHHHHhCCCchhHHHHHHHHHHHH
Confidence            888888888887776554444332         22233456777888888888888888888777778888888888887


Q ss_pred             H
Q 048394          475 A  475 (485)
Q Consensus       475 ~  475 (485)
                      +
T Consensus       275 K  275 (624)
T 3lvg_A          275 K  275 (624)
T ss_dssp             S
T ss_pred             h
Confidence            6

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=94.52  E-value=0.64  Score=35.71  Aligned_cols=111  Identities=12%  Similarity=0.015  Sum_probs=61.9

Q ss_pred             HHHHHhcCcHHHHHHHHHHHHhcc-cccCCch-------hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhc--------
Q 048394          360 IRAYLQKDMYEEAALIFNNAKKRA-NASARFF-------KSRESFMIYYLRSRQLDLALNEMEAALSEAKQF--------  423 (485)
Q Consensus       360 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~p~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--------  423 (485)
                      ++.+...|.++.|+-+.+.+.... .  .|+.       .++..+.+++...|++.+|...|++.++..+.-        
T Consensus        27 ik~L~d~~LY~sA~~La~lLlSl~~~--~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~  104 (167)
T 3ffl_A           27 VRDMAAAGLHSNVRLLSSLLLTLSNN--NPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRP  104 (167)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHH--STTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC--------
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHhhcC--CcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccc
Confidence            444555666666666655544321 1  2221       134455566666666766666666655443210        


Q ss_pred             ------------CCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHH
Q 048394          424 ------------HWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTY  473 (485)
Q Consensus       424 ------------~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  473 (485)
                                  ....+.+.-..+..+|.+.+++++|+.+++.+... ...+.+-..|++.|
T Consensus       105 ~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k-~Rt~kvnm~LakLy  165 (167)
T 3ffl_A          105 STGNSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSR-QRTPKINMLLANLY  165 (167)
T ss_dssp             ------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGG-GCCHHHHHHHHHHC
T ss_pred             cccccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCch-hcCHHHHHHHHHHh
Confidence                        01222344444668889999999999887765332 23566666666654

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.20  E-value=1.2  Score=32.83  Aligned_cols=137  Identities=7%  Similarity=0.081  Sum_probs=66.6

Q ss_pred             HHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHH
Q 048394           86 LRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALA  165 (485)
Q Consensus        86 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  165 (485)
                      +.-.|..++..++..+..+..   +..-||.+|.-....-+-+...++++.+.+. -|          ...+|+......
T Consensus        17 ~ildG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGki-FD----------is~C~NlKrVi~   82 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY-FD----------LDKCQNLKSVVE   82 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG-SC----------GGGCSCTHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhh-cC----------cHhhhcHHHHHH
Confidence            445677777777777765543   4455555555555555555555555555440 01          012233333333


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048394          166 LFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCN  242 (485)
Q Consensus       166 ~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  242 (485)
                      .+-.+-     .+.......+......|.-|+..+++..+... .+|++.....+..+|.+.|+..+|.+++.+.-+
T Consensus        83 C~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~  153 (172)
T 1wy6_A           83 CGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACK  153 (172)
T ss_dssp             HHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence            332221     12233444444555555555555555553322 244444555555555555555555555555544

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.06  E-value=5.8  Score=40.22  Aligned_cols=91  Identities=8%  Similarity=0.020  Sum_probs=41.4

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHH--HHHHHHHh
Q 048394          325 LQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRE--SFMIYYLR  402 (485)
Q Consensus       325 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~--~l~~~~~~  402 (485)
                      ...+...|+.+....++..+.+.. .-+..-...+.-++...|+.+.+..+++.+....   .|....-.  .+.-+|+.
T Consensus       497 Gli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~~---dp~vRygaa~alglAyaG  572 (963)
T 4ady_A          497 GLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGRQELADDLITKMLASD---ESLLRYGGAFTIALAYAG  572 (963)
T ss_dssp             HHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHCS---CHHHHHHHHHHHHHHTTT
T ss_pred             hhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhCC---CHHHHHHHHHHHHHHhcC
Confidence            333445566555566666555431 1111222222233345566666666666655431   22221111  22334555


Q ss_pred             cccHHHHHHHHHHHHHH
Q 048394          403 SRQLDLALNEMEAALSE  419 (485)
Q Consensus       403 ~g~~~~A~~~~~~~~~~  419 (485)
                      .|+.....+++..+.+.
T Consensus       573 TGn~~aIq~LL~~~~~d  589 (963)
T 4ady_A          573 TGNNSAVKRLLHVAVSD  589 (963)
T ss_dssp             SCCHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHhccC
Confidence            66655555566665543

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=93.81  E-value=4.3  Score=42.85  Aligned_cols=143  Identities=8%  Similarity=-0.014  Sum_probs=77.5

Q ss_pred             HHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCC-----------------
Q 048394          116 VYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGN-----------------  178 (485)
Q Consensus       116 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~-----------------  178 (485)
                      .++..+.+.+..+.+.++......   +...--.+..++...|++++|.+.|++... |+..+                 
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~~~---~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~~~  892 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWLNS---DPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAEKY  892 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHSCC---CHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHHTT
T ss_pred             HHHHHHHHhhhHHHHHHHhhhccC---CcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhcccccccccc
Confidence            345556667777777666555443   444434456677778888888888876521 11110                 


Q ss_pred             ------hhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCC--cc--HHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCC
Q 048394          179 ------TVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNIS--LD--NLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKC  248 (485)
Q Consensus       179 ------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  248 (485)
                            ..-|..++..+-+.+.++.+.++-....+....  ++  ...|..+.+.+...|++++|...+-.+..   ...
T Consensus       893 ~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd---~~~  969 (1139)
T 4fhn_B          893 HHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLST---TPL  969 (1139)
T ss_dssp             TSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHH---SSS
T ss_pred             cccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCC---HHH
Confidence                  112455556666666666666665555443211  11  11355566666666777666666655544   122


Q ss_pred             cHHHHHHHHHHHHhccc
Q 048394          249 RWTTYSNLASIYVKAEL  265 (485)
Q Consensus       249 ~~~~~~~l~~~~~~~~~  265 (485)
                      -...+..++...|..|.
T Consensus       970 r~~cLr~LV~~lce~~~  986 (1139)
T 4fhn_B          970 KKSCLLDFVNQLTKQGK  986 (1139)
T ss_dssp             CHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHHhCCC
Confidence            33444445555555444

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.81  E-value=4.1  Score=37.68  Aligned_cols=255  Identities=6%  Similarity=0.005  Sum_probs=154.2

Q ss_pred             CCCcccHHHHHHHHHHc-----CCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHh----
Q 048394          192 LGQPEKVRPLVNQMKQR-----NISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVK----  262 (485)
Q Consensus       192 ~g~~~~a~~~~~~~~~~-----~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----  262 (485)
                      .|+++.|++.+-.+.+.     +..........++..|...|+++...+.+..+.+..+..+..  ...++..+..    
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~a--i~~~V~~~~~~l~~  106 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLS--IQYMIQKVMEYLKS  106 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHH--HHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHH--HHHHHHHHHHHHhc
Confidence            36788898888777643     234456778889999999999999999888887744444333  3345544432    


Q ss_pred             cccHH--HHHHHHHHHHhcCC--C-----ChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC------ChhhHHHHHHH
Q 048394          263 AELFE--KAELALKKLEEMKP--R-----DRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP------TNTSYLVLLQA  327 (485)
Q Consensus       263 ~~~~~--~A~~~~~~~~~~~~--~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~l~~~  327 (485)
                      ....+  .-..+.+.+.....  -     .......|...+...|++.+|..++..+......      -...+...+..
T Consensus       107 ~~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl  186 (445)
T 4b4t_P          107 SKSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMEL  186 (445)
T ss_dssp             HCTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHH
T ss_pred             CCchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            22222  22222222222111  1     1233467889999999999999999998754322      23567778888


Q ss_pred             HHhcCChhHHHHHHHHHHHc----cCCCC--HHhHHHHHHHHHhcCcHHHHHHHHHHHHhc-ccccCCchhHHHHHHH--
Q 048394          328 LAKLNAIDILKQCFEEWESR----CSSYD--MRLADVIIRAYLQKDMYEEAALIFNNAKKR-ANASARFFKSRESFMI--  398 (485)
Q Consensus       328 ~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~p~~~~~~~l~~--  398 (485)
                      |...+++..|..++..+...    ...|+  ...+...+..+...+++.+|.+.|.++.+. ..  ..+...+...+.  
T Consensus       187 ~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~--~~d~~~~~~~L~~~  264 (445)
T 4b4t_P          187 SILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAI--KSDEAKWKPVLSHI  264 (445)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHH--HSCHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccc--cCCHHHHHHHHHHH
Confidence            99999999999999987532    12222  235667778888899999999998887654 22  223332322211  


Q ss_pred             --HHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhc--CChhhHHHHHHH
Q 048394          399 --YYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEE--KDVDGAEEFCKV  454 (485)
Q Consensus       399 --~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~A~~~~~~  454 (485)
                        ...-.+....--.++.......    .-++...+..++.+|...  .+++...+.|+.
T Consensus       265 v~~~iLa~~~~~~~~ll~~~~~~~----~~~~l~~~~~L~k~f~~~~L~~~~~~~~~~~~  320 (445)
T 4b4t_P          265 VYFLVLSPYGNLQNDLIHKIQNDN----NLKKLESQESLVKLFTTNELMRWPIVQKTYEP  320 (445)
T ss_dssp             HHHHHHSSCSSTTHHHHHSHHHHS----SCHHHHHHHHHHHHHHHCCSSSHHHHHHHTCS
T ss_pred             HHHHHhCCCCchHHHHHHHHhhcc----cccccHHHHHHHHHHHhchHhhhHHHHHHHHH
Confidence              1122222222333444443332    335667777777777543  344554444443

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=93.69  E-value=1.5  Score=32.21  Aligned_cols=77  Identities=10%  Similarity=-0.021  Sum_probs=53.5

Q ss_pred             CCchhHHHHHHHHHHhcc---cHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCH
Q 048394          387 ARFFKSRESFMIYYLRSR---QLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDF  463 (485)
Q Consensus       387 ~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~  463 (485)
                      .|+..+--.+..++++..   +..+++.+++++...+    ..-....+-.+.-++.+.|+++.|.++.+.+++..|.|.
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~----~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~  112 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA----ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNK  112 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC----GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCH
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC----cchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCH
Confidence            566665555556666544   4557888888888764    111344555566788889999999999999999888886


Q ss_pred             HHHH
Q 048394          464 SAYS  467 (485)
Q Consensus       464 ~~~~  467 (485)
                      .+-.
T Consensus       113 QA~~  116 (134)
T 3o48_A          113 QVGA  116 (134)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6543

>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=93.23  E-value=0.73  Score=31.76  Aligned_cols=63  Identities=16%  Similarity=0.117  Sum_probs=48.3

Q ss_pred             cHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHH
Q 048394          405 QLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIK  471 (485)
Q Consensus       405 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  471 (485)
                      +.-+..+-++.+....    ..|++.+..+.+++|.+.+|+..|.++++-+.........+|..+++
T Consensus        25 D~~e~rrglN~l~~~D----lVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYD----LVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSS----BCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccc----cCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCchhhHHHHHH
Confidence            4445566666666655    88999999999999999999999999999988766554555655554

>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=93.21  E-value=1.6  Score=39.68  Aligned_cols=55  Identities=11%  Similarity=-0.034  Sum_probs=26.5

Q ss_pred             HHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 048394          290 LISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEW  344 (485)
Q Consensus       290 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  344 (485)
                      ++..+...|+++++...+..+....|-+...+..++.++.+.|+..+|++.|+..
T Consensus       177 ~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~  231 (388)
T 2ff4_A          177 KAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRV  231 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3344444455555554444444444444444555555555555555555444443

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=93.08  E-value=0.99  Score=33.63  Aligned_cols=88  Identities=13%  Similarity=-0.002  Sum_probs=61.4

Q ss_pred             CCcHHHHHHHHHHh-CCCCCHHHHHHHHHHHHHcCChH---HHHHHHHHHHhCCCCCChhhHH-HHHHHHHhhCCHHHHH
Q 048394           57 GGSVTGALNAYIME-GKTVRKDMLEYCVRSLRKFGRYR---HALEVIEWMESRKMHFSYTDFA-VYLDLTAKTNGIAAAE  131 (485)
Q Consensus        57 ~~~~~~~~~~~~~~-g~~~~~~~~~~l~~~~~~~~~~~---~A~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~a~  131 (485)
                      +..+..+-+.+.++ +..|+..+-.....++.+..+.+   +++.+++.+.+.+. .+...+. .+.-++.+.|+++.|+
T Consensus        19 ~eeL~~lr~qY~~E~~~~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~-~~~RdcLYyLAvg~ykl~~Y~~Ar   97 (144)
T 1y8m_A           19 PQQLEILRQQVVSEGGPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAE-SRRRECLYYLTIGCYKLGEYSMAK   97 (144)
T ss_dssp             HHHHHHHHHHHHHTTSTTSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCC-STHHHHHHHHHHHHHTTTCHHHHH
T ss_pred             HHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCc-cchhHHHHHHHHHHHHhhhHHHHH
Confidence            34444455566555 55788899999999999887655   57888888877542 2333333 3445778899999999


Q ss_pred             HHHHhhcccCCCHh
Q 048394          132 KYFNGLSEYAKNRY  145 (485)
Q Consensus       132 ~~~~~~~~~~~~~~  145 (485)
                      ++.+.+.+..|+..
T Consensus        98 ~y~d~lL~~eP~n~  111 (144)
T 1y8m_A           98 RYVDTLFEHERNNK  111 (144)
T ss_dssp             HHHHHHHHTCCCCH
T ss_pred             HHHHHHHhcCCCcH
Confidence            99998888666543

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=93.02  E-value=4.3  Score=35.50  Aligned_cols=84  Identities=10%  Similarity=0.038  Sum_probs=47.5

Q ss_pred             CCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHH
Q 048394          246 DKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLL  325 (485)
Q Consensus       246 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  325 (485)
                      ..-++.....+...|.+.+++.+|+..|-.   ...+++..+..++..+...+...++--++.              -.+
T Consensus       132 ~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~il---g~~~s~~~~a~mL~ew~~~~~~~e~dlfia--------------RaV  194 (336)
T 3lpz_A          132 PAGDPELHHVVGTLYVEEGEFEAAEKHLVL---GTKESPEVLARMEYEWYKQDESHTAPLYCA--------------RAV  194 (336)
T ss_dssp             TTCCHHHHHHHHHHHHHTTCHHHHHHHHTT---SCTTHHHHHHHHHHHHHHTSCGGGHHHHHH--------------HHH
T ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHh---cCCchHHHHHHHHHHHHHhcCCccHHHHHH--------------HHH
Confidence            344566667788888888888888877621   222233566555544444433322222221              223


Q ss_pred             HHHHhcCChhHHHHHHHHHHH
Q 048394          326 QALAKLNAIDILKQCFEEWES  346 (485)
Q Consensus       326 ~~~~~~~~~~~a~~~~~~~~~  346 (485)
                      --|...+++..|..+++...+
T Consensus       195 L~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          195 LPYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHH
Confidence            345566788888777665543

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=92.94  E-value=4.4  Score=35.43  Aligned_cols=138  Identities=8%  Similarity=-0.006  Sum_probs=86.5

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHH----HHHHHhcccccCCchhHHHH
Q 048394          320 SYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALI----FNNAKKRANASARFFKSRES  395 (485)
Q Consensus       320 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~----~~~~~~~~~~~~p~~~~~~~  395 (485)
                      .|.++..-|.+.+++++|.+++..-..               .+.+.|+...|.++    ++-..+.++  .++......
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL~~GA~---------------~ll~~~Q~~sg~DL~~llvevy~~~~~--~~~~~~~~r   99 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDILASVSQ---------------TLLRSGQGGSGGDLAVLLVDTFRQAGQ--RVDGASRGK   99 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH---------------HHHHTTCHHHHHHHHHHHHHHHHHHTC--CCCHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHH---------------HHHHCCCcchHHHHHHHHHHHHHHcCC--CCCHHHHHH
Confidence            344567778888999988887654322               24455666555544    355556677  888888888


Q ss_pred             HHHHHHhcccHH-HHHHHHHHHHHHhhhcC--CCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCC-HHHHHHHHH
Q 048394          396 FMIYYLRSRQLD-LALNEMEAALSEAKQFH--WRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLD-FSAYSLLIK  471 (485)
Q Consensus       396 l~~~~~~~g~~~-~A~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~l~~  471 (485)
                      ++..+.....-+ .=..+++++++-....+  ..-|+.....+...|.+.+++.+|+..|=    .+..+ +..+..++.
T Consensus       100 L~~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~i----lg~~~s~~~~a~mL~  175 (336)
T 3lpz_A          100 LLGCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLV----LGTKESPEVLARMEY  175 (336)
T ss_dssp             HHHHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHT----TSCTTHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH----hcCCchHHHHHHHHH
Confidence            888887777422 22445555554332211  23467777788889999999999988872    23333 356655555


Q ss_pred             HHHHhCC
Q 048394          472 TYIAAGK  478 (485)
Q Consensus       472 ~~~~~g~  478 (485)
                      -+...+.
T Consensus       176 ew~~~~~  182 (336)
T 3lpz_A          176 EWYKQDE  182 (336)
T ss_dssp             HHHHTSC
T ss_pred             HHHHhcC
Confidence            5544443

>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=92.78  E-value=0.82  Score=33.57  Aligned_cols=87  Identities=14%  Similarity=0.008  Sum_probs=60.5

Q ss_pred             cHHHHHHHHHHh-CCCCCHHHHHHHHHHHHHcCCh---HHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHH
Q 048394           59 SVTGALNAYIME-GKTVRKDMLEYCVRSLRKFGRY---RHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYF  134 (485)
Q Consensus        59 ~~~~~~~~~~~~-g~~~~~~~~~~l~~~~~~~~~~---~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  134 (485)
                      ....+-+.+.++ +-.|+..+-.....++.+..+.   ..++.+++.+.+.+..-....+-.+.-++.+.|+++.|.++.
T Consensus        22 eL~~l~~qy~~E~~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~  101 (134)
T 3o48_A           22 QLEILRQQVVSEGGPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYV  101 (134)
T ss_dssp             HHHHHHHHHHHTTGGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            334444555555 6668888888899899888765   457888888877652112233334455788999999999999


Q ss_pred             HhhcccCCCHh
Q 048394          135 NGLSEYAKNRY  145 (485)
Q Consensus       135 ~~~~~~~~~~~  145 (485)
                      +.+.+..|+..
T Consensus       102 d~lL~~eP~N~  112 (134)
T 3o48_A          102 DTLFEHERNNK  112 (134)
T ss_dssp             HHHHTTCTTCH
T ss_pred             HHHHhhCCCCH
Confidence            99988666543

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=92.64  E-value=11  Score=39.94  Aligned_cols=142  Identities=8%  Similarity=-0.065  Sum_probs=82.7

Q ss_pred             HHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-C-----------------
Q 048394          220 WMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMK-P-----------------  281 (485)
Q Consensus       220 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~-----------------  281 (485)
                      ++..+...+..+.+.++..-..      .+...--.++.+|...|++++|.+.|.+..... .                 
T Consensus       818 l~~~l~~~~~~~~~~~l~~~~~------~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGWLN------SDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHHSC------CCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHHhhhHHHHHHHhhhcc------CCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhccccccccc
Confidence            4455556666666555443222      223333456777888888888888887754311 0                 


Q ss_pred             -----CChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC-Ch----hhHHHHHHHHHhcCChhHHHHHHHHHHHccCCC
Q 048394          282 -----RDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-TN----TSYLVLLQALAKLNAIDILKQCFEEWESRCSSY  351 (485)
Q Consensus       282 -----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  351 (485)
                           .-..-|..++..+.+.+.++.+.++-....+...+ +.    ..|..+.+.+...|++++|...+-.+.....  
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--  969 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--  969 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--
Confidence                 01233566677777777777777776665554333 22    2466677777777888887777766654432  


Q ss_pred             CHHhHHHHHHHHHhcCcH
Q 048394          352 DMRLADVIIRAYLQKDMY  369 (485)
Q Consensus       352 ~~~~~~~l~~~~~~~~~~  369 (485)
                      -......|+..++..|..
T Consensus       970 r~~cLr~LV~~lce~~~~  987 (1139)
T 4fhn_B          970 KKSCLLDFVNQLTKQGKI  987 (1139)
T ss_dssp             CHHHHHHHHHHHHHHCCH
T ss_pred             HHHHHHHHHHHHHhCCCh
Confidence            234455555555554443

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=92.41  E-value=5  Score=34.79  Aligned_cols=138  Identities=8%  Similarity=-0.043  Sum_probs=84.7

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHH----HHHHHhcccccCCchhHH
Q 048394          318 NTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALI----FNNAKKRANASARFFKSR  393 (485)
Q Consensus       318 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~----~~~~~~~~~~~~p~~~~~  393 (485)
                      ...|.++..-|.+.+++++|.+++..-..               .+.+.|+...|-++    ++-..+.++  .++....
T Consensus        33 hQ~~Rtl~~Ry~~~~~~~eAidlL~~ga~---------------~ll~~~Q~~sa~DLa~llvev~~~~~~--~~~~~~~   95 (312)
T 2wpv_A           33 HQTLRTIANRYVRSKSYEHAIELISQGAL---------------SFLKAKQGGSGTDLIFYLLEVYDLAEV--KVDDISV   95 (312)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH---------------HHHHTTCHHHHHHHHHHHHHHHHHTTC--CCSHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHH---------------HHHHCCCcchHHHHHHHHHHHHHHcCC--CCCHHHH
Confidence            34455667778888888888877664322               24455666555554    444555677  7888888


Q ss_pred             HHHHHHHHhcccHH-HHHHHHHHHHHHhhhcC--CCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCC-CCHHHHHHH
Q 048394          394 ESFMIYYLRSRQLD-LALNEMEAALSEAKQFH--WRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNC-LDFSAYSLL  469 (485)
Q Consensus       394 ~~l~~~~~~~g~~~-~A~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l  469 (485)
                      ..++..+.....-+ .=.++++++++-....+  ..-++.....+...|.+.|++.+|+..|-    .+. .++..+..+
T Consensus        96 ~rl~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i----~~~~~s~~~~a~~  171 (312)
T 2wpv_A           96 ARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFM----LGTHDSMIKYVDL  171 (312)
T ss_dssp             HHHHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHH----TSCHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHH----hCCCccHHHHHHH
Confidence            88887776655322 23456666665332211  22467778888888999999998887763    122 245555555


Q ss_pred             HHHHHHh
Q 048394          470 IKTYIAA  476 (485)
Q Consensus       470 ~~~~~~~  476 (485)
                      ..-+...
T Consensus       172 l~~w~~~  178 (312)
T 2wpv_A          172 LWDWLCQ  178 (312)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            5555444

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=92.39  E-value=5.1  Score=34.77  Aligned_cols=73  Identities=12%  Similarity=0.130  Sum_probs=36.5

Q ss_pred             HHHHHHcCCCccHHHHHHHHHHHHhcCCHh-HHHHHHHHHHhc---c-C-CCCcHHHHHHHHHHHHhcccHHHHHHHHH
Q 048394          202 VNQMKQRNISLDNLTYIVWMQSYSHLNDID-GVERVFYEMCNE---C-E-DKCRWTTYSNLASIYVKAELFEKAELALK  274 (485)
Q Consensus       202 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~~~---~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  274 (485)
                      ++...+.+++++......++..+.....-+ .=.++++.+.+.   . + ..-++.....+...|.+.+++.+|+..|-
T Consensus        80 vev~~~~~~~~~~~~~~rl~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i  158 (312)
T 2wpv_A           80 LEVYDLAEVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFM  158 (312)
T ss_dssp             HHHHHHTTCCCSHHHHHHHHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHH
Confidence            344444555566555555555444322111 112223333221   1 1 22356666677777777777777777663

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=92.32  E-value=1.1  Score=34.47  Aligned_cols=58  Identities=5%  Similarity=-0.038  Sum_probs=33.8

Q ss_pred             HHHHHhcCCHhHHHHHHHHHHhccCCCCc-------HHHHHHHHHHHHhcccHHHHHHHHHHHHh
Q 048394          221 MQSYSHLNDIDGVERVFYEMCNECEDKCR-------WTTYSNLASIYVKAELFEKAELALKKLEE  278 (485)
Q Consensus       221 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  278 (485)
                      ++.+...|.++.|+-+.+.+....+..++       ..++..+++++...+++..|...|++..+
T Consensus        27 ik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq   91 (167)
T 3ffl_A           27 VRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQ   91 (167)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            44555666666666666554442222333       12345566777777777777777777654

>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=92.18  E-value=0.54  Score=32.40  Aligned_cols=46  Identities=13%  Similarity=0.165  Sum_probs=32.1

Q ss_pred             cHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048394          197 KVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCN  242 (485)
Q Consensus       197 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  242 (485)
                      ++.+-++.+-...+.|++.+..+.+++|.+.+++..|.++|+.+..
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~   73 (109)
T 1v54_E           28 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   73 (109)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4455555666666777777777777777777777777777777766

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=90.95  E-value=3.8  Score=34.39  Aligned_cols=54  Identities=13%  Similarity=0.019  Sum_probs=34.5

Q ss_pred             HHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhc
Q 048394          328 LAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKR  382 (485)
Q Consensus       328 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  382 (485)
                      ..+.|+++++++....-++..+. |...-..+++.+|-.|+++.|..-++...+.
T Consensus         7 ll~~g~L~~al~~~~~~VR~~P~-da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l   60 (273)
T 1zbp_A            7 ALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKL   60 (273)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            44566666666666666665554 6666666666667677777776666666554

>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=90.70  E-value=1.8  Score=31.74  Aligned_cols=61  Identities=16%  Similarity=0.122  Sum_probs=46.7

Q ss_pred             HHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHH
Q 048394          407 DLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIK  471 (485)
Q Consensus       407 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  471 (485)
                      -+..+-++.+....    ..|++.+....+++|.+.+|+..|.++++-++....+...+|..+++
T Consensus        70 wElrrglN~l~~~D----lVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~~~~~iY~y~lq  130 (152)
T 2y69_E           70 WELRKGMNTLVGYD----LVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHHTTSS----BCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHhccc----cCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCCchhhHHHHHH
Confidence            34455556665554    88999999999999999999999999999998866554555665554

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=89.81  E-value=4.9  Score=29.94  Aligned_cols=77  Identities=10%  Similarity=-0.021  Sum_probs=49.6

Q ss_pred             CCchhHHHHHHHHHHhcc---cHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCH
Q 048394          387 ARFFKSRESFMIYYLRSR---QLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDF  463 (485)
Q Consensus       387 ~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~  463 (485)
                      .|+..+--.+..++++..   +..+++.+++.+...+    ..-.....-.+.-++.+.|++++|.++.+.+++..|.|.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~----~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~  111 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA----ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNK  111 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHC----CSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC----ccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcH
Confidence            455555445555666544   4556778888877753    111333444455678888888888888888888888876


Q ss_pred             HHHH
Q 048394          464 SAYS  467 (485)
Q Consensus       464 ~~~~  467 (485)
                      .+..
T Consensus       112 QA~~  115 (144)
T 1y8m_A          112 QVGA  115 (144)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5543

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=89.52  E-value=3.8  Score=28.19  Aligned_cols=79  Identities=11%  Similarity=0.051  Sum_probs=58.7

Q ss_pred             HcCChHHHHHHHHHHHhCCCCCChhhHHHHH--HHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHH
Q 048394           88 KFGRYRHALEVIEWMESRKMHFSYTDFAVYL--DLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALA  165 (485)
Q Consensus        88 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  165 (485)
                      -....++|..+-+++...+.    .....+|  ..+...|++++|..+.+...  .||...|-+|..  .+.|--+++..
T Consensus        19 G~H~HqEA~tIAdwL~~~~~----~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c--~pdlepw~ALce--~rlGl~s~le~   90 (116)
T 2p58_C           19 GNHYHEEANCIAEWLHLKGE----EEAVQLIRLSSLMNRGDYASALQQGNKLA--YPDLEPWLALCE--YRLGLGSALES   90 (116)
T ss_dssp             TTTCHHHHHHHHHHHHHTTC----HHHHHHHHHHHHHHTTCHHHHHHHHTTSC--CGGGHHHHHHHH--HHHTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHhCCc----HHHHHHHHHHHHHcchhHHHHHHhcCCCC--CchHHHHHHHHH--HhcccHHHHHH
Confidence            34578889888888887763    2223333  45678899999999988887  488888887765  47788888888


Q ss_pred             HHHHHHhCC
Q 048394          166 LFEKMDELK  174 (485)
Q Consensus       166 ~~~~m~~~~  174 (485)
                      .+.++...|
T Consensus        91 rL~~la~sg   99 (116)
T 2p58_C           91 RLNRLARSQ   99 (116)
T ss_dssp             HHHHHTTCC
T ss_pred             HHHHHHhCC
Confidence            887877766

>3eiq_C Programmed cell death protein 4; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Mus musculus}

Probab=89.07  E-value=12  Score=33.25  Aligned_cols=63  Identities=13%  Similarity=0.133  Sum_probs=40.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcC--cHHHHHHHHHHHHhccc
Q 048394          321 YLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKD--MYEEAALIFNNAKKRAN  384 (485)
Q Consensus       321 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~A~~~~~~~~~~~~  384 (485)
                      ...++.-|...++.++|.+.++++...... ...+...+..++-+.+  ..+....++..+...|+
T Consensus       220 i~~lL~EY~~s~D~~EA~~ci~EL~~p~fh-he~V~~av~~aLE~~~~~~re~~~~LL~~L~~~gl  284 (358)
T 3eiq_C          220 IDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSST  284 (358)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHCCTTCH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhccCCCHHHHHHHHHHccCCcch-HHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCC
Confidence            356788888888888888888887543222 2344455555555543  34567777777777766

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=89.06  E-value=3.6  Score=28.22  Aligned_cols=79  Identities=14%  Similarity=0.037  Sum_probs=57.5

Q ss_pred             HcCChHHHHHHHHHHHhCCCCCChhhHHHHH--HHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHH
Q 048394           88 KFGRYRHALEVIEWMESRKMHFSYTDFAVYL--DLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALA  165 (485)
Q Consensus        88 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  165 (485)
                      -....++|..+-+++...+.    .....+|  ..+...|++++|..+.+...  .||...|-+|..  .+.|--+++..
T Consensus        18 G~H~HqEA~tIAdwL~~~~~----~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c--~pdlepw~ALce--~rlGl~s~le~   89 (115)
T 2uwj_G           18 GQHCHEEALCIAEWLERLGQ----DEAARLIRISSLANQGRYQEALAFAHGNP--WPALEPWFALCE--WHLGLGAALDR   89 (115)
T ss_dssp             TTTCHHHHHHHHHHHHHTTC----HHHHHHHHHHHHHHTTCHHHHHGGGTTCC--CGGGHHHHHHHH--HHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHhCCc----HHHHHHHHHHHHHcchhHHHHHHhcCCCC--CchHHHHHHHHH--HhcccHHHHHH
Confidence            34567888888888877752    2223333  45677889999988888777  488888877764  47788888888


Q ss_pred             HHHHHHhCC
Q 048394          166 LFEKMDELK  174 (485)
Q Consensus       166 ~~~~m~~~~  174 (485)
                      .+.++...|
T Consensus        90 rL~~la~sg   98 (115)
T 2uwj_G           90 RLAGLGGSS   98 (115)
T ss_dssp             HHHHHHTCS
T ss_pred             HHHHHHhCC
Confidence            887877765

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=87.56  E-value=2.3  Score=38.57  Aligned_cols=56  Identities=14%  Similarity=0.092  Sum_probs=36.6

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhh
Q 048394          256 LASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILK  311 (485)
Q Consensus       256 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  311 (485)
                      ++..+...|++++|...+..+....|.+...|..++.++...|+..+|++.|+...
T Consensus       177 ~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r  232 (388)
T 2ff4_A          177 KAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVK  232 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45555566666666666666666666666666667777777777766666666543

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=87.23  E-value=2.8  Score=35.21  Aligned_cols=57  Identities=12%  Similarity=0.094  Sum_probs=38.1

Q ss_pred             HHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCC
Q 048394          223 SYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKP  281 (485)
Q Consensus       223 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  281 (485)
                      ...+.|++++++.....-++  ..|.|...-..++..+|-.|+++.|..-++...+..|
T Consensus         6 ~ll~~g~L~~al~~~~~~VR--~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p   62 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIK--ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFP   62 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHH--TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCG
T ss_pred             HHHhCCCHHHHHHHHHHHHH--hCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCc
Confidence            34566777777776666666  5666666666677777777777777777776666555

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=86.10  E-value=20  Score=32.82  Aligned_cols=100  Identities=13%  Similarity=0.076  Sum_probs=57.5

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHccCCC--CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHH
Q 048394          319 TSYLVLLQALAKLNAIDILKQCFEEWESRCSSY--DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESF  396 (485)
Q Consensus       319 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l  396 (485)
                      .+...+...|.+.|+++.|.+.+.++......+  -...+-.+++.+...+++..+...+.++...-.. .++....+.+
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~-~~d~~~~~~l  210 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEK-GGDWERRNRY  210 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTT-CCCTHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhc-CCCHHHHHHH
Confidence            355667777777777777777777776543322  2455666677777777777777777766543110 1222111111


Q ss_pred             ----HHHHHhcccHHHHHHHHHHHHHH
Q 048394          397 ----MIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       397 ----~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                          ...+...+++..|...|-+....
T Consensus       211 k~~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          211 KTYYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhChHHHHHHHHHHHhcc
Confidence                11123567777777777766554

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=85.73  E-value=18  Score=33.21  Aligned_cols=99  Identities=13%  Similarity=0.108  Sum_probs=67.9

Q ss_pred             hhHHHHHHHHHhCCCcccHHHHHHHHHHcC--CCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHH--
Q 048394          180 VAFNNLSTMYLRLGQPEKVRPLVNQMKQRN--ISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSN--  255 (485)
Q Consensus       180 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~--  255 (485)
                      .++..+...|.+.|++++|.+.|.++....  ..--...+-.+++.+...+++..+...+..+.......+++...+.  
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            367788899999999999999999988752  2333556777888888999999999888887652222333332211  


Q ss_pred             --HHHHHHhcccHHHHHHHHHHHHh
Q 048394          256 --LASIYVKAELFEKAELALKKLEE  278 (485)
Q Consensus       256 --l~~~~~~~~~~~~A~~~~~~~~~  278 (485)
                        -+..+...+++..|...|-....
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              12223356788888877776655

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=85.57  E-value=9.5  Score=30.40  Aligned_cols=86  Identities=10%  Similarity=0.051  Sum_probs=57.0

Q ss_pred             HHHHHHHhhcccCCCHhH---HHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHhCCCcccHHHHHHH
Q 048394          129 AAEKYFNGLSEYAKNRYT---YGALLNCYCKELMTERALALFEKMDELKFLGN-TVAFNNLSTMYLRLGQPEKVRPLVNQ  204 (485)
Q Consensus       129 ~a~~~~~~~~~~~~~~~~---~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~  204 (485)
                      .+.+.|.......-|..-   |-..+..+ ..+...++.++|..|...|+--. ..-|......+...|++.+|.++|+.
T Consensus        62 rc~~~F~~~~rYkND~RYLklWl~Ya~~~-~~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~  140 (202)
T 3esl_A           62 RCLIYIQDMETYRNDPRFLKIWIWYINLF-LSNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLEL  140 (202)
T ss_dssp             HHHHHHTTCGGGTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHhcccccccCCHHHHHHHHHHHHhh-cccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            334444444445556553   33333332 24557788999999988776533 34467777788888999999999999


Q ss_pred             HHHcCCCccHH
Q 048394          205 MKQRNISLDNL  215 (485)
Q Consensus       205 ~~~~~~~p~~~  215 (485)
                      -++.+-.|-..
T Consensus       141 GI~~~A~P~~r  151 (202)
T 3esl_A          141 GAENNCRPYNR  151 (202)
T ss_dssp             HHHTTCBSHHH
T ss_pred             HHHcCCccHHH
Confidence            88887777543

>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=84.18  E-value=10  Score=27.80  Aligned_cols=59  Identities=12%  Similarity=-0.059  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHH
Q 048394          371 EAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFF  436 (485)
Q Consensus       371 ~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~  436 (485)
                      +..+-++.+...++  .|++......+.+|.+.+++.-|+++++-...+     ..+...+|..++
T Consensus        71 ElrrglN~l~~~Dl--VPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-----~~~~~~iY~y~l  129 (152)
T 2y69_E           71 ELRKGMNTLVGYDL--VPEPKIIDAALRACRRLNDFASAVRILEVVKDK-----AGPHKEIYPYVI  129 (152)
T ss_dssp             HHHHHHHHHTTSSB--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----TTTCTTHHHHHH
T ss_pred             HHHHHHHHHhcccc--CCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-----cCCchhhHHHHH
Confidence            44444555555555  666666666666666666666666666666665     334444455444

>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=83.00  E-value=26  Score=31.55  Aligned_cols=167  Identities=12%  Similarity=0.037  Sum_probs=108.9

Q ss_pred             hhHHHHHHHHHhCCCcccHHHHHHHHHHc-CCCcc---HHHHHHHHHHHHhc-CCHhHHHHHHHHHHhccCCCCcHH---
Q 048394          180 VAFNNLSTMYLRLGQPEKVRPLVNQMKQR-NISLD---NLTYIVWMQSYSHL-NDIDGVERVFYEMCNECEDKCRWT---  251 (485)
Q Consensus       180 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~p~---~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~---  251 (485)
                      .+...|...|.+.|+.++..+++.....- +.-|-   ......++..+... +..+.-.++..+..+.....--+.   
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~   99 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQ   99 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45677889999999999999988877543 12222   33355677777664 445555556555555222221111   


Q ss_pred             -HHHHHHHHHHhcccHHHHHHHHHHHHh-cCC-CC----hHHHHHHHHHHHhcCChhhHHHHHHHhhhc---CCCChhh-
Q 048394          252 -TYSNLASIYVKAELFEKAELALKKLEE-MKP-RD----RKAYHFLISLYCNTSNLDAVNRVWGILKST---FPPTNTS-  320 (485)
Q Consensus       252 -~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~-  320 (485)
                       .=..++..|...|++.+|..++..+.+ ... .+    ...+..-+..|...+++.++...+......   .++++.. 
T Consensus       100 ~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~  179 (394)
T 3txn_A          100 SLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQ  179 (394)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHH
Confidence             234689999999999999999999888 222 12    344666777888999999999999877542   2122222 


Q ss_pred             ---HHHHHHHHH-hcCChhHHHHHHHHHHH
Q 048394          321 ---YLVLLQALA-KLNAIDILKQCFEEWES  346 (485)
Q Consensus       321 ---~~~l~~~~~-~~~~~~~a~~~~~~~~~  346 (485)
                         ...-...+. ..+++..|...|-+..+
T Consensus       180 a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf~  209 (394)
T 3txn_A          180 GALDLQSGILHAADERDFKTAFSYFYEAFE  209 (394)
T ss_dssp             HHHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHhccCHHHHHHHHHHHHh
Confidence               222333455 78999999888877643

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=80.97  E-value=6  Score=31.54  Aligned_cols=52  Identities=8%  Similarity=-0.100  Sum_probs=31.0

Q ss_pred             hhhHHHHHHHhhhcCCC--ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCC
Q 048394          300 LDAVNRVWGILKSTFPP--TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSY  351 (485)
Q Consensus       300 ~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  351 (485)
                      ...+..+|..|...++.  -...|......+...|++.+|.++|+.-.+.+-.|
T Consensus        95 ~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P  148 (202)
T 3esl_A           95 FHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRP  148 (202)
T ss_dssp             HHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             cCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            44666666666665555  44555556666666666666666666666555444

---

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	485
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	3e-07
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	3e-06
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	3e-06
d1zbpa1	264	e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {V	3e-04
d1zbpa1	264	e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {V	0.002
d1hh8a_	192	a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-	4e-04
d1qqea_	290	a.118.8.1 (A:) Vesicular transport protein sec17 {	5e-04
d1fcha_	323	a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting	0.001

>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 = 50.1 bits (118), Expect = 3e-07
 Identities = 28/206 (13%), Positives = 65/206 (31%), Gaps = 12/206 (5%)

Query: 178 NTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVF 237
             VA++NL  ++   G+         +    + +  +  YI            D     +
Sbjct: 168 FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLD-AYINLGNVLKEARIFDRAVAAY 226

Query: 238 YEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNT 297
               +          + NLA +Y +  L + A    ++  E++P    AY  L +     
Sbjct: 227 LRALSL--SPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEK 284

Query: 298 SNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLN----AIDILKQCFEEWESRCSSYDM 353
            ++      +       P    S   L     +      A+ + ++  E +    +++  
Sbjct: 285 GSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSN 344

Query: 354 RLADVIIRAYLQKDMYEEAALIFNNA 379
                +     Q+   +EA + +  A
Sbjct: 345 -----LASVLQQQGKLQEALMHYKEA 365

>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 = 47.4 bits (111), Expect = 3e-06
 Identities = 27/166 (16%), Positives = 59/166 (35%), Gaps = 4/166 (2%)

Query: 129 AAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTM 188
           A   Y   LS    +   +G L   Y ++ + + A+  + +  EL+      A+ NL+  
Sbjct: 222 AVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANA 280

Query: 189 YLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKC 248
               G   +     N   +   +  +              +I+   R++ +      +  
Sbjct: 281 LKEKGSVAEAEDCYNTALRLCPTHADSLNN-LANIKREQGNIEEAVRLYRKALEVFPEF- 338

Query: 249 RWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLY 294
               +SNLAS+  +    ++A +  K+   + P    AY  + +  
Sbjct: 339 -AAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTL 383

>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 = 47.0 bits (110), Expect = 3e-06
 Identities = 41/352 (11%), Positives = 98/352 (27%), Gaps = 13/352 (3%)

Query: 128 AAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLST 187
           AA         +   N      L + + +    +R+        +        A++NL  
Sbjct: 17  AAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNP-LLAEAYSNLGN 75

Query: 188 MYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDK 247
           +Y   GQ ++         +      +    +     +  +    V+     +    +  
Sbjct: 76  VYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLY 135

Query: 248 CRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVW 307
           C  +   NL     + E  +       K  E +P    A+  L  ++     +      +
Sbjct: 136 CVRSDLGNLLKALGRLEEAKACY---LKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHF 192

Query: 308 GILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKD 367
               +  P    +Y+ L   L +    D     +    S   ++ +   + +   Y ++ 
Sbjct: 193 EKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGN-LACVYYEQG 251

Query: 368 MYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRP 427
           + + A   +  A +        + +             +  A +    AL          
Sbjct: 252 LIDLAIDTYRRAIELQPHFPDAYCNL---ANALKEKGSVAEAEDCYNTALRLCPTHADSL 308

Query: 428 MQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKL 479
                        E+ +++ A    +    +     +A+S L       GKL
Sbjct: 309 NN-----LANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKL 355

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]} Length = 264

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]

 Score = 40.4 bits (94), Expect = 3e-04
 Identities = 15/122 (12%), Positives = 35/122 (28%)

Query: 266 FEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLL 325
            ++A   L +  +  P+D       I L C   + +  +         FP        L 
Sbjct: 12  LQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLR 71

Query: 326 QALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANA 385
             +    A     Q     +    + ++  + V     +    YE+ + +    ++    
Sbjct: 72  HLVKAAQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQE 131

Query: 386 SA 387
             
Sbjct: 132 KG 133

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]} Length = 264

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]

 Score = 37.3 bits (86), Expect = 0.002
 Identities = 11/130 (8%), Positives = 37/130 (28%), Gaps = 3/130 (2%)

Query: 161 ERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVW 220
           ++AL L  +  +     +    ++   +    G  E+    + Q  +             
Sbjct: 13  QQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLF-PEYLPGASQL 70

Query: 221 MQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMK 280
                         +         E++   T      ++ + ++ +E+      ++EE++
Sbjct: 71  RHLVKAAQARKDFAQGAATAKVLGENEE-LTKSLVSFNLSMVSQDYEQVSELALQIEELR 129

Query: 281 PRDRKAYHFL 290
                  +  
Sbjct: 130 QEKGFLANDT 139

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]} Length = 192

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]

 Score = 39.4 bits (91), Expect = 4e-04
 Identities = 24/149 (16%), Positives = 45/149 (30%), Gaps = 17/149 (11%)

Query: 152 NCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNIS 211
                +   + AL  F  + +     ++    N+  MY  L    +      +   R+  
Sbjct: 13  VLAADKKDWKGALDAFSAVQDP----HSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH 68

Query: 212 LDNLTYIVWMQSYSHLNDIDGVER-------------VFYEMCNECEDKCRWTTYSNLAS 258
           L    +   M  Y        ++              + Y++              N+A 
Sbjct: 69  LAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAF 128

Query: 259 IYVKAELFEKAELALKKLEEMKPRDRKAY 287
           +Y K E ++KAE  L     MK   R + 
Sbjct: 129 MYAKKEEWKKAEEQLALATSMKSEPRHSK 157

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 290

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]

 Score = 39.6 bits (91), Expect = 5e-04
 Identities = 33/280 (11%), Positives = 65/280 (23%), Gaps = 46/280 (16%)

Query: 123 KTNGIAAAEKYFNGLS--EYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNT- 179
           K    +   K F+G    ++ +           Y        A   F K  + +      
Sbjct: 14  KGVPSSGFMKLFSGSDSYKFEEAADLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNE 73

Query: 180 ----VAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVER 235
                 +      +   G        +    Q         +         L +I   + 
Sbjct: 74  DEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFT--HRGQFRRGANFKFELGEILENDL 131

Query: 236 VFYEMCNECEDKC------------RWTTYSNLASIYVKAELFEKAELALKKLEEMKPRD 283
             Y    +C +                  +   A +      + +A     KL +    +
Sbjct: 132 HDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGN 191

Query: 284 RKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEE 343
           R +   L   +                           L  L A   + A   L++   E
Sbjct: 192 RLSQWSLKDYFLK-----------------------KGLCQLAATDAVAAARTLQEGQSE 228

Query: 344 WESRCSSYDMRLADVIIRAYLQKD--MYEEAALIFNNAKK 381
             +   S +      +I A  + D     E    F+N  +
Sbjct: 229 DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR 268

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]} Length = 323

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.3 bits (87), Expect = 0.001
 Identities = 20/235 (8%), Positives = 50/235 (21%), Gaps = 6/235 (2%)

Query: 65  NAYIMEGKTVRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKT 124
                  +      +    R L      + AL  +    + +         +   L    
Sbjct: 61  TTQAENEQE--LLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTP 118

Query: 125 NGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNN 184
                      G             +L     + +      LF     ++    ++  + 
Sbjct: 119 AYAHLVTPAEEGAGGAGLGPSKR--ILGSLLSDSLFLEVKELFLAA--VRLDPTSIDPDV 174

Query: 185 LSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNEC 244
              + +      +    V+          N   +      +  N     E V        
Sbjct: 175 QCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALE 234

Query: 245 EDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSN 299
                  +  NL    +      +A     +   M+ + R       ++  N  +
Sbjct: 235 LQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWS 289

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	485
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	99.77
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.75
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.53
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.52
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.48
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.45
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.45
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.41
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.39
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.38
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.35
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.32
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.01
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.95
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.93
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.85
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.85
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.84
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.84
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.81
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.75
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.73
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.73
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.71
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {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	98.57
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.56
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.53
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.53
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.49
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.46
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.46
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.44
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.43
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.41
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.35
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.34
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.27
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.25
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.23
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.23
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.23
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	98.09
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.02
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.98
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.94
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.91
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.77
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.68
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.46
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.38
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.03
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.84
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.72
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.54
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.86
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.63
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	94.61
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	94.22
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	93.63
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	86.21

>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=6.4e-27  Score=215.82  Aligned_cols=383  Identities=12%  Similarity=0.010  Sum_probs=331.5

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcH
Q 048394           82 CVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMT  160 (485)
Q Consensus        82 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~  160 (485)
                      +...+.+.|++++|++.|+++.+.. +-+...+..+..++.+.|++++|...|+++.+ .+.+..+|..+...+.+.|++
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccc
Confidence            4566788999999999999998775 34577888888999999999999999999988 445678999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHH
Q 048394          161 ERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEM  240 (485)
Q Consensus       161 ~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  240 (485)
                      ++|...+......... +...+..........+....+............ ................+....+...+...
T Consensus        84 ~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (388)
T d1w3ba_          84 QEAIEHYRHALRLKPD-FIDGYINLAAALVAAGDMEGAVQAYVSALQYNP-DLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCT-TCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             cccccccccccccccc-ccccccccccccccccccccccccccccccccc-ccccccccccccccccchhhhhHHHHHHh
Confidence            9999999999887644 445555566666667777777777766665533 34445555666777888899999988888


Q ss_pred             HhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhh
Q 048394          241 CNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTS  320 (485)
Q Consensus       241 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  320 (485)
                      ..  ..+.+...+..+...+...|++++|...+++..+..|.+..++..+...+...|++++|...+++.....+.+...
T Consensus       162 ~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  239 (388)
T d1w3ba_         162 IE--TQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVV  239 (388)
T ss_dssp             HH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHH
T ss_pred             hc--cCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHH
Confidence            77  5666788888899999999999999999999999889899999999999999999999999999999988888888


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHH
Q 048394          321 YLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYY  400 (485)
Q Consensus       321 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~  400 (485)
                      +..+...+.+.|++++|...|+++.+..+. +..++..+...+...|++++|...++......   +.+...+..+...+
T Consensus       240 ~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~l~~~~  315 (388)
T d1w3ba_         240 HGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC---PTHADSLNNLANIK  315 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC---CccchhhhHHHHHH
Confidence            999999999999999999999999987655 67889999999999999999999999988764   56667888888999


Q ss_pred             HhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCC
Q 048394          401 LRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGK  478 (485)
Q Consensus       401 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  478 (485)
                      ...|++++|+..|++.++.     .+.+..++..+..++.+.|++++|...|+++++..|.++.+|..++.+|.+.||
T Consensus       316 ~~~~~~~~A~~~~~~al~~-----~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         316 REQGNIEEAVRLYRKALEV-----FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HTTTCHHHHHHHHHHHTTS-----CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHCCCHHHHHHHHHHHHHh-----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            9999999999999999886     445677889999999999999999999999999999999999999999999886

>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=1.3e-24  Score=200.23  Aligned_cols=355  Identities=14%  Similarity=0.060  Sum_probs=307.5

Q ss_pred             HHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCc
Q 048394          117 YLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQP  195 (485)
Q Consensus       117 l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~  195 (485)
                      +...+.+.|++++|.+.++++.+ .+-+...+..+...+.+.|++++|...|++..+.++. +..+|..+..+|.+.|++
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL-LAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHhhhhccc
Confidence            34567789999999999999988 4446788999999999999999999999999887644 667899999999999999


Q ss_pred             ccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHH
Q 048394          196 EKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKK  275 (485)
Q Consensus       196 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  275 (485)
                      ++|+..+....... ..+..............+....+.........  ...................+....+...+..
T Consensus        84 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (388)
T d1w3ba_          84 QEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQ--YNPDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHH--HCTTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             cccccccccccccc-cccccccccccccccccccccccccccccccc--cccccccccccccccccccchhhhhHHHHHH
Confidence            99999999998864 33444555555566667777777777766665  3444555555677777788899999999999


Q ss_pred             HHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHh
Q 048394          276 LEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRL  355 (485)
Q Consensus       276 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  355 (485)
                      .....|.+...+..+...+...|++++|...+++.....|.+...+..+...+...|++++|...+......... +...
T Consensus       161 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~  239 (388)
T d1w3ba_         161 AIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVV  239 (388)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHHH
T ss_pred             hhccCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhh-HHHH
Confidence            888888889999999999999999999999999999988888899999999999999999999999999887655 6778


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHH
Q 048394          356 ADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTF  435 (485)
Q Consensus       356 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l  435 (485)
                      +..+...+.+.|++++|...|++..+..   +-+..++..+...+...|++++|++.++.....     .+.+...+..+
T Consensus       240 ~~~l~~~~~~~~~~~~A~~~~~~al~~~---p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~~~~~~~~~l  311 (388)
T d1w3ba_         240 HGNLACVYYEQGLIDLAIDTYRRAIELQ---PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-----CPTHADSLNNL  311 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTC---SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-----CTTCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-----CCccchhhhHH
Confidence            8889999999999999999999998874   445677888999999999999999999999887     66778889999


Q ss_pred             HHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          436 FRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       436 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      ...+...|++++|.+.++++++..|.++.++..++.+|.+.|++++|++
T Consensus       312 ~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~  360 (388)
T d1w3ba_         312 ANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALM  360 (388)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999999999999999999999999999999999999999974

>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=99.77  E-value=2.4e-16  Score=140.60  Aligned_cols=252  Identities=13%  Similarity=-0.008  Sum_probs=172.7

Q ss_pred             HHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCCh
Q 048394          221 MQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNL  300 (485)
Q Consensus       221 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  300 (485)
                      ...+.+.|++++|+..|+.+.+  ..|.+..+|..++.+|...|++++|...+.++.+..|.+...|..++..|...|++
T Consensus        26 g~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~  103 (323)
T d1fcha_          26 GLRRLQEGDLPNAVLLFEAAVQ--QDPKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQ  103 (323)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH--SCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccccccccccccccccccccc
Confidence            3345555666666666666555  44445555555666666666666666666665555555555666666666666666


Q ss_pred             hhHHHHHHHhhhcCCCChhh---------------HHHHHHHHHhcCChhHHHHHHHHHHHccCC-CCHHhHHHHHHHHH
Q 048394          301 DAVNRVWGILKSTFPPTNTS---------------YLVLLQALAKLNAIDILKQCFEEWESRCSS-YDMRLADVIIRAYL  364 (485)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~---------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~  364 (485)
                      ++|.+.++.+....+.....               ....+..+...+...+|.+.+....+..+. ++..++..+...+.
T Consensus       104 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~  183 (323)
T d1fcha_         104 RQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFN  183 (323)
T ss_dssp             HHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHH
T ss_pred             cccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHH
Confidence            66666665555443331110               111222334456677888888887765433 35677888889999


Q ss_pred             hcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCC
Q 048394          365 QKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKD  444 (485)
Q Consensus       365 ~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  444 (485)
                      ..|++++|...|++.....   +-+...|..+...|...|++++|++.|+++++.     .+-+...|..+..+|.+.|+
T Consensus       184 ~~~~~~~A~~~~~~al~~~---p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-----~p~~~~a~~~lg~~~~~~g~  255 (323)
T d1fcha_         184 LSGEYDKAVDCFTAALSVR---PNDYLLWNKLGATLANGNQSEEAVAAYRRALEL-----QPGYIRSRYNLGISCINLGA  255 (323)
T ss_dssp             HTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHhhhhcccccccccc---cccccchhhhhhcccccccchhHHHHHHHHHHH-----hhccHHHHHHHHHHHHHCCC
Confidence            9999999999999988764   345677888888999999999999999999987     34467788899999999999


Q ss_pred             hhhHHHHHHHHhhcCCCCH-----------HHHHHHHHHHHHhCCCcch
Q 048394          445 VDGAEEFCKVLKSLNCLDF-----------SAYSLLIKTYIAAGKLASD  482 (485)
Q Consensus       445 ~~~A~~~~~~~~~~~~~~~-----------~~~~~l~~~~~~~g~~~~A  482 (485)
                      +++|...|+++++..|.+.           ..|..+..++...|+.+.+
T Consensus       256 ~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~  304 (323)
T d1fcha_         256 HREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAY  304 (323)
T ss_dssp             HHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGH
T ss_pred             HHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            9999999999998776543           3567778888888877643

>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=99.75  E-value=2.6e-16  Score=140.36  Aligned_cols=224  Identities=12%  Similarity=0.073  Sum_probs=190.5

Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCCh
Q 048394          255 NLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAI  334 (485)
Q Consensus       255 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  334 (485)
                      ..+..+.+.|++++|...|+++.+..|.+..+|..+..++...|++++|...+.+..+..|.+...+..++..+...|++
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~  103 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQ  103 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccccccccccccccccccccc
Confidence            46778889999999999999999999999999999999999999999999999999999888999999999999999999


Q ss_pred             hHHHHHHHHHHHccCCCC--------------HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHH
Q 048394          335 DILKQCFEEWESRCSSYD--------------MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYY  400 (485)
Q Consensus       335 ~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~  400 (485)
                      ++|.+.++.+....+...              .......+..+...+.+.+|...|.+..+... ..++...+..+...+
T Consensus       104 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p-~~~~~~~~~~l~~~~  182 (323)
T d1fcha_         104 RQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDP-TSIDPDVQCGLGVLF  182 (323)
T ss_dssp             HHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHST-TSCCHHHHHHHHHHH
T ss_pred             cccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhh-cccccccchhhHHHH
Confidence            999999999887543210              00111122334455778889999988877632 034556777888889


Q ss_pred             HhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCc
Q 048394          401 LRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLA  480 (485)
Q Consensus       401 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  480 (485)
                      ...|++++|+..+++.+..     .+.+...|..+..++...|++++|.+.++++++..|.++.+|..++.+|.+.|+++
T Consensus       183 ~~~~~~~~A~~~~~~al~~-----~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~  257 (323)
T d1fcha_         183 NLSGEYDKAVDCFTAALSV-----RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHR  257 (323)
T ss_dssp             HHTTCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHhhhhccccccccc-----ccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHHHHHHHHCCCHH
Confidence            9999999999999999987     45568889999999999999999999999999999999999999999999999999


Q ss_pred             chhc
Q 048394          481 SDMR  484 (485)
Q Consensus       481 ~A~~  484 (485)
                      +|++
T Consensus       258 ~A~~  261 (323)
T d1fcha_         258 EAVE  261 (323)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9974

>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=99.53  E-value=2.9e-12  Score=112.54  Aligned_cols=234  Identities=8%  Similarity=-0.011  Sum_probs=163.5

Q ss_pred             HHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcc-cHHHHHHHHHHHHhcCCCChHHHHHHHH
Q 048394          214 NLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAE-LFEKAELALKKLEEMKPRDRKAYHFLIS  292 (485)
Q Consensus       214 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~l~~  292 (485)
                      ...++.+...+.+.+.+++|+++++.+++  -.|-+...|+....++...| ++++|+..++.+.+..|.+..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~--lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIE--LNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHH--HCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhH
Confidence            44556666667777888888888888887  56777777888887777765 4788888888888888888888888888


Q ss_pred             HHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCc----
Q 048394          293 LYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDM----  368 (485)
Q Consensus       293 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----  368 (485)
                      .+...|++++|+..++++.+..|.+..+|..+...+...|++++|++.++.+.+..+. +...|+.+...+.+.+.    
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccchh
Confidence            8888888888888888888888878888888888888888888888888888887655 66677766666555443    


Q ss_pred             --HHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhh--cCC
Q 048394          369 --YEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEE--EKD  444 (485)
Q Consensus       369 --~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~  444 (485)
                        +++|...+.+.++..   +.+...|..+...+ .....+++.+.++...+...   ...+...+..++..|..  .++
T Consensus       200 ~~~~~ai~~~~~al~~~---P~~~~~~~~l~~ll-~~~~~~~~~~~~~~~~~l~~---~~~~~~~~~~l~~~y~~~~~~~  272 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLV---PHNESAWNYLKGIL-QDRGLSKYPNLLNQLLDLQP---SHSSPYLIAFLVDIYEDMLENQ  272 (315)
T ss_dssp             HHHHHHHHHHHHHHHHS---TTCHHHHHHHHHHH-TTTCGGGCHHHHHHHHHHTT---TCCCHHHHHHHHHHHHHHHHTT
T ss_pred             hhhHHhHHHHHHHHHhC---CCchHHHHHHHHHH-HhcChHHHHHHHHHHHHhCC---CcCCHHHHHHHHHHHHHHHhcC
Confidence              567777777777663   33555565555443 34445777777777766541   11234444555555433  245


Q ss_pred             hhhHHHHHHHHhh
Q 048394          445 VDGAEEFCKVLKS  457 (485)
Q Consensus       445 ~~~A~~~~~~~~~  457 (485)
                      .+.+...+++..+
T Consensus       273 ~~~~~~~~~ka~~  285 (315)
T d2h6fa1         273 CDNKEDILNKALE  285 (315)
T ss_dssp             CSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            5556666665554

>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=99.52  E-value=1.5e-11  Score=107.86  Aligned_cols=200  Identities=7%  Similarity=-0.014  Sum_probs=170.3

Q ss_pred             hhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcC-CHhHHHHHHHHHHhccCCCCcHHHHHHHH
Q 048394          179 TVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLN-DIDGVERVFYEMCNECEDKCRWTTYSNLA  257 (485)
Q Consensus       179 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  257 (485)
                      ..+|+.+...+.+.+.+++|+++++++++.. +-+...|+....++...| ++++|+..++...+  ..+-+..+|..+.
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~--~~p~~~~a~~~~~  119 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIE--EQPKNYQVWHHRR  119 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--HCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHH--HHHhhhhHHHHHh
Confidence            3456777778889999999999999999963 335567788888888776 58999999999988  6788899999999


Q ss_pred             HHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCC----
Q 048394          258 SIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNA----  333 (485)
Q Consensus       258 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----  333 (485)
                      .++.+.|++++|+..++++.+..|.+..+|..+...+...|++++|+..++++.+..|.+..+|+.+...+.+.+.    
T Consensus       120 ~~~~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         120 VLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHHhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccchh
Confidence            9999999999999999999999999999999999999999999999999999999999999999888888777665    


Q ss_pred             --hhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcc
Q 048394          334 --IDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRA  383 (485)
Q Consensus       334 --~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  383 (485)
                        +++|.+.+..+.+..+. +...|+.+...+... ..+++...++...+..
T Consensus       200 ~~~~~ai~~~~~al~~~P~-~~~~~~~l~~ll~~~-~~~~~~~~~~~~~~l~  249 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDR-GLSKYPNLLNQLLDLQ  249 (315)
T ss_dssp             HHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTT-CGGGCHHHHHHHHHHT
T ss_pred             hhhHHhHHHHHHHHHhCCC-chHHHHHHHHHHHhc-ChHHHHHHHHHHHHhC
Confidence              57888999988888765 788888777766554 4578888888887653

>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=99.48  E-value=3.7e-12  Score=108.94  Aligned_cols=228  Identities=13%  Similarity=0.051  Sum_probs=158.2

Q ss_pred             CHhHHHHHHHHHHhccCCCC--cHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHH
Q 048394          229 DIDGVERVFYEMCNECEDKC--RWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRV  306 (485)
Q Consensus       229 ~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  306 (485)
                      +.+.++..++++.......+  ...+|..++.+|.+.|++++|...|++..+..|.++.+|..+..++...|++++|...
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~   93 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEA   93 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhh
Confidence            34556666666665222111  2346677888899999999999999999998888999999999999999999999999


Q ss_pred             HHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhccccc
Q 048394          307 WGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANAS  386 (485)
Q Consensus       307 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  386 (485)
                      |+++.+..|.+..++..+..++...|++++|.+.|+...+..+. +......+...+.+.+..+.+..+........   
T Consensus        94 ~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---  169 (259)
T d1xnfa_          94 FDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPN-DPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD---  169 (259)
T ss_dssp             HHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC---
T ss_pred             hhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhccc-cHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc---
Confidence            99999988888888888999999999999999999988887544 44444445555566666666666555555432   


Q ss_pred             CCchhHHHHHHHHHHh----cccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCC
Q 048394          387 ARFFKSRESFMIYYLR----SRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLD  462 (485)
Q Consensus       387 ~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  462 (485)
                       ++...+. ++..+..    .+..+.+...+.......     +-...+|..+...+...|++++|.+.|++++...|.+
T Consensus       170 -~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~  242 (259)
T d1xnfa_         170 -KEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLA-----EHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHN  242 (259)
T ss_dssp             -CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHH-----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTT
T ss_pred             -hhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcC-----cccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC
Confidence             2222222 2222221    223334444333333321     1223567778889999999999999999999988877


Q ss_pred             HHHHH
Q 048394          463 FSAYS  467 (485)
Q Consensus       463 ~~~~~  467 (485)
                      ...|.
T Consensus       243 ~~~~~  247 (259)
T d1xnfa_         243 FVEHR  247 (259)
T ss_dssp             CHHHH
T ss_pred             HHHHH
Confidence            55444

>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=99.45  E-value=1.4e-12  Score=116.25  Aligned_cols=236  Identities=8%  Similarity=-0.042  Sum_probs=178.1

Q ss_pred             HhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcc--cHHHHHHHHHHHHhcCCCChHHHHH-HHHHHHhcCChh
Q 048394          225 SHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAE--LFEKAELALKKLEEMKPRDRKAYHF-LISLYCNTSNLD  301 (485)
Q Consensus       225 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~  301 (485)
                      ...|++++|+.+++...+  ..|.+...+..+..++...+  ++++|...+.++.+..|++...+.. ....+...+.++
T Consensus        84 ~~~~~~~~al~~~~~~l~--~~pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~  161 (334)
T d1dcea1          84 ESAALVKAELGFLESCLR--VNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPA  161 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHH
T ss_pred             HHHHHHHHHHHHHHHHHH--hCCCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccH
Confidence            344567788888888877  56667777777777776665  4788888888888877777777654 446677788888


Q ss_pred             hHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHh
Q 048394          302 AVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKK  381 (485)
Q Consensus       302 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  381 (485)
                      .|+..++.+....|.+..+|..+...+...|++++|...+....+...    ... .+...+...+..+++...+.....
T Consensus       162 ~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~~----~~~-~~~~~~~~l~~~~~a~~~~~~~l~  236 (334)
T d1dcea1         162 EELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLL----KEL-ELVQNAFFTDPNDQSAWFYHRWLL  236 (334)
T ss_dssp             HHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHH----HHH-HHHHHHHHHCSSCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhHH----HHH-HHHHHHHHhcchhHHHHHHHHHHH
Confidence            999999888888888888888888888888888877666655444311    111 123334555666778888887776


Q ss_pred             cccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCC
Q 048394          382 RANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL  461 (485)
Q Consensus       382 ~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  461 (485)
                      ..   +++...+..+...+...|+.++|...+.+....     .+.+..++..+..++...|++++|.++++++.+.+|.
T Consensus       237 ~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~  308 (334)
T d1dcea1         237 GR---AEPLFRCELSVEKSTVLQSELESCKELQELEPE-----NKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPM  308 (334)
T ss_dssp             SC---CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTT-----CHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGG
T ss_pred             hC---cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhh-----CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcc
Confidence            64   445556666777788889999999999988776     3345677888889999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHH
Q 048394          462 DFSAYSLLIKTYIA  475 (485)
Q Consensus       462 ~~~~~~~l~~~~~~  475 (485)
                      +...|..|...+.-
T Consensus       309 ~~~y~~~L~~~~~~  322 (334)
T d1dcea1         309 RAAYLDDLRSKFLL  322 (334)
T ss_dssp             GHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhH
Confidence            99999988777763

>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=1.3e-10  Score=104.05  Aligned_cols=231  Identities=10%  Similarity=-0.009  Sum_probs=125.4

Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhc-----CCC---ChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC-----Chhh
Q 048394          254 SNLASIYVKAELFEKAELALKKLEEM-----KPR---DRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-----TNTS  320 (485)
Q Consensus       254 ~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~  320 (485)
                      ..+...+...|++..+...+......     .+.   ....+..+...+...|+++.+...+.........     ....
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  174 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  174 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHH
Confidence            33444455555555555555544330     110   1123344455555666666666666555443322     2233


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHccCC----C--CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhccccc-CCchhHH
Q 048394          321 YLVLLQALAKLNAIDILKQCFEEWESRCSS----Y--DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANAS-ARFFKSR  393 (485)
Q Consensus       321 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-~p~~~~~  393 (485)
                      +......+...++...+...+.........    +  ....+..+...+...|++++|...+++........ ......+
T Consensus       175 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  254 (366)
T d1hz4a_         175 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  254 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHH
Confidence            344445555666666666666554432111    0  12234555566677778888877777665442200 1112334


Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCcc-HHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCC---------CH
Q 048394          394 ESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPM-QVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCL---------DF  463 (485)
Q Consensus       394 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~---------~~  463 (485)
                      ..+...+...|++++|...++++.......+..|+ ...+..+..++...|++++|.+.++++++..+.         ..
T Consensus       255 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~  334 (366)
T d1hz4a_         255 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEG  334 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHH
Confidence            45666777788888888888777655433323343 345666667778888888888888777664321         22


Q ss_pred             HHHHHHHHHHHHhCCCcchhc
Q 048394          464 SAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       464 ~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      ..+..+...+...++.+++.+
T Consensus       335 ~~~~~~~~~l~~~~~l~e~e~  355 (366)
T d1hz4a_         335 EAMAQQLRQLIQLNTLPELEQ  355 (366)
T ss_dssp             HHHHHHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHHHHHhcCCChHHHH
Confidence            334555566666677766643

>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=99.41  E-value=5.4e-10  Score=99.94  Aligned_cols=296  Identities=11%  Similarity=-0.020  Sum_probs=151.6

Q ss_pred             HHHhcCcHHHHHHHHHHHHhCCCCCC----hhhHHHHHHHHHhCCCcccHHHHHHHHHHc----CCCc-cHHHHHHHHHH
Q 048394          153 CYCKELMTERALALFEKMDELKFLGN----TVAFNNLSTMYLRLGQPEKVRPLVNQMKQR----NISL-DNLTYIVWMQS  223 (485)
Q Consensus       153 ~~~~~~~~~~A~~~~~~m~~~~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~  223 (485)
                      .+...|++++|++++++..+.....+    ..+++.+...+...|++++|+..|++..+.    +..+ ....+..+...
T Consensus        21 ~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  100 (366)
T d1hz4a_          21 VAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEI  100 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHH
Confidence            34444555555555555444321100    123344444455555555555555544331    0000 11223334444


Q ss_pred             HHhcCCHhHHHHHHHHHHhc---cCCC--C-cHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCC-----CChHHHHHHHH
Q 048394          224 YSHLNDIDGVERVFYEMCNE---CEDK--C-RWTTYSNLASIYVKAELFEKAELALKKLEEMKP-----RDRKAYHFLIS  292 (485)
Q Consensus       224 ~~~~~~~~~a~~~~~~~~~~---~~~~--~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-----~~~~~~~~l~~  292 (485)
                      +...|++..+...+......   ....  + ....+..+...+...|+++.+...+.......+     .....+.....
T Consensus       101 ~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  180 (366)
T d1hz4a_         101 LFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQ  180 (366)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHH
Confidence            55555555555555544320   0111  1 122334455556666666666666666555221     12233444455


Q ss_pred             HHHhcCChhhHHHHHHHhhhcCCC-------ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCC---HHhHHHHHHH
Q 048394          293 LYCNTSNLDAVNRVWGILKSTFPP-------TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYD---MRLADVIIRA  362 (485)
Q Consensus       293 ~~~~~~~~~~a~~~~~~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~  362 (485)
                      .+...++...+...+.........       ....+..+...+...|+.+.|...+....+.....+   ...+..+..+
T Consensus       181 ~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~  260 (366)
T d1hz4a_         181 CSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARA  260 (366)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHH
Confidence            555666666666555544332111       123344555566677777777777776554332222   3344556777


Q ss_pred             HHhcCcHHHHHHHHHHHHhc----ccccCCc-hhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCc----cHHHHH
Q 048394          363 YLQKDMYEEAALIFNNAKKR----ANASARF-FKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRP----MQVTVD  433 (485)
Q Consensus       363 ~~~~~~~~~A~~~~~~~~~~----~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~----~~~~~~  433 (485)
                      +...|++++|...+++....    +.  .|+ ...+..+...|.+.|++++|.+.+++.+......+...    ....+.
T Consensus       261 ~~~~g~~~~A~~~~~~al~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~  338 (366)
T d1hz4a_         261 QILLGEFEPAEIVLEELNENARSLRL--MSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEGEAMA  338 (366)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhccc--ChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHH
Confidence            78888888888888776532    22  222 34566677778888888888888888776543222211    123344


Q ss_pred             HHHHHHhhcCChhhHHH
Q 048394          434 TFFRFFEEEKDVDGAEE  450 (485)
Q Consensus       434 ~l~~~~~~~~~~~~A~~  450 (485)
                      .++..+...+..+++++
T Consensus       339 ~~~~~l~~~~~l~e~e~  355 (366)
T d1hz4a_         339 QQLRQLIQLNTLPELEQ  355 (366)
T ss_dssp             HHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHhcCCChHHHH
Confidence            55556666676666654

>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=99.39  E-value=1.6e-10  Score=101.23  Aligned_cols=192  Identities=10%  Similarity=0.044  Sum_probs=137.2

Q ss_pred             ccHHHHHHHHHHHHh-cCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC-ChhhHHHHHHHHHhcCChhHHHHHH
Q 048394          264 ELFEKAELALKKLEE-MKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-TNTSYLVLLQALAKLNAIDILKQCF  341 (485)
Q Consensus       264 ~~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~  341 (485)
                      +..++|..++++..+ ..|.+...|...+..+...|+++.|..+|+++....+. ....|...+..+.+.|+.+.|.++|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            345777788888776 45556667777788888888888888888888776666 3456778888888888888888888


Q ss_pred             HHHHHccCCCCHHhHHHHHHH-HHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHh
Q 048394          342 EEWESRCSSYDMRLADVIIRA-YLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEA  420 (485)
Q Consensus       342 ~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  420 (485)
                      +.+.+.++. +...|...... +...|+.+.|..+|+.+.+..   +.+...|...+..+.+.|+.+.|..+|++.+...
T Consensus       158 ~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~---p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~  233 (308)
T d2onda1         158 KKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY---GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG  233 (308)
T ss_dssp             HHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH---TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSS
T ss_pred             HHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh---hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC
Confidence            888776554 33444333332 334578888888888887763   4456677777888888888888888888887753


Q ss_pred             hhcCCCc--cHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCC
Q 048394          421 KQFHWRP--MQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLD  462 (485)
Q Consensus       421 ~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  462 (485)
                      .   ..|  ....|..++..-...|+.+.+..+++++.+..|.+
T Consensus       234 ~---~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~  274 (308)
T d2onda1         234 S---LPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREE  274 (308)
T ss_dssp             S---SCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTT
T ss_pred             C---CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCccc
Confidence            1   122  23567777777777888888888888887776643

>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=99.38  E-value=5.6e-11  Score=104.16  Aligned_cols=209  Identities=10%  Similarity=0.072  Sum_probs=163.8

Q ss_pred             HHHHHHHHHHHhcCCCChHHHHHHHHHHHhc--------------CChhhHHHHHHHhhhcCCC-ChhhHHHHHHHHHhc
Q 048394          267 EKAELALKKLEEMKPRDRKAYHFLISLYCNT--------------SNLDAVNRVWGILKSTFPP-TNTSYLVLLQALAKL  331 (485)
Q Consensus       267 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~  331 (485)
                      +.+..+|+++....|.++..|...+..+...              +..++|..+|++..+..++ +...+...+......
T Consensus        33 ~Rv~~vyerAl~~~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~  112 (308)
T d2onda1          33 KRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  112 (308)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhc
Confidence            4455667777665566677776665544322              2357888999999887666 788888899999999


Q ss_pred             CChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHH-HHhcccHHHHH
Q 048394          332 NAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIY-YLRSRQLDLAL  410 (485)
Q Consensus       332 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~g~~~~A~  410 (485)
                      |+.+.|..+|+.+.+..+.....+|...+..+.+.|+++.|..+|+++.+.+   +.+...|...... +...|+.+.|.
T Consensus       113 ~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~---~~~~~~~~~~a~~e~~~~~~~~~a~  189 (308)
T d2onda1         113 MKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA---RTRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             TCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST---TCCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHHhccCHHHHH
Confidence            9999999999999987655446688999999999999999999999998874   2333444433332 33468999999


Q ss_pred             HHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCC----HHHHHHHHHHHHHhCCCcchh
Q 048394          411 NEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLD----FSAYSLLIKTYIAAGKLASDM  483 (485)
Q Consensus       411 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~  483 (485)
                      .+|+.++..     .+.+...|..++..+...|+++.|..+|+++.+..|.+    ...|..++......|+.+.+.
T Consensus       190 ~i~e~~l~~-----~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~  261 (308)
T d2onda1         190 KIFELGLKK-----YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASIL  261 (308)
T ss_dssp             HHHHHHHHH-----HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHH
T ss_pred             HHHHHHHHh-----hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            999999998     55678899999999999999999999999999876543    457999999888889877654

>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=99.35  E-value=2.4e-11  Score=103.81  Aligned_cols=220  Identities=12%  Similarity=0.059  Sum_probs=119.8

Q ss_pred             hHHHHHHHHHHHhCCCCC---ChhhHHHHHHHHHhhCCHHHHHHHHHhhcc-cCCCHhHHHHHHHHHHhcCcHHHHHHHH
Q 048394           92 YRHALEVIEWMESRKMHF---SYTDFAVYLDLTAKTNGIAAAEKYFNGLSE-YAKNRYTYGALLNCYCKELMTERALALF  167 (485)
Q Consensus        92 ~~~A~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~  167 (485)
                      .+.|+.-+++........   ...+|..+..+|.+.|++++|.+.|++..+ .+-+..+|+.+..++.+.|++++|+..|
T Consensus        15 ~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~   94 (259)
T d1xnfa_          15 QEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAF   94 (259)
T ss_dssp             HHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhh
Confidence            344555555554432111   123455556677777888888888877777 4445667777777777788888888888


Q ss_pred             HHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCC
Q 048394          168 EKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDK  247 (485)
Q Consensus       168 ~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  247 (485)
                      ++..+.... +..++..+..++...|++++|.+.|+...+.. +.+......+..++.+.+..+.+..+...........
T Consensus        95 ~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  172 (259)
T d1xnfa_          95 DSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQ  172 (259)
T ss_dssp             HHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCS
T ss_pred             hHHHHHHhh-hhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhh
Confidence            777775543 45567777777777777777777777777653 2233333333344445555444444444444411111


Q ss_pred             CcHHHHHHHHHHHHh----cccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCC
Q 048394          248 CRWTTYSNLASIYVK----AELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPT  317 (485)
Q Consensus       248 ~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  317 (485)
                      +...    ++..+..    .+..+.+...+.......+....+|..+...|...|++++|...|++.....|.+
T Consensus       173 ~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~  242 (259)
T d1xnfa_         173 WGWN----IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHN  242 (259)
T ss_dssp             THHH----HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTT
T ss_pred             hhhh----HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC
Confidence            1111    1222211    1122222222222111222233455556666666666666666666666655543

>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=1.7e-11  Score=109.07  Aligned_cols=216  Identities=8%  Similarity=-0.050  Sum_probs=94.5

Q ss_pred             CcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCC--cccHHHHHHHHHHcCCCccHHHHH-HHHHHHHhcCCHhHHH
Q 048394          158 LMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQ--PEKVRPLVNQMKQRNISLDNLTYI-VWMQSYSHLNDIDGVE  234 (485)
Q Consensus       158 ~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~--~~~a~~~~~~~~~~~~~p~~~~~~-~l~~~~~~~~~~~~a~  234 (485)
                      |++++|+.++++..+.+++ +...|..+..++...++  +++|+..+.++.... +++...+. .....+...+.++.|+
T Consensus        87 ~~~~~al~~~~~~l~~~pk-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al  164 (334)
T d1dcea1          87 ALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEEL  164 (334)
T ss_dssp             HHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCC-cHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHH
Confidence            3445555555555544332 34444444444444332  345555555554432 12222222 2223344445555555


Q ss_pred             HHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcC
Q 048394          235 RVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTF  314 (485)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  314 (485)
                      ..++.+.+  ..+-+...|..+..++.+.|++++|...+.......+..    ......+...+..+++...+.......
T Consensus       165 ~~~~~~i~--~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~----~~~~~~~~~l~~~~~a~~~~~~~l~~~  238 (334)
T d1dcea1         165 AFTDSLIT--RNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKE----LELVQNAFFTDPNDQSAWFYHRWLLGR  238 (334)
T ss_dssp             HHHHTTTT--TTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHH----HHHHHHHHHHCSSCSHHHHHHHHHHSC
T ss_pred             HHHHHHHH--cCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhHHHH----HHHHHHHHHhcchhHHHHHHHHHHHhC
Confidence            55555544  344444555555555555555444443333322221111    111222333344444444444444444


Q ss_pred             CCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhc
Q 048394          315 PPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKR  382 (485)
Q Consensus       315 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  382 (485)
                      +.+...+..++..+...++.++|...+.+..+..+. +..++..+...|...|++++|...++++.+.
T Consensus       239 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         239 AEPLFRCELSVEKSTVLQSELESCKELQELEPENKW-CLLTIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCch-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            443333444444444445555555555444443222 3344444445555555555555555555443

>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=99.01  E-value=1e-08  Score=74.68  Aligned_cols=108  Identities=8%  Similarity=-0.126  Sum_probs=95.4

Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHH
Q 048394          359 IIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRF  438 (485)
Q Consensus       359 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  438 (485)
                      -...+...|++++|...|++.++..   +-+...|..+..+|...|++++|+..+++++..     .+.+...|..+..+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~---p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~-----~p~~~~~~~~~g~~   80 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLD---PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDL-----KPDWGKGYSRKAAA   80 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC---CcchhhhhcccccccccccccccchhhhhHHHh-----ccchhhHHHHHHHH
Confidence            4566888999999999999999875   556677889999999999999999999999988     56678899999999


Q ss_pred             HhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHH
Q 048394          439 FEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYI  474 (485)
Q Consensus       439 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  474 (485)
                      +...|++++|...++++.+..|.++.++..+.++-.
T Consensus        81 ~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~l~~  116 (117)
T d1elwa_          81 LEFLNRFEEAKRTYEEGLKHEANNPQLKEGLQNMEA  116 (117)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhC
Confidence            999999999999999999999999999988877643

>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=98.95  E-value=1.2e-08  Score=79.15  Aligned_cols=101  Identities=14%  Similarity=0.003  Sum_probs=49.2

Q ss_pred             HHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhh
Q 048394          362 AYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEE  441 (485)
Q Consensus       362 ~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  441 (485)
                      .|.+.|++++|...|++.++.+   +-+...|..+...|...|++++|+..|+++++.     .+.+...|..+..++..
T Consensus        19 ~~~~~~~y~~A~~~~~~al~~~---p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~-----~p~~~~a~~~~g~~~~~   90 (159)
T d1a17a_          19 DYFKAKDYENAIKFYSQAIELN---PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL-----DKKYIKGYYRRAASNMA   90 (159)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHhhhccccc---hhhhhhhhhhHHHHHhccccchHHHHHHHHHHH-----cccchHHHHHHHHHHHH
Confidence            3444555555555555555443   233344444444555555555555555555544     22333445555555555


Q ss_pred             cCChhhHHHHHHHHhhcCCCCHHHHHHHH
Q 048394          442 EKDVDGAEEFCKVLKSLNCLDFSAYSLLI  470 (485)
Q Consensus       442 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  470 (485)
                      .|++++|...++++.+..|.++.++..+.
T Consensus        91 ~g~~~eA~~~~~~a~~~~p~~~~~~~~l~  119 (159)
T d1a17a_          91 LGKFRAALRDYETVVKVKPHDKDAKMKYQ  119 (159)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            55555555555555555555544444443

>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=98.93  E-value=1.4e-08  Score=87.54  Aligned_cols=202  Identities=13%  Similarity=0.030  Sum_probs=125.7

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhc-----C-CCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC------ChhhHHH
Q 048394          256 LASIYVKAELFEKAELALKKLEEM-----K-PRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP------TNTSYLV  323 (485)
Q Consensus       256 l~~~~~~~~~~~~A~~~~~~~~~~-----~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~  323 (485)
                      .+..|...+++++|.+.|.++.+.     . +.-..+|..+..+|.+.|++++|...+++.......      ...++..
T Consensus        43 aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  122 (290)
T d1qqea_          43 AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFE  122 (290)
T ss_dssp             HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHH
Confidence            345566777777777777776661     1 112356777777888888888888877765543211      2345556


Q ss_pred             HHHHHHh-cCChhHHHHHHHHHHHcc----CCC-CHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCch------h
Q 048394          324 LLQALAK-LNAIDILKQCFEEWESRC----SSY-DMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFF------K  391 (485)
Q Consensus       324 l~~~~~~-~~~~~~a~~~~~~~~~~~----~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~------~  391 (485)
                      +...|.. .|++++|.+.+++..+..    ..+ ...++..+...|...|++++|...|+++.....  ....      .
T Consensus       123 l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~--~~~~~~~~~~~  200 (290)
T d1qqea_         123 LGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSM--GNRLSQWSLKD  200 (290)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTS--SCTTTGGGHHH
T ss_pred             HHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCc--cchhhhhhHHH
Confidence            6666644 688999998888775431    111 134577788999999999999999999877532  1111      1


Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhh--cCChhhHHHHHHHHhhcC
Q 048394          392 SRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEE--EKDVDGAEEFCKVLKSLN  459 (485)
Q Consensus       392 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~A~~~~~~~~~~~  459 (485)
                      .+...+..+...|+++.|...+++.....+.............++.++..  .+.+++|...|+.+.+.+
T Consensus       201 ~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~lD  270 (290)
T d1qqea_         201 YFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLD  270 (290)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCC
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcC
Confidence            23344456678899999999999987754111111123345666666654  234677777776655544

>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=98.85  E-value=8.5e-08  Score=74.18  Aligned_cols=101  Identities=15%  Similarity=-0.023  Sum_probs=71.3

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChh
Q 048394          256 LASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAID  335 (485)
Q Consensus       256 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  335 (485)
                      .+..|.+.|++++|...|.++.+..|.+...|..+..+|...|++++|...|+++.+..+.+..+|..++.++...|+++
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~   95 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFR   95 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCHH
Confidence            45566677777777777777777777777777777777777777777777777777777667777777777777777777


Q ss_pred             HHHHHHHHHHHccCCCCHHhHH
Q 048394          336 ILKQCFEEWESRCSSYDMRLAD  357 (485)
Q Consensus       336 ~a~~~~~~~~~~~~~~~~~~~~  357 (485)
                      +|...+++..+..+. +...+.
T Consensus        96 eA~~~~~~a~~~~p~-~~~~~~  116 (159)
T d1a17a_          96 AALRDYETVVKVKPH-DKDAKM  116 (159)
T ss_dssp             HHHHHHHHHHHHSTT-CHHHHH
T ss_pred             HHHHHHHHHHHcCCC-CHHHHH
Confidence            777777777666443 344333

>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=98.85  E-value=8.9e-08  Score=69.54  Aligned_cols=91  Identities=14%  Similarity=0.100  Sum_probs=49.2

Q ss_pred             HHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhH
Q 048394          257 ASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDI  336 (485)
Q Consensus       257 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  336 (485)
                      +..+.+.|++++|+..|+++.+..|.+...|..+..+|...|++++|+..+.......|.+...|..+..++...|++++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~~   89 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEE   89 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHHH
Confidence            44445555555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHHHc
Q 048394          337 LKQCFEEWESR  347 (485)
Q Consensus       337 a~~~~~~~~~~  347 (485)
                      |+..|+...+.
T Consensus        90 A~~~~~~a~~~  100 (117)
T d1elwa_          90 AKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHHHh
Confidence            55555555544

>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=98.84  E-value=1.5e-07  Score=81.01  Aligned_cols=233  Identities=8%  Similarity=-0.101  Sum_probs=151.6

Q ss_pred             HHHHHHHHHHhccCCCCcHHHHHHHHHHH--HhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHH
Q 048394          232 GVERVFYEMCNECEDKCRWTTYSNLASIY--VKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGI  309 (485)
Q Consensus       232 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  309 (485)
                      ++.+++++..+  ...+....+    ..+  ...+++++|.++|.+              ....|...|++++|...|.+
T Consensus         3 ~~~~~l~~aek--~~~~~~~~~----~~~~~~~~~~~~~Aa~~y~~--------------aa~~y~~~~~~~~A~~~y~k   62 (290)
T d1qqea_           3 DPVELLKRAEK--KGVPSSGFM----KLFSGSDSYKFEEAADLCVQ--------------AATIYRLRKELNLAGDSFLK   62 (290)
T ss_dssp             CHHHHHHHHHH--HSSCCCTHH----HHHSCCSHHHHHHHHHHHHH--------------HHHHHHHTTCTHHHHHHHHH
T ss_pred             CHHHHHHHHHH--hcCcchhHH----HHhcCCccccHHHHHHHHHH--------------HHHHHHHCcCHHHHHHHHHH
Confidence            45566666665  233333221    111  123356777766655              46678899999999999998


Q ss_pred             hhhcCC-----C-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCC-----CHHhHHHHHHHHHh-cCcHHHHHHHHH
Q 048394          310 LKSTFP-----P-TNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSY-----DMRLADVIIRAYLQ-KDMYEEAALIFN  377 (485)
Q Consensus       310 ~~~~~~-----~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~-~~~~~~A~~~~~  377 (485)
                      +.+...     + ...+|..+..+|.+.|++++|.+.++...+.....     ...++..+...|.. .|++++|...++
T Consensus        63 A~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~  142 (290)
T d1qqea_          63 AADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYE  142 (290)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHH
Confidence            766421     1 34678899999999999999999999876532211     14556667777754 699999999999


Q ss_pred             HHHhccccc-CC--chhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCC-Ccc-HHHHHHHHHHHhhcCChhhHHHHH
Q 048394          378 NAKKRANAS-AR--FFKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHW-RPM-QVTVDTFFRFFEEEKDVDGAEEFC  452 (485)
Q Consensus       378 ~~~~~~~~~-~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~-~~~~~~l~~~~~~~~~~~~A~~~~  452 (485)
                      +..+..... .|  ...++..+...|...|++++|+..|+++.......+. ... ...+...+..+...|+++.|...+
T Consensus       143 ~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~  222 (290)
T d1qqea_         143 LAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTL  222 (290)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHH
Confidence            886531100 11  1345777888999999999999999998886422111 111 123445556677889999999999


Q ss_pred             HHHhhcCCCCH-----HHHHHHHHHHHH--hCCCcchhc
Q 048394          453 KVLKSLNCLDF-----SAYSLLIKTYIA--AGKLASDMR  484 (485)
Q Consensus       453 ~~~~~~~~~~~-----~~~~~l~~~~~~--~g~~~~A~~  484 (485)
                      +++.+..|...     .....++.++..  .+++++|++
T Consensus       223 ~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~  261 (290)
T d1qqea_         223 QEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCK  261 (290)
T ss_dssp             HGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHH
T ss_pred             HHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            99999877422     344556666554  234555553

>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=98.84  E-value=2.5e-07  Score=73.79  Aligned_cols=136  Identities=15%  Similarity=0.086  Sum_probs=74.3

Q ss_pred             HHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCCh
Q 048394          221 MQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNL  300 (485)
Q Consensus       221 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  300 (485)
                      ...+...|+++.|++.|+.+     .+++..++..++.+|...|++++|+..|++..+..|.+...|..+..++.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i-----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccH
Confidence            33445566666666666543     2344555666666666666666666666666666666666666666666666666


Q ss_pred             hhHHHHHHHhhhcCCCCh-hhHHHHHHHHHhcCChhHHHHHHHHHHHccCCC-CHHhHHHHHHHHHhcCcHHHHHHHHHH
Q 048394          301 DAVNRVWGILKSTFPPTN-TSYLVLLQALAKLNAIDILKQCFEEWESRCSSY-DMRLADVIIRAYLQKDMYEEAALIFNN  378 (485)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~  378 (485)
                      ++|...|++.....+.+. ..|..+       |.              ...+ ...++..+..++.+.|++++|.+.+..
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~-------~~--------------~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~  145 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKIL-------GL--------------QFKLFACEVLYNIAFMYAKKEEWKKAEEQLAL  145 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGG-------TB--------------CCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHh-------hh--------------hcccchHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            666666666544332211 000000       00              0000 022344456667777777777777777


Q ss_pred             HHhc
Q 048394          379 AKKR  382 (485)
Q Consensus       379 ~~~~  382 (485)
                      ..+.
T Consensus       146 A~~~  149 (192)
T d1hh8a_         146 ATSM  149 (192)
T ss_dssp             HHTT
T ss_pred             HHhc
Confidence            6665

>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=98.81  E-value=2.1e-07  Score=74.33  Aligned_cols=143  Identities=14%  Similarity=0.045  Sum_probs=102.5

Q ss_pred             HHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHH
Q 048394          182 FNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYV  261 (485)
Q Consensus       182 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  261 (485)
                      |+. ...+...|++++|++.|.++    .+|+..+|..+..+|...|++++|++.|++..+  -.+.+...|..+..+|.
T Consensus         9 ~~~-g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~--ldp~~~~a~~~~g~~~~   81 (192)
T d1hh8a_           9 WNE-GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSIN--RDKHLAVAYFQRGMLYY   81 (192)
T ss_dssp             HHH-HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHH
T ss_pred             HHH-HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHH--HhhhhhhhHHHHHHHHH
Confidence            443 55678899999999999864    357788899999999999999999999999998  67888999999999999


Q ss_pred             hcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCC-ChhhHHHHHHHHHhcCChhHHHHH
Q 048394          262 KAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPP-TNTSYLVLLQALAKLNAIDILKQC  340 (485)
Q Consensus       262 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~  340 (485)
                      +.|++++|...|++.....+.+...      .+...|.             .... ...++..+..++.+.|++++|.+.
T Consensus        82 ~~g~~~~A~~~~~kAl~~~~~n~~~------~~~~~~~-------------~~~~~~~e~~~n~a~~~~~~~~~~~A~~~  142 (192)
T d1hh8a_          82 QTEKYDLAIKDLKEALIQLRGNQLI------DYKILGL-------------QFKLFACEVLYNIAFMYAKKEEWKKAEEQ  142 (192)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEE------ECGGGTB-------------CCEEEHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hhccHHHHHHHHHHHHHhCccCchH------HHHHhhh-------------hcccchHHHHHHHHHHHHHCCCHHHHHHH
Confidence            9999999999999987743322110      0000000             0000 123344556666677777777777


Q ss_pred             HHHHHHccCC
Q 048394          341 FEEWESRCSS  350 (485)
Q Consensus       341 ~~~~~~~~~~  350 (485)
                      +....+..+.
T Consensus       143 l~~A~~~~~~  152 (192)
T d1hh8a_         143 LALATSMKSE  152 (192)
T ss_dssp             HHHHHTTCCS
T ss_pred             HHHHHhcCCC
Confidence            7666655433

>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=98.75  E-value=3.7e-08  Score=79.76  Aligned_cols=100  Identities=8%  Similarity=-0.081  Sum_probs=66.7

Q ss_pred             CcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHH
Q 048394          248 CRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQA  327 (485)
Q Consensus       248 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  327 (485)
                      |+...+...+..|.+.|++++|+..|.++....|.++..|..+..+|.+.|++++|+..|+++.+..|.+..+|..+..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~   81 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   81 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHHH
Confidence            44555555666666667777777777666666666666666666677777777777777776666666666666666677


Q ss_pred             HHhcCChhHHHHHHHHHHHc
Q 048394          328 LAKLNAIDILKQCFEEWESR  347 (485)
Q Consensus       328 ~~~~~~~~~a~~~~~~~~~~  347 (485)
                      |...|++++|...|+++.+.
T Consensus        82 ~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          82 QLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHh
Confidence            77777777777666665543

>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=98.73  E-value=3.3e-08  Score=80.08  Aligned_cols=102  Identities=14%  Similarity=-0.024  Sum_probs=86.3

Q ss_pred             ccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHH
Q 048394          212 LDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLI  291 (485)
Q Consensus       212 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  291 (485)
                      |+...+......+.+.|++++|+..|+....  ..|.+...|..++.+|.+.|++++|+..|+++.+..|.+..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~--~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAIT--RNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHH
Confidence            6666677777888889999999999988887  56778888888899999999999999999998888888888899999


Q ss_pred             HHHHhcCChhhHHHHHHHhhhcCC
Q 048394          292 SLYCNTSNLDAVNRVWGILKSTFP  315 (485)
Q Consensus       292 ~~~~~~~~~~~a~~~~~~~~~~~~  315 (485)
                      .+|...|++++|...|+++....|
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p  103 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAK  103 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCc
Confidence            999999999999998888765443

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.73  E-value=3.8e-08  Score=71.74  Aligned_cols=112  Identities=11%  Similarity=0.009  Sum_probs=83.6

Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhc---ccHHHHHHHHHHHHHHhhhcCCCcc-HHHH
Q 048394          357 DVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRS---RQLDLALNEMEAALSEAKQFHWRPM-QVTV  432 (485)
Q Consensus       357 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~~~~~~~~~-~~~~  432 (485)
                      ..++..+...+++++|.+.|++....+   +.+..++..+..++.+.   +++++|+.++++++...    ..|+ ..++
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~---p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~----~~~~~~~~~   75 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG---SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG----SKEEQRDYV   75 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS---CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS----CHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC---CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcc----CCchHHHHH
Confidence            346677778888899999998888875   55667777777777653   45567888888887753    1222 2467


Q ss_pred             HHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHH
Q 048394          433 DTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIA  475 (485)
Q Consensus       433 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  475 (485)
                      ..+..+|.+.|++++|.+.|+++++..|.+..+......+..+
T Consensus        76 ~~Lg~~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I~~~  118 (122)
T d1nzna_          76 FYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLIDKA  118 (122)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHHHHHHH
Confidence            7788888899999999999999999888888877776655443

>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=98.71  E-value=2.1e-08  Score=93.46  Aligned_cols=140  Identities=7%  Similarity=-0.234  Sum_probs=78.8

Q ss_pred             CChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHH
Q 048394          332 NAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALN  411 (485)
Q Consensus       332 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  411 (485)
                      +.++.++..+....+..+ ++...+..+...+.+.|+.++|...+.......    | ..++..+...+...|++++|..
T Consensus       100 ~~Y~~ai~~l~~~~~l~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~----~-~~~~~~LG~l~~~~~~~~~A~~  173 (497)
T d1ya0a1         100 GFYTQLLQELCTVFNVDL-PCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI----C-QHCLVHLGDIARYRNQTSQAES  173 (497)
T ss_dssp             HHHHHHHHHHTC--------------------------------CCHHHHHH----H-HHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCh-hhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC----H-HHHHHHHHHHHHHcccHHHHHH
Confidence            334444444443333222 245556667777778888888887776665442    2 2456667777888888888888


Q ss_pred             HHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcch
Q 048394          412 EMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASD  482 (485)
Q Consensus       412 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  482 (485)
                      .|+++.+.     .+.+...|+.+...+...|+..+|...|.+.+...|+.+.++..|+..+.+..+..++
T Consensus       174 ~y~~A~~l-----~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~~~~~~~~~  239 (497)
T d1ya0a1         174 YYRHAAQL-----VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALSKALESRDE  239 (497)
T ss_dssp             HHHHHHHH-----CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHHHHTTSCCC
T ss_pred             HHHHHHHH-----CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhhhhhhh
Confidence            88888887     4556678888888888888888888888888888888888888888888777665544

>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=98.67  E-value=2.3e-07  Score=72.42  Aligned_cols=84  Identities=12%  Similarity=-0.038  Sum_probs=70.0

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHH
Q 048394          391 KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLI  470 (485)
Q Consensus       391 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  470 (485)
                      .+|+.+..+|.+.|++++|+..+++.+..     .+.+...+..+..++...|++++|...|+++.+.+|.++.+...+.
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~-----~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~  137 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALEL-----DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLA  137 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhc-----cccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            34666777888999999999999999987     4457888888889999999999999999999999999998888888


Q ss_pred             HHHHHhCCC
Q 048394          471 KTYIAAGKL  479 (485)
Q Consensus       471 ~~~~~~g~~  479 (485)
                      .+..+.+..
T Consensus       138 ~~~~~~~~~  146 (170)
T d1p5qa1         138 VCQQRIRRQ  146 (170)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            776655443

>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=6e-08  Score=69.80  Aligned_cols=85  Identities=12%  Similarity=-0.061  Sum_probs=69.8

Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHH
Q 048394          395 SFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYI  474 (485)
Q Consensus       395 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  474 (485)
                      .+...+.+.|++++|+..|++.+..     .+-+...|..+..++.+.|++++|+..++++++..|.++.+|..++.+|.
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~-----~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~   95 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQK-----EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHT   95 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH-----STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhccc-----ccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHH
Confidence            3455677888888888888888887     34467788888888888888888888888888888888888888888888


Q ss_pred             HhCCCcchhc
Q 048394          475 AAGKLASDMR  484 (485)
Q Consensus       475 ~~g~~~~A~~  484 (485)
                      ..|++++|++
T Consensus        96 ~~g~~~~A~~  105 (112)
T d1hxia_          96 NEHNANAALA  105 (112)
T ss_dssp             HHHHHHHHHH
T ss_pred             HCCCHHHHHH
Confidence            8888888864

>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=98.57  E-value=3.8e-07  Score=65.46  Aligned_cols=85  Identities=11%  Similarity=0.020  Sum_probs=36.9

Q ss_pred             HHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHH
Q 048394          258 SIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDIL  337 (485)
Q Consensus       258 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  337 (485)
                      ..+.+.|++++|...|+++....|.+..+|..+..++.+.|++++|...+++..+..|.+..++..+...|...|+.++|
T Consensus        24 ~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~~~~A  103 (112)
T d1hxia_          24 LSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANAA  103 (112)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCCHHHH
Confidence            33344444444444444444444444444444444444444444444444444444444444444444444444444444


Q ss_pred             HHHHH
Q 048394          338 KQCFE  342 (485)
Q Consensus       338 ~~~~~  342 (485)
                      .+.++
T Consensus       104 ~~~l~  108 (112)
T d1hxia_         104 LASLR  108 (112)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44443

>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=98.56  E-value=1.4e-06  Score=66.51  Aligned_cols=82  Identities=10%  Similarity=-0.093  Sum_probs=73.0

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHH
Q 048394          391 KSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLI  470 (485)
Q Consensus       391 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  470 (485)
                      .+|..+..+|.+.|++++|++.+++++..     .+.+...|..+..++...|++++|...|+++.+.+|.+..+...+.
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~-----~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~  142 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKI-----DKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYE  142 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccc-----cchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            45677888899999999999999999998     5567899999999999999999999999999999999999998888


Q ss_pred             HHHHHhC
Q 048394          471 KTYIAAG  477 (485)
Q Consensus       471 ~~~~~~g  477 (485)
                      .+..+.+
T Consensus       143 ~~~~kl~  149 (153)
T d2fbna1         143 LCVNKLK  149 (153)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7766543

>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=98.53  E-value=8.8e-05  Score=63.62  Aligned_cols=136  Identities=11%  Similarity=0.014  Sum_probs=83.5

Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHH
Q 048394           74 VRKDMLEYCVRSLRKFGRYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNC  153 (485)
Q Consensus        74 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~  153 (485)
                      |+......+...|.+.|.++.|..+|..+.         .|..++..+.+.++++.|.+++.+..    +..+|..+...
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~~----~~~~~k~~~~~   78 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKAN----STRTWKEVCFA   78 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHHT----CHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHcC----CHHHHHHHHHH
Confidence            555666667777888888888888887542         24567777788888888888877663    56788888888


Q ss_pred             HHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcC
Q 048394          154 YCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLN  228 (485)
Q Consensus       154 ~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  228 (485)
                      +.+......|     .+.......+......++..|-..|.+++...+++..... -..+...++.++..|++.+
T Consensus        79 l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          79 CVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC
T ss_pred             HHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC
Confidence            8877666543     2223333345555677888888888888888888876543 2456667778888887754

>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=98.53  E-value=7.5e-07  Score=69.45  Aligned_cols=89  Identities=12%  Similarity=-0.062  Sum_probs=76.9

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHH
Q 048394          390 FKSRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLL  469 (485)
Q Consensus       390 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  469 (485)
                      ...|..+..++.+.|++++|+..++++++.     .+.+...|..+..++...|++++|...|+++++..|.+..++..+
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~-----~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l  151 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEI-----DPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAEL  151 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTT-----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhh-----hhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            345667788899999999999999999987     456788999999999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCcchh
Q 048394          470 IKTYIAAGKLASDM  483 (485)
Q Consensus       470 ~~~~~~~g~~~~A~  483 (485)
                      ..+..+.....++.
T Consensus       152 ~~~~~~l~~~~~~~  165 (169)
T d1ihga1         152 LKVKQKIKAQKDKE  165 (169)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            98887766555443

>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=98.49  E-value=7e-05  Score=62.76  Aligned_cols=223  Identities=14%  Similarity=0.050  Sum_probs=103.0

Q ss_pred             HhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh----CCCcccHHHHHHHHHHcCCCccHHHHHH
Q 048394          144 RYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTMYLR----LGQPEKVRPLVNQMKQRNISLDNLTYIV  219 (485)
Q Consensus       144 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~  219 (485)
                      +..+..|...+.+.+++++|++.|++..+.|   |..++..|...|..    ..+...|...+......+.   ......
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~---~~a~~~   75 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY---SNGCHL   75 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc---cchhhc
Confidence            4455556666666677777777777776655   44455555555554    3455666666666655542   222222


Q ss_pred             HHHHHH----hcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHh----cccHHHHHHHHHHHHhcCCCChHHHHHHH
Q 048394          220 WMQSYS----HLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVK----AELFEKAELALKKLEEMKPRDRKAYHFLI  291 (485)
Q Consensus       220 l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  291 (485)
                      +...+.    ...+.+.|...++.... .+.. .  ....+...+..    ......+...+.....  +.+...+..+.
T Consensus        76 l~~~~~~~~~~~~~~~~a~~~~~~a~~-~g~~-~--a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~L~  149 (265)
T d1ouva_          76 LGNLYYSGQGVSQNTNKALQYYSKACD-LKYA-E--GCASLGGIYHDGKVVTRDFKKAVEYFTKACD--LNDGDGCTILG  149 (265)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHH-TTCH-H--HHHHHHHHHHHCSSSCCCHHHHHHHHHHHHH--TTCHHHHHHHH
T ss_pred             cccccccccccchhhHHHHHHHhhhhh-hhhh-h--HHHhhcccccCCCcccchhHHHHHHhhhhhc--ccccchhhhhh
Confidence            222222    23455666666666555 2221 1  11112222222    2234444444444322  23344555555


Q ss_pred             HHHHh----cCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHh----cCChhHHHHHHHHHHHccCCCCHHhHHHHHHHH
Q 048394          292 SLYCN----TSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAK----LNAIDILKQCFEEWESRCSSYDMRLADVIIRAY  363 (485)
Q Consensus       292 ~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  363 (485)
                      ..+..    ..+...+...++...+.+  +..+...+...+..    ..+.+.|...|....+.|   ++..+..|...|
T Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~a~~~g--~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y  224 (265)
T d1ouva_         150 SLYDAGRGTPKDLKKALASYDKACDLK--DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQ  224 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             hhhccCCCcccccccchhhhhcccccc--ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHH
Confidence            55543    223333444444333222  23333334333333    334555555555555443   233333444444


Q ss_pred             Hh----cCcHHHHHHHHHHHHhcc
Q 048394          364 LQ----KDMYEEAALIFNNAKKRA  383 (485)
Q Consensus       364 ~~----~~~~~~A~~~~~~~~~~~  383 (485)
                      ..    ..+.++|.+.|++..+.|
T Consensus       225 ~~G~g~~~n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         225 YNGEGVTRNEKQAIENFKKGCKLG  248 (265)
T ss_dssp             HTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HcCCCCccCHHHHHHHHHHHHHCc
Confidence            43    224555555555554444

>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=98.46  E-value=6.2e-06  Score=64.01  Aligned_cols=73  Identities=15%  Similarity=0.119  Sum_probs=41.3

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHH
Q 048394          252 TYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVL  324 (485)
Q Consensus       252 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l  324 (485)
                      +|+.+..+|.+.|++++|+..++......|.++.+|..+..+|...|++++|...|+.+.+..|.+......+
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l  136 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQL  136 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            3444555555666666666666665555555556666666666666666666666666555555544444333

>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=98.46  E-value=0.00011  Score=61.41  Aligned_cols=59  Identities=7%  Similarity=0.117  Sum_probs=29.8

Q ss_pred             hHHHHHHHHHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHh----cCCHhHHHHHHHHHHh
Q 048394          181 AFNNLSTMYLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSH----LNDIDGVERVFYEMCN  242 (485)
Q Consensus       181 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~  242 (485)
                      .+..|...+.+.+++++|++.|++..+.|   +...+..|...|..    ..+...|...++....
T Consensus         4 ~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~   66 (265)
T d1ouva_           4 ELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACD   66 (265)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccc
Confidence            44445555555566666666666665544   33333334444433    3455555555555444

>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=98.44  E-value=2.4e-06  Score=61.91  Aligned_cols=94  Identities=9%  Similarity=-0.100  Sum_probs=62.5

Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCCh---hhHHHHHHHhhhcCCCC--hhhHHHHHHHHH
Q 048394          255 NLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNL---DAVNRVWGILKSTFPPT--NTSYLVLLQALA  329 (485)
Q Consensus       255 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~--~~~~~~l~~~~~  329 (485)
                      .+++.+...+++++|.+.|++.....|.++.++..+..++.+.++.   ++|+.+++++....+.+  ..++..+..+|.
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            3566666777777777777777777777777777777777654443   35677777766655442  335666677777


Q ss_pred             hcCChhHHHHHHHHHHHcc
Q 048394          330 KLNAIDILKQCFEEWESRC  348 (485)
Q Consensus       330 ~~~~~~~a~~~~~~~~~~~  348 (485)
                      +.|++++|.+.|+++.+..
T Consensus        84 ~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          84 RLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             HTTCHHHHHHHHHHHHHHC
T ss_pred             HHhhhHHHHHHHHHHHHhC
Confidence            7777777777777776654

>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=98.43  E-value=1.5e-06  Score=67.47  Aligned_cols=83  Identities=12%  Similarity=-0.025  Sum_probs=62.7

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHH
Q 048394          392 SRESFMIYYLRSRQLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIK  471 (485)
Q Consensus       392 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  471 (485)
                      .|..+..+|.+.|++++|+..+++.+..     .+.+...|..+..++...|++++|...|+++++.+|.++.++..+..
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l-----~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~  140 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGL-----DSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFM  140 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhc-----ccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            3455666777888888888888888876     45667777888888888888888888888888888888887777777


Q ss_pred             HHHHhCCC
Q 048394          472 TYIAAGKL  479 (485)
Q Consensus       472 ~~~~~g~~  479 (485)
                      +..+.+..
T Consensus       141 ~~~~~~~~  148 (168)
T d1kt1a1         141 CQKKAKEH  148 (168)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhH
Confidence            66555443

>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=98.41  E-value=0.00042  Score=59.26  Aligned_cols=176  Identities=12%  Similarity=0.062  Sum_probs=110.6

Q ss_pred             CChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 048394          109 FSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCKELMTERALALFEKMDELKFLGNTVAFNNLSTM  188 (485)
Q Consensus       109 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~  188 (485)
                      |+...-..+...|.+.|.++.|..+|..+..       |..++..+.+.++++.|.+++.+..      +..+|..+...
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d-------~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~~   78 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN-------FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFA   78 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC-------HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC-------HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHHH
Confidence            5555556678888899999999999998875       6778888899999999999887542      45688888888


Q ss_pred             HHhCCCcccHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHH
Q 048394          189 YLRLGQPEKVRPLVNQMKQRNISLDNLTYIVWMQSYSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEK  268 (485)
Q Consensus       189 ~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  268 (485)
                      +.+.....-+     .+.......+......++..|-..|.+++...+++....  ....+...++.++..|++.+. ++
T Consensus        79 l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~--~~~~~~~~~~~L~~lyak~~~-~k  150 (336)
T d1b89a_          79 CVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALG--LERAHMGMFTELAILYSKFKP-QK  150 (336)
T ss_dssp             HHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--STTCCHHHHHHHHHHHHTTCH-HH
T ss_pred             HHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHc--CCccchHHHHHHHHHHHHhCh-HH
Confidence            8877654332     222333444556667889999999999999999998875  466778888899999988653 44


Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHh
Q 048394          269 AELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGIL  310 (485)
Q Consensus       269 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  310 (485)
                      -.+.++...  .   ..-...++..|...+-+.++.-++.++
T Consensus       151 l~e~l~~~s--~---~y~~~k~~~~c~~~~l~~elv~Ly~~~  187 (336)
T d1b89a_         151 MREHLELFW--S---RVNIPKVLRAAEQAHLWAELVFLYDKY  187 (336)
T ss_dssp             HHHHHHHHS--T---TSCHHHHHHHHHTTTCHHHHHHHHHHT
T ss_pred             HHHHHHhcc--c---cCCHHHHHHHHHHcCChHHHHHHHHhc
Confidence            444444321  1   122233445555555555555554443

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.35  E-value=9.5e-07  Score=66.61  Aligned_cols=114  Identities=15%  Similarity=-0.027  Sum_probs=82.5

Q ss_pred             HhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHh----------cccHHHHHHHHHHHHHHhhhcCCCccHHHHH
Q 048394          364 LQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLR----------SRQLDLALNEMEAALSEAKQFHWRPMQVTVD  433 (485)
Q Consensus       364 ~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----------~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  433 (485)
                      -+.+.+++|...|+...+..   +.+...+..+..+|..          .+.+++|+..|+++++.     .+.+..+|.
T Consensus         8 ~r~~~fe~A~~~~e~al~~~---P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l-----~P~~~~a~~   79 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYKSN---PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI-----DPKKDEAVW   79 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH-----CTTCHHHHH
T ss_pred             HHHccHHHHHHHHHHHHhhC---CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHh-----cchhhHHHh
Confidence            34556777777777777664   3444555555555543          34567888999998887     455677888


Q ss_pred             HHHHHHhhcC-----------ChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhcC
Q 048394          434 TFFRFFEEEK-----------DVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMRQ  485 (485)
Q Consensus       434 ~l~~~~~~~~-----------~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  485 (485)
                      .+..+|...|           +++.|.+.|+++++..|.+...+..|.......+.+.++.||
T Consensus        80 ~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~~ka~~~~~e~~k~  142 (145)
T d1zu2a1          80 CIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTAKAPQLHAEAYKQ  142 (145)
T ss_dssp             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHTHHHHHHHHHHS
T ss_pred             hHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888776654           368899999999999999999999988887777776666654

>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=98.34  E-value=5.3e-07  Score=83.75  Aligned_cols=224  Identities=6%  Similarity=-0.105  Sum_probs=88.0

Q ss_pred             HHHHHHHhhcccCCC-HhHHHHHHHHHHhcCcHHHHHHHHHHHHhCCCCCCh-hhHHHHHHHHHhCCCcccHHHHHHHHH
Q 048394          129 AAEKYFNGLSEYAKN-RYTYGALLNCYCKELMTERALALFEKMDELKFLGNT-VAFNNLSTMYLRLGQPEKVRPLVNQMK  206 (485)
Q Consensus       129 ~a~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~  206 (485)
                      +|.++|++..+..|| ...+..+..++...|++++|   ++++...+  |+. ..++..-. +. ...+..+.+.++...
T Consensus         4 eA~q~~~qA~~l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~d--p~~a~~~~~e~~-Lw-~~~y~~~ie~~r~~~   76 (497)
T d1ya0a1           4 QSAQYLRQAEVLKADMTDSKLGPAEVWTSRQALQDL---YQKMLVTD--LEYALDKKVEQD-LW-NHAFKNQITTLQGQA   76 (497)
T ss_dssp             HHHHHHHHHHHHHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHC--HHHHHHHTHHHH-HH-HHHTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcC--hhhHHHHhHHHH-HH-HHHHHHHHHHHHHhc
Confidence            466666666664444 34555666666666666655   55554432  211 11111100 00 111334444455444


Q ss_pred             HcCCCccHHHHHHHHHH--HHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCh
Q 048394          207 QRNISLDNLTYIVWMQS--YSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDR  284 (485)
Q Consensus       207 ~~~~~p~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~  284 (485)
                      +....++..-.......  +...+.++.++..+....+  ..+++...+..+...+.+.|+.+.|...+.......+  .
T Consensus        77 k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~--l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~--~  152 (497)
T d1ya0a1          77 KNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFN--VDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYIC--Q  152 (497)
T ss_dssp             SCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC---------------------------------CCHHHHHHH--H
T ss_pred             ccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCH--H
Confidence            43222222211111111  1122333334333333322  2233444445555555555555555555544433222  2


Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHH
Q 048394          285 KAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYL  364 (485)
Q Consensus       285 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  364 (485)
                      .++..+...+...|++++|...|.+.....|.+...|+.+...+...|+..+|...|.+.....+ |...++..|...+.
T Consensus       153 ~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~-~~~~a~~nL~~~~~  231 (497)
T d1ya0a1         153 HCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKF-PFPAASTNLQKALS  231 (497)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSB-CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCC-CCHHHHHHHHHHHH
Confidence            34445555555555666666666555555555555555555555555555555555555554432 24444444544443

>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=98.27  E-value=5.4e-06  Score=60.87  Aligned_cols=93  Identities=11%  Similarity=0.077  Sum_probs=58.2

Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCCh-------hhHHHHHHH
Q 048394          255 NLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTN-------TSYLVLLQA  327 (485)
Q Consensus       255 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------~~~~~l~~~  327 (485)
                      .++..+.+.|++++|+..|.+..+..|.+..++..+..+|.+.|++++|...++++.+..+.+.       .+|..+...
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~   88 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNS   88 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHH
Confidence            4566666667777777777776666666666677777777777777777777666655433321       244445555


Q ss_pred             HHhcCChhHHHHHHHHHHHc
Q 048394          328 LAKLNAIDILKQCFEEWESR  347 (485)
Q Consensus       328 ~~~~~~~~~a~~~~~~~~~~  347 (485)
                      +...+++++|.+.|......
T Consensus        89 ~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHhc
Confidence            56666666666666665544

>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=98.25  E-value=3.3e-05  Score=59.59  Aligned_cols=76  Identities=14%  Similarity=0.139  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHH
Q 048394          252 TYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQA  327 (485)
Q Consensus       252 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  327 (485)
                      .|..+..+|.+.|++++|+..++......|.+..+|..+..++...|++++|...|.++....|.+......+...
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~  141 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMC  141 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            3444556666666666666666666666666666666666666666666666666666666555555444444333

>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=98.23  E-value=2e-05  Score=59.74  Aligned_cols=72  Identities=19%  Similarity=0.006  Sum_probs=44.1

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHH
Q 048394          252 TYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLV  323 (485)
Q Consensus       252 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  323 (485)
                      +|..++.+|.+.|++++|+..+..+....|.+..+|..+..++...|++++|...|++..+..|.+..+...
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~  140 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNS  140 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            445566666666666666666666666666666666666666666666666666666666665554444433

>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=98.23  E-value=1.5e-05  Score=58.35  Aligned_cols=93  Identities=12%  Similarity=0.076  Sum_probs=45.5

Q ss_pred             HHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHccCCC-C-----HHhHHHHHHH
Q 048394          289 FLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEWESRCSSY-D-----MRLADVIIRA  362 (485)
Q Consensus       289 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~-----~~~~~~l~~~  362 (485)
                      .+...+...|++++|+..|.+..+..|.+...+..+..+|.+.|++++|.+.++.+.+..+.. .     ..+|..+...
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~   88 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNS   88 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHH
Confidence            344455555555555555555555555555555555555555555555555555544422110 0     1233344444


Q ss_pred             HHhcCcHHHHHHHHHHHHh
Q 048394          363 YLQKDMYEEAALIFNNAKK  381 (485)
Q Consensus       363 ~~~~~~~~~A~~~~~~~~~  381 (485)
                      +...+++++|...|++...
T Consensus        89 ~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHh
Confidence            4444555555555544443

>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=98.23  E-value=1.2e-05  Score=62.22  Aligned_cols=74  Identities=14%  Similarity=0.035  Sum_probs=40.3

Q ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHH
Q 048394          251 TTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVL  324 (485)
Q Consensus       251 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l  324 (485)
                      ..+..+..+|.+.|++++|+..+.++.+..|.+..+|..+..++...|++++|...|+++.+..|.+......+
T Consensus        78 ~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l  151 (169)
T d1ihga1          78 SCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAEL  151 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            34444555555555555555555555555555555555555555555555555555555555555444444333

>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=98.09  E-value=3.3e-05  Score=52.89  Aligned_cols=83  Identities=16%  Similarity=-0.084  Sum_probs=66.5

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHHhhhc--CCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHH
Q 048394          392 SRESFMIYYLRSRQLDLALNEMEAALSEAKQF--HWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLL  469 (485)
Q Consensus       392 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  469 (485)
                      .+-.+...+.+.|++++|+.+|++.++.....  .......++..+..++.+.|++++|...++++++..|.++.++..+
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl   86 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNL   86 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHH
Confidence            34467778899999999999999998764321  1112356888999999999999999999999999999999999888


Q ss_pred             HHHHH
Q 048394          470 IKTYI  474 (485)
Q Consensus       470 ~~~~~  474 (485)
                      .....
T Consensus        87 ~~~~~   91 (95)
T d1tjca_          87 KYFEY   91 (95)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            66543

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.02  E-value=3.2e-05  Score=57.92  Aligned_cols=71  Identities=6%  Similarity=0.115  Sum_probs=40.1

Q ss_pred             hcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhc----------ccHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Q 048394          226 HLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKA----------ELFEKAELALKKLEEMKPRDRKAYHFLISLYC  295 (485)
Q Consensus       226 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  295 (485)
                      +.+.+++|.+.|+...+  ..|.+..++..+..++...          +.+++|+..|+++.+..|.+..+|..+..+|.
T Consensus         9 r~~~fe~A~~~~e~al~--~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~   86 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYK--SNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHh--hCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHHHH
Confidence            34445666666666655  4555555555555555432          33455666666666666666666666666555


Q ss_pred             hcC
Q 048394          296 NTS  298 (485)
Q Consensus       296 ~~~  298 (485)
                      ..|
T Consensus        87 ~~g   89 (145)
T d1zu2a1          87 SFA   89 (145)
T ss_dssp             HHH
T ss_pred             Hcc
Confidence            443

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.98  E-value=0.00011  Score=57.11  Aligned_cols=59  Identities=12%  Similarity=-0.045  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 048394          286 AYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQCFEEW  344 (485)
Q Consensus       286 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  344 (485)
                      .+..++.++...|++++|...++++....|.+...|..++.++...|+.++|++.|+++
T Consensus        69 a~~~la~~~~~~g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~  127 (179)
T d2ff4a2          69 AHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRV  127 (179)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            34444555555555555555555555555555555555555555555555555555544

>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=97.94  E-value=6.3e-06  Score=68.73  Aligned_cols=59  Identities=15%  Similarity=0.169  Sum_probs=29.0

Q ss_pred             cccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhHHHHHHHhhhcCCCChhhH
Q 048394          263 AELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAVNRVWGILKSTFPPTNTSY  321 (485)
Q Consensus       263 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  321 (485)
                      .|++++|+..+++..+..|.+...+..++..++..|++++|...++...+..|.+...+
T Consensus         9 ~G~l~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~   67 (264)
T d1zbpa1           9 EGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGA   67 (264)
T ss_dssp             TTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHH
T ss_pred             CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHH
Confidence            44555555555555554444555555555555555555555555555444444433333

>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=97.91  E-value=2.1e-05  Score=65.47  Aligned_cols=123  Identities=11%  Similarity=-0.033  Sum_probs=79.4

Q ss_pred             HHhcCCHhHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcCChhhH
Q 048394          224 YSHLNDIDGVERVFYEMCNECEDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFLISLYCNTSNLDAV  303 (485)
Q Consensus       224 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  303 (485)
                      ..+.|++++|+..+++..+  ..|.+...+..++..|+..|++++|...++...+..|.+...+..+...+...+..+++
T Consensus         6 aL~~G~l~eAl~~l~~al~--~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIK--ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHH--TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHH
Confidence            3466888888888888887  67777888888888888888888888888888887776677766666655444433332


Q ss_pred             HHHHHHhhhcCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHcc
Q 048394          304 NRVWGILKSTFPP-TNTSYLVLLQALAKLNAIDILKQCFEEWESRC  348 (485)
Q Consensus       304 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  348 (485)
                      ..-.......+.+ +...+......+...|+.++|.+.+.++.+..
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  129 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            2221111111122 23333444555666777777777777766653

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.77  E-value=0.0015  Score=50.27  Aligned_cols=75  Identities=8%  Similarity=-0.079  Sum_probs=49.9

Q ss_pred             HhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHhh-hcCCCccHHH
Q 048394          354 RLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEAK-QFHWRPMQVT  431 (485)
Q Consensus       354 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~  431 (485)
                      ..+..+...+...|++++|...++++.+..   +-+...|..++.+|.+.|+..+|++.|+++...-. +.++.|+..+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~---P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH---PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS---TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC---CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            445567777777777777777777777764   44666677777777777777777777777644210 1126666554

>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=0.0004  Score=52.50  Aligned_cols=105  Identities=14%  Similarity=-0.029  Sum_probs=76.0

Q ss_pred             hHHHH--HHHHHhcCcHHHHHHHHHHHHhcccccCCc----------hhHHHHHHHHHHhcccHHHHHHHHHHHHHHhhh
Q 048394          355 LADVI--IRAYLQKDMYEEAALIFNNAKKRANASARF----------FKSRESFMIYYLRSRQLDLALNEMEAALSEAKQ  422 (485)
Q Consensus       355 ~~~~l--~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  422 (485)
                      +|..+  ...+...|++++|+..|++.++.... .|+          ...|+.+..+|.+.|++++|+..+++.+.....
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~-~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~   87 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHT-MPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   87 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTT-SCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChh-hhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccc
Confidence            44444  44566778999999999988864210 121          356788889999999999999999998875321


Q ss_pred             c-CCCc-----cHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCC
Q 048394          423 F-HWRP-----MQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNC  460 (485)
Q Consensus       423 ~-~~~~-----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  460 (485)
                      . ...+     ....+..+..+|...|++++|...|+++.++.|
T Consensus        88 ~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~  131 (156)
T d2hr2a1          88 RGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIE  131 (156)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             cccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence            1 1111     123567778999999999999999999988654

>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=97.46  E-value=0.00067  Score=46.07  Aligned_cols=75  Identities=17%  Similarity=0.057  Sum_probs=47.8

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHHHhcc-----CCCCcHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCChHHHHHH
Q 048394          216 TYIVWMQSYSHLNDIDGVERVFYEMCNEC-----EDKCRWTTYSNLASIYVKAELFEKAELALKKLEEMKPRDRKAYHFL  290 (485)
Q Consensus       216 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  290 (485)
                      .+-.+...+.+.|++++|+..|++..+..     .......++..+..+|.+.|++++|...++++.+..|.+..+++.+
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl   86 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNL   86 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHH
Confidence            34456666677777777777777665411     1111245666777777777777777777777777777666666554

>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=97.38  E-value=0.0006  Score=51.46  Aligned_cols=56  Identities=11%  Similarity=-0.060  Sum_probs=28.0

Q ss_pred             HHHhcCCHhHHHHHHHHHHhccCCCCc----------HHHHHHHHHHHHhcccHHHHHHHHHHHHh
Q 048394          223 SYSHLNDIDGVERVFYEMCNECEDKCR----------WTTYSNLASIYVKAELFEKAELALKKLEE  278 (485)
Q Consensus       223 ~~~~~~~~~~a~~~~~~~~~~~~~~~~----------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  278 (485)
                      .+.+.|++++|++.|++..+-....|+          ...|+.+..+|...|++++|...+++...
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~   83 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALH   83 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhh
Confidence            344556666666666655542111111          23455555555555555555555555443

>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=96.03  E-value=0.13  Score=35.72  Aligned_cols=78  Identities=10%  Similarity=0.002  Sum_probs=54.4

Q ss_pred             CCchhHHHHHHHHHHh---cccHHHHHHHHHHHHHHhhhcCCCccH-HHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCC
Q 048394          387 ARFFKSRESFMIYYLR---SRQLDLALNEMEAALSEAKQFHWRPMQ-VTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLD  462 (485)
Q Consensus       387 ~p~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  462 (485)
                      .|...+--....++++   ..+.++++.+++++...+     +.+. ..+-.+.-+|.+.|+++.|.+.++.+++..|.+
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-----p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n  106 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-----ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNN  106 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-----GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTC
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-----chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCc
Confidence            3444443344445554   356778899998888763     2333 566667778889999999999999999999988


Q ss_pred             HHHHHHH
Q 048394          463 FSAYSLL  469 (485)
Q Consensus       463 ~~~~~~l  469 (485)
                      ..+....
T Consensus       107 ~qA~~L~  113 (124)
T d2pqrb1         107 KQVGALK  113 (124)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7765543

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.84  E-value=0.14  Score=36.39  Aligned_cols=112  Identities=10%  Similarity=-0.122  Sum_probs=63.3

Q ss_pred             ChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHh----cccHHH
Q 048394          333 AIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLR----SRQLDL  408 (485)
Q Consensus       333 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~  408 (485)
                      |.++|.+.|++..+.|.   ......|.  .....+.++|..++++..+.|.   |  .....|...|..    ..+.++
T Consensus         8 d~~~A~~~~~kaa~~g~---~~a~~~l~--~~~~~~~~~a~~~~~~aa~~g~---~--~a~~~Lg~~y~~g~~~~~d~~~   77 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE---MFGCLSLV--SNSQINKQKLFQYLSKACELNS---G--NGCRFLGDFYENGKYVKKDLRK   77 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC---TTHHHHHH--TCTTSCHHHHHHHHHHHHHTTC---H--HHHHHHHHHHHHCSSSCCCHHH
T ss_pred             CHHHHHHHHHHHHHCCC---hhhhhhhc--cccccCHHHHHHHHhhhhcccc---h--hhhhhHHHhhhhccccchhhHH
Confidence            45666666666665542   12222222  2234567777777777776652   2  233344444443    456778


Q ss_pred             HHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhh----cCChhhHHHHHHHHhhcCCC
Q 048394          409 ALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEE----EKDVDGAEEFCKVLKSLNCL  461 (485)
Q Consensus       409 A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~  461 (485)
                      |.++|++..+.+       ++.....|...|..    ..|.++|.++|++..+.+.+
T Consensus        78 A~~~~~~aa~~g-------~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~~  127 (133)
T d1klxa_          78 AAQYYSKACGLN-------DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  127 (133)
T ss_dssp             HHHHHHHHHHTT-------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhhhhccC-------cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCCH
Confidence            888888877764       22333344444433    45777888888887776543

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.72  E-value=0.12  Score=36.78  Aligned_cols=110  Identities=8%  Similarity=-0.013  Sum_probs=47.5

Q ss_pred             ChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhhCCHHHHHHHHHhhcccCCCHhHHHHHHHHHHh----cCcHHHHHHH
Q 048394           91 RYRHALEVIEWMESRKMHFSYTDFAVYLDLTAKTNGIAAAEKYFNGLSEYAKNRYTYGALLNCYCK----ELMTERALAL  166 (485)
Q Consensus        91 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~  166 (485)
                      ++++|++.|++..+.|.   ...+..+..  ....+.++|.+++++..+. -+...+..|...|..    ..+.++|.++
T Consensus         8 d~~~A~~~~~kaa~~g~---~~a~~~l~~--~~~~~~~~a~~~~~~aa~~-g~~~a~~~Lg~~y~~g~~~~~d~~~A~~~   81 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE---MFGCLSLVS--NSQINKQKLFQYLSKACEL-NSGNGCRFLGDFYENGKYVKKDLRKAAQY   81 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC---TTHHHHHHT--CTTSCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHCSSSCCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCC---hhhhhhhcc--ccccCHHHHHHHHhhhhcc-cchhhhhhHHHhhhhccccchhhHHHHHH
Confidence            45666666666655552   122222211  1233455555555554431 233333333333332    2344555555


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHh----CCCcccHHHHHHHHHHcC
Q 048394          167 FEKMDELKFLGNTVAFNNLSTMYLR----LGQPEKVRPLVNQMKQRN  209 (485)
Q Consensus       167 ~~~m~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~  209 (485)
                      |++..+.|   ++.....|...|..    ..+.++|.++|+...+.|
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            55555544   22333333333333    234444555554444443

>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=95.54  E-value=0.2  Score=34.43  Aligned_cols=57  Identities=16%  Similarity=0.067  Sum_probs=23.3

Q ss_pred             HHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcc
Q 048394          326 QALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRA  383 (485)
Q Consensus       326 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  383 (485)
                      +.+...|+-++-.++++.+.+. -+|++...-.+..+|.+.|...++.+++.+.-+.|
T Consensus        94 d~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          94 DILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             HHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence            3333444444444444443332 22333444444444444444444444444444443

>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=94.86  E-value=0.35  Score=33.26  Aligned_cols=65  Identities=8%  Similarity=-0.122  Sum_probs=43.9

Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHHh
Q 048394          353 MRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSEA  420 (485)
Q Consensus       353 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  420 (485)
                      ...++..++.+..+|+-+.-.+++..+.+.+   .|++...-.+..+|.+.|...++-+++.++.+.|
T Consensus        86 se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~---~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          86 NEHVNKALDILVIQGKRDKLEEIGREILKNN---EVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHC--C---CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC---CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence            3344555666677777777777777765544   5666666677777778888778777777777765

>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=94.63  E-value=0.25  Score=34.20  Aligned_cols=29  Identities=10%  Similarity=-0.043  Sum_probs=12.3

Q ss_pred             HHHHHHHHhcCChhhHHHHHHHhhhcCCC
Q 048394          288 HFLISLYCNTSNLDAVNRVWGILKSTFPP  316 (485)
Q Consensus       288 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  316 (485)
                      ..+.-+|.+.|++++|...++.+.+..|.
T Consensus        77 Y~Lav~yyklgdy~~A~~~~~~~L~ieP~  105 (124)
T d2pqrb1          77 YYLTIGCYKLGEYSMAKRYVDTLFEHERN  105 (124)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHccCCC
Confidence            33334444444444444444444444333

>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=94.61  E-value=1.3  Score=38.87  Aligned_cols=199  Identities=9%  Similarity=-0.114  Sum_probs=103.4

Q ss_pred             ccHHHHHHHHHHHHhcCCCChHHHHHHHHHH----HhcCChhhHHHHHHHhhhcCCCChhhHHHHHHHHHhcCChhHHHH
Q 048394          264 ELFEKAELALKKLEEMKPRDRKAYHFLISLY----CNTSNLDAVNRVWGILKSTFPPTNTSYLVLLQALAKLNAIDILKQ  339 (485)
Q Consensus       264 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  339 (485)
                      .+.+.|...+.......+.+...+..+-...    ...+..+.+...+......... .......+......+++..+..
T Consensus       228 ~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~w~~~~al~~~~~~~~~~  306 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQS-TSLIERRVRMALGTGDRRGLNT  306 (450)
T ss_dssp             HCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCC-HHHHHHHHHHHHHHTCHHHHHH
T ss_pred             cChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccc-hHHHHHHHHHHHHcCChHHHHH
Confidence            4667777777776653333333333322222    2344556666666555443332 3333334444556677777777


Q ss_pred             HHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          340 CFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       340 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      .+..+...... ...-.--+.+++...|+.++|...|..+..     .++  -|..|. + .+.|..-.   +     ..
T Consensus       307 ~~~~l~~~~~~-~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~-----~~~--fYG~LA-a-~~Lg~~~~---~-----~~  368 (450)
T d1qsaa1         307 WLARLPMEAKE-KDEWRYWQADLLLERGREAEAKEILHQLMQ-----QRG--FYPMVA-A-QRIGEEYE---L-----KI  368 (450)
T ss_dssp             HHHHSCTTGGG-SHHHHHHHHHHHHHTTCHHHHHHHHHHHHT-----SCS--HHHHHH-H-HHTTCCCC---C-----CC
T ss_pred             HHHhcCccccc-HHHHHHHHHHHHHHcCChhhHHHHHHHHhc-----CCC--hHHHHH-H-HHcCCCCC---C-----Cc
Confidence            77666432221 223223366777777787777777777653     222  232221 1 11221000   0     00


Q ss_pred             hhhcCCCccHH----HHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHHHHHHhCCCcchhc
Q 048394          420 AKQFHWRPMQV----TVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIKTYIAAGKLASDMR  484 (485)
Q Consensus       420 ~~~~~~~~~~~----~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  484 (485)
                      . ..+..+...    .-..-+..+...|....|.+.+..+...  .++.-...++....+.|.++.||.
T Consensus       369 ~-~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~--~~~~~~~~la~lA~~~g~~~~aI~  434 (450)
T d1qsaa1         369 D-KAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKS--KSKTEQAQLARYAFNNQWWDLSVQ  434 (450)
T ss_dssp             C-CCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             C-CCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhC--CCHHHHHHHHHHHHHCCChhHHHH
Confidence            0 000001100    0112245567789999999988887753  356677788888888888887763

>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=94.22  E-value=1.6  Score=38.28  Aligned_cols=115  Identities=10%  Similarity=-0.056  Sum_probs=57.3

Q ss_pred             CChhhHHHHHHHhhhcCCCChhhHHHHH----HHHHhcCChhHHHHHHHHHHHccCCCCHHhHHHHHHHHHhcCcHHHHH
Q 048394          298 SNLDAVNRVWGILKSTFPPTNTSYLVLL----QALAKLNAIDILKQCFEEWESRCSSYDMRLADVIIRAYLQKDMYEEAA  373 (485)
Q Consensus       298 ~~~~~a~~~~~~~~~~~~~~~~~~~~l~----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  373 (485)
                      .+.+.+...+.........+......+-    ......+..+.+...+......+.  +.....-.+......+++..+.
T Consensus       228 ~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~w~~~~al~~~~~~~~~  305 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQ--STSLIERRVRMALGTGDRRGLN  305 (450)
T ss_dssp             HCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCC--CHHHHHHHHHHHHHHTCHHHHH
T ss_pred             cChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhccccc--chHHHHHHHHHHHHcCChHHHH
Confidence            4566666666666554443222222222    222234455566666655544432  3333333444445556777777


Q ss_pred             HHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHH
Q 048394          374 LIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAAL  417 (485)
Q Consensus       374 ~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  417 (485)
                      ..+..+.....  . ...-.--+..++...|+.++|...|..+.
T Consensus       306 ~~~~~l~~~~~--~-~~r~~YW~gRa~~~~G~~~~A~~~~~~~a  346 (450)
T d1qsaa1         306 TWLARLPMEAK--E-KDEWRYWQADLLLERGREAEAKEILHQLM  346 (450)
T ss_dssp             HHHHHSCTTGG--G-SHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhcCcccc--c-HHHHHHHHHHHHHHcCChhhHHHHHHHHh
Confidence            66665543211  1 11222245566667777777777777654

>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=93.63  E-value=0.29  Score=31.78  Aligned_cols=63  Identities=16%  Similarity=0.117  Sum_probs=47.9

Q ss_pred             cHHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHhhcCChhhHHHHHHHHhhcCCCCHHHHHHHHH
Q 048394          405 QLDLALNEMEAALSEAKQFHWRPMQVTVDTFFRFFEEEKDVDGAEEFCKVLKSLNCLDFSAYSLLIK  471 (485)
Q Consensus       405 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  471 (485)
                      +.-+..+-++.+....    ..|++.+..+.+++|.+.+|+..|.++++.+......+...|..+++
T Consensus        21 D~we~rrgmN~l~~~D----lVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYD----LVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSS----BCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccc----cCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            4445566666666655    88999999999999999999999999999988765444555555443

>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=86.21  E-value=2.9  Score=27.00  Aligned_cols=49  Identities=12%  Similarity=-0.103  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHHhcccccCCchhHHHHHHHHHHhcccHHHHHHHHHHHHHH
Q 048394          369 YEEAALIFNNAKKRANASARFFKSRESFMIYYLRSRQLDLALNEMEAALSE  419 (485)
Q Consensus       369 ~~~A~~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  419 (485)
                      .-++.+-+..+...+.  .|++......+.+|.+.+++.-|+++++....+
T Consensus        22 ~we~rrgmN~l~~~Dl--VPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K   70 (105)
T d1v54e_          22 AWELRKGMNTLVGYDL--VPEPKIIDAALRACRRLNDFASAVRILEVVKDK   70 (105)
T ss_dssp             HHHHHHHHHHHTTSSB--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccc--CCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            3344444555555555  566666666666666666666666666655554